travis_fold:start:worker_info Worker information hostname: c3451d2c-bfc2-4b0c-b35e-a68814a45080@1.worker-com-oss-6955bf87c5-2lp2w.gce-production-3 version: 6.2.22 https://github.com/travis-ci/worker/tree/858cb91994a513269f2fe9782c15fc113e966231 instance: travis-job-b3600b87-1c60-42b2-9c22-1e724f0cab9e travis-ci-opal-xenial-1553530491-f909ac5 (via amqp) startup: 6.251382604s travis_fold:end:worker_info travis_time:start:1094ad26 travis_time:end:1094ad26:start=1627598266644873407,finish=1627598266794891697,duration=150018290,event=no_world_writable_dirs travis_time:start:080f4746 travis_time:end:080f4746:start=1627598266798132960,finish=1627598266805763654,duration=7630694,event=agent travis_time:start:102a6ba5 travis_time:end:102a6ba5:start=1627598266808448449,finish=1627598266810480680,duration=2032231,event=check_unsupported travis_time:start:0e3f59e5 travis_fold:start:system_info Build system information Build language: r Build dist: xenial Build id: 234038986 Job id: 527835195 Runtime kernel version: 4.15.0-1028-gcp travis-build version: 091d532a Build image provisioning date and time Mon Mar 25 16:52:50 UTC 2019 Operating System Details Distributor ID: Ubuntu Description: Ubuntu 16.04.6 LTS Release: 16.04 Codename: xenial Systemd Version systemd 229 Cookbooks Version 42e42e4 https://github.com/travis-ci/travis-cookbooks/tree/42e42e4 git version git version 2.21.0 bash version GNU bash, version 4.3.48(1)-release (x86_64-pc-linux-gnu) gcc version gcc (Ubuntu 5.4.0-6ubuntu1~16.04.11) 5.4.0 20160609 docker version Client: Version: 18.06.0-ce API version: 1.38 Go version: go1.10.3 Git commit: 0ffa825 Built: Wed Jul 18 19:11:02 2018 OS/Arch: linux/amd64 Experimental: false Server: Engine: Version: 18.06.0-ce API version: 1.38 (minimum version 1.12) Go version: go1.10.3 Git commit: 0ffa825 Built: Wed Jul 18 19:09:05 2018 OS/Arch: linux/amd64 Experimental: false clang version clang version 7.0.0 (tags/RELEASE_700/final) jq version jq-1.5 bats version Bats 0.4.0 shellcheck version 0.6.0 shfmt version v2.6.3 ccache version 3.2.4 cmake version cmake version 3.12.4 heroku version heroku/7.22.7 linux-x64 node-v11.10.1 imagemagick version Version: ImageMagick 6.8.9-9 Q16 x86_64 2018-09-28 http://www.imagemagick.org md5deep version 4.4 mercurial version version 4.8 mysql version mysql Ver 14.14 Distrib 5.7.25, for Linux (x86_64) using EditLine wrapper openssl version OpenSSL 1.0.2g 1 Mar 2016 packer version 1.3.3 postgresql client version psql (PostgreSQL) 10.7 (Ubuntu 10.7-1.pgdg16.04+1) ragel version Ragel State Machine Compiler version 6.8 Feb 2013 sudo version 1.8.16 gzip version gzip 1.6 zip version Zip 3.0 vim version VIM - Vi IMproved 7.4 (2013 Aug 10, compiled Nov 24 2016 16:44:48) iptables version iptables v1.6.0 curl version curl 7.47.0 (x86_64-pc-linux-gnu) libcurl/7.47.0 GnuTLS/3.4.10 zlib/1.2.8 libidn/1.32 librtmp/2.3 wget version GNU Wget 1.17.1 built on linux-gnu. rsync version rsync version 3.1.1 protocol version 31 gimme version v1.5.3 nvm version 0.34.0 perlbrew version /home/travis/perl5/perlbrew/bin/perlbrew - App::perlbrew/0.82 phpenv version rbenv 1.1.2 rvm version rvm 1.29.7 (latest) by Michal Papis, Piotr Kuczynski, Wayne E. Seguin [https://rvm.io] default ruby version ruby 2.5.3p105 (2018-10-18 revision 65156) [x86_64-linux] CouchDB version couchdb 1.6.1 ElasticSearch version 5.5.0 Installed Firefox version firefox 63.0.1 MongoDB version MongoDB 4.0.7 PhantomJS version 2.1.1 Pre-installed PostgreSQL versions 9.4.21 9.5.16 9.6.12 Redis version redis-server 5.0.4 kerl list installations 21.1 elixirs =* elixir-1.7.4 rebar --version rebar 2.6.4 17 20160831_145136 git 2.6.4-dirty perlbrew list 5.26 (5.26.3) (installed on Mon Mar 25 16:41:45 2019) 5.26.3 (installed on Mon Mar 25 16:41:45 2019) 5.26-extras (5.26.2) (installed on Mon Mar 25 16:45:42 2019) 5.26-shrplib (5.26.2) (installed on Mon Mar 25 16:45:42 2019) 5.26.2 (installed on Mon Mar 25 16:41:51 2019) 5.24 (5.24.3) (installed on Mon Mar 25 16:46:12 2019) 5.24.3 (installed on Mon Mar 25 16:46:12 2019) 5.24-extras (5.24.0) (installed on Mon Mar 25 16:50:00 2019) 5.24-shrplib (5.24.0) (installed on Mon Mar 25 16:50:00 2019) travis_fold:end:system_info  travis_time:end:0e3f59e5:start=1627598266813451626,finish=1627598266822780853,duration=9329227,event=show_system_info travis_time:start:06f0da3f travis_time:end:06f0da3f:start=1627598266825764123,finish=1627598266839251687,duration=13487564,event=rm_riak_source travis_time:start:092b845b travis_time:end:092b845b:start=1627598266842516347,finish=1627598266847045167,duration=4528820,event=fix_rwky_redis travis_time:start:1ad651d2 travis_time:end:1ad651d2:start=1627598266849761014,finish=1627598267566459007,duration=716697993,event=wait_for_network travis_time:start:12bf76d5 travis_time:end:12bf76d5:start=1627598267569684762,finish=1627598267776884758,duration=207199996,event=update_apt_keys travis_time:start:0a7ca9d2 travis_time:end:0a7ca9d2:start=1627598267780878763,finish=1627598267833301670,duration=52422907,event=fix_hhvm_source travis_time:start:153ed674 travis_time:end:153ed674:start=1627598267836315907,finish=1627598267838744719,duration=2428812,event=update_mongo_arch travis_time:start:200be8a8 travis_time:end:200be8a8:start=1627598267841422162,finish=1627598267880637934,duration=39215772,event=fix_sudo_enabled_trusty travis_time:start:0412e6a8 travis_time:end:0412e6a8:start=1627598267883662341,finish=1627598267885792756,duration=2130415,event=update_glibc travis_time:start:018e4da8 travis_time:end:018e4da8:start=1627598267888674884,finish=1627598267896162135,duration=7487251,event=clean_up_path travis_time:start:2388c209 travis_time:end:2388c209:start=1627598267898908292,finish=1627598267906289714,duration=7381422,event=fix_resolv_conf travis_time:start:26977ae0 travis_time:end:26977ae0:start=1627598267908897542,finish=1627598267917213902,duration=8316360,event=fix_etc_hosts travis_time:start:0529ddd8 travis_time:end:0529ddd8:start=1627598267920067150,finish=1627598267927592880,duration=7525730,event=fix_mvn_settings_xml travis_time:start:2962e2a0 travis_time:end:2962e2a0:start=1627598267930392690,finish=1627598267939106145,duration=8713455,event=no_ipv6_localhost travis_time:start:0fb92a76 travis_time:end:0fb92a76:start=1627598267941960052,finish=1627598267943963865,duration=2003813,event=fix_etc_mavenrc travis_time:start:042697f7 travis_time:end:042697f7:start=1627598267946585676,finish=1627598267949273594,duration=2687918,event=fix_wwdr_certificate travis_time:start:072949e0 travis_time:end:072949e0:start=1627598267951814387,finish=1627598267973955025,duration=22140638,event=put_localhost_first travis_time:start:04be2e24 travis_time:end:04be2e24:start=1627598267976618459,finish=1627598267980259626,duration=3641167,event=home_paths travis_time:start:1945f344 travis_time:end:1945f344:start=1627598267982818300,finish=1627598267993889218,duration=11070918,event=disable_initramfs travis_time:start:00405542 travis_time:end:00405542:start=1627598267996761565,finish=1627598268305225288,duration=308463723,event=disable_ssh_roaming travis_time:start:1006bf90 travis_time:end:1006bf90:start=1627598268308556370,finish=1627598268310863004,duration=2306634,event=debug_tools travis_time:start:0afa717a travis_time:end:0afa717a:start=1627598268313937510,finish=1627598268317142663,duration=3205153,event=uninstall_oclint travis_time:start:01b02649 travis_time:end:01b02649:start=1627598268320077277,finish=1627598268323022085,duration=2944808,event=rvm_use travis_time:start:030af4d4 travis_time:end:030af4d4:start=1627598268325946542,finish=1627598268333725442,duration=7778900,event=rm_etc_boto_cfg travis_time:start:0791ea00 travis_time:end:0791ea00:start=1627598268336635943,finish=1627598268341235774,duration=4599831,event=rm_oraclejdk8_symlink travis_time:start:2a222a2c travis_time:end:2a222a2c:start=1627598268344261276,finish=1627598268449014088,duration=104752812,event=enable_i386 travis_time:start:22469efc travis_time:end:22469efc:start=1627598268452108745,finish=1627598268455847194,duration=3738449,event=update_rubygems travis_time:start:2bb0a98a travis_time:end:2bb0a98a:start=1627598268458730894,finish=1627598269231761579,duration=773030685,event=ensure_path_components travis_time:start:06d7e0c0 travis_time:end:06d7e0c0:start=1627598269234986669,finish=1627598269237215032,duration=2228363,event=redefine_curl travis_time:start:033cd0c2 travis_time:end:033cd0c2:start=1627598269240129038,finish=1627598269242454754,duration=2325716,event=nonblock_pipe travis_time:start:072afd28 travis_time:end:072afd28:start=1627598269246012058,finish=1627598275280758881,duration=6034746823,event=apt_get_update travis_time:start:07426821 travis_time:end:07426821:start=1627598275284119177,finish=1627598275286256553,duration=2137376,event=deprecate_xcode_64 travis_time:start:1ca624ee travis_time:end:1ca624ee:start=1627598275289072453,finish=1627598278025641988,duration=2736569535,event=update_heroku travis_time:start:032e9f97 travis_time:end:032e9f97:start=1627598278028668809,finish=1627598278030752562,duration=2083753,event=shell_session_update travis_time:start:239c9dd8 travis_fold:start:docker_mtu_and_registry_mirrors travis_fold:end:docker_mtu_and_registry_mirrors travis_time:end:239c9dd8:start=1627598278033612316,finish=1627598280616973142,duration=2583360826,event=set_docker_mtu_and_registry_mirrors travis_time:start:005590a0 travis_fold:start:resolvconf travis_fold:end:resolvconf travis_time:end:005590a0:start=1627598280620241422,finish=1627598280684355463,duration=64114041,event=resolvconf travis_time:start:1d302a22 travis_time:end:1d302a22:start=1627598280689111906,finish=1627598280841026986,duration=151915080,event=maven_central_mirror travis_time:start:0684eafe travis_time:end:0684eafe:start=1627598280844095447,finish=1627598280939399274,duration=95303827,event=maven_https R for Travis-CI is not officially supported, but is community maintained. Please file any issues at https://travis-ci.community/c/languages/r and mention @jeroen and @jimhester in the issue travis_fold:start:R-install Installing R travis_time:start:00695cb2 $ sudo add-apt-repository -y "ppa:marutter/rrutter4.0" gpg: keyring `/tmp/tmp4bowj5vm/secring.gpg' created gpg: keyring `/tmp/tmp4bowj5vm/pubring.gpg' created gpg: requesting key B04C661B from hkp server keyserver.ubuntu.com gpg: /tmp/tmp4bowj5vm/trustdb.gpg: trustdb created gpg: key B04C661B: public key "Launchpad PPA for marutter" imported gpg: Total number processed: 1 gpg: imported: 1 (RSA: 1) OK travis_time:end:00695cb2:start=1627598280942547796,finish=1627598282729403032,duration=1786855236,event= travis_time:start:155ae947 $ sudo add-apt-repository -y "ppa:c2d4u.team/c2d4u4.0+" gpg: keyring `/tmp/tmp0d_8aek6/secring.gpg' created gpg: keyring `/tmp/tmp0d_8aek6/pubring.gpg' created gpg: requesting key 9F16EB04 from hkp server keyserver.ubuntu.com gpg: /tmp/tmp0d_8aek6/trustdb.gpg: trustdb created gpg: key 9F16EB04: public key "Launchpad PPA for cran2deb4ubuntu Build Team" imported gpg: Total number processed: 1 gpg: imported: 1 (RSA: 1) OK travis_time:end:155ae947:start=1627598282732806273,finish=1627598284349004197,duration=1616197924,event= travis_time:start:05268ba0 $ sudo add-apt-repository -y "ppa:ubuntugis/ppa" gpg: keyring `/tmp/tmprdev_1sz/secring.gpg' created gpg: keyring `/tmp/tmprdev_1sz/pubring.gpg' created gpg: requesting key 314DF160 from hkp server keyserver.ubuntu.com gpg: /tmp/tmprdev_1sz/trustdb.gpg: trustdb created gpg: key 314DF160: public key "Launchpad ubuntugis-stable" imported gpg: Total number processed: 1 gpg: imported: 1 (RSA: 1) OK travis_time:end:05268ba0:start=1627598284352257086,finish=1627598285815015650,duration=1462758564,event= travis_time:start:0a038b40 $ sudo add-apt-repository -y "ppa:cran/travis" gpg: keyring `/tmp/tmp8ewc77lc/secring.gpg' created gpg: keyring `/tmp/tmp8ewc77lc/pubring.gpg' created gpg: requesting key 15B55A9F from hkp server keyserver.ubuntu.com gpg: /tmp/tmp8ewc77lc/trustdb.gpg: trustdb created gpg: key 15B55A9F: public key "Launchpad PPA for cran" imported gpg: Total number processed: 1 gpg: imported: 1 (RSA: 1) OK travis_time:end:0a038b40:start=1627598285818446735,finish=1627598287398292502,duration=1579845767,event= travis_time:start:0b5f23c2 $ travis_apt_get_update travis_time:end:0b5f23c2:start=1627598287401736459,finish=1627598300753196414,duration=13351459955,event=configure travis_time:start:03ae52e8 $ sudo apt-get install -y --no-install-recommends build-essential gcc g++ libblas-dev liblapack-dev libncurses5-dev libreadline-dev libjpeg-dev libpcre3-dev libpng-dev zlib1g-dev libbz2-dev liblzma-dev libicu-dev cdbs qpdf texinfo libssh2-1-dev devscripts gfortran Reading package lists... 0% Reading package lists... 100% Reading package lists... Done Building dependency tree... 0% Building dependency tree... 0% Building dependency tree... 50% Building dependency tree... 50% Building dependency tree Reading state information... 0% Reading state information... 0% Reading state information... Done Note, selecting 'libpng12-dev' instead of 'libpng-dev' build-essential is already the newest version (12.1ubuntu2). g++ is already the newest version (4:5.3.1-1ubuntu1). g++ set to manually installed. gcc is already the newest version (4:5.3.1-1ubuntu1). gcc set to manually installed. libjpeg-dev is already the newest version (8c-2ubuntu8). liblzma-dev is already the newest version (5.1.1alpha+20120614-2ubuntu2). liblzma-dev set to manually installed. libncurses5-dev is already the newest version (6.0+20160213-1ubuntu1). libpcre3-dev is already the newest version (2:8.38-3.1). libpcre3-dev set to manually installed. libreadline-dev is already the newest version (6.3-8ubuntu2). libpng12-dev is already the newest version (1.2.54-1ubuntu1.1). libpng12-dev set to manually installed. The following additional packages will be installed: bzip2 cpp-5 debhelper dh-strip-nondeterminism dh-translations g++-5 gcc-5 gcc-5-base gfortran-5 icu-devtools intltool intltool-debian libarchive-zip-perl libasan2 libatomic1 libblas-common libblas3 libbz2-1.0 libcc1-0 libcilkrts5 libencode-locale-perl libfile-listing-perl libfile-stripnondeterminism-perl libgcc-5-dev libgcrypt20 libgcrypt20-dev libgfortran-5-dev libgfortran3 libgomp1 libgpg-error-dev libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libicu55 libio-html-perl libio-socket-ssl-perl libitm1 liblapack3 liblsan0 liblwp-mediatypes-perl liblwp-protocol-https-perl libmpx0 libnet-http-perl libnet-ssleay-perl libqpdf21 libquadmath0 libssh2-1 libstdc++-5-dev libstdc++6 libtext-unidecode-perl libtsan0 libubsan0 libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-perl po-debconf python-scour tex-common zlib1g Suggested packages: bzip2-doc gcc-5-locales dh-make bsd-mailx | mailx cvs-buildpackage diffoscope devscripts-el dose-extra gnuplot libauthen-sasl-perl libfile-desktopentry-perl libnet-smtp-ssl-perl libterm-size-perl libyaml-syck-perl mozilla-devscripts mutt svn-buildpackage debian-keyring equivs libsoap-lite-perl g++-5-multilib gcc-5-doc libstdc++6-5-dbg gcc-5-multilib libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg libasan2-dbg liblsan0-dbg libtsan0-dbg libubsan0-dbg libcilkrts5-dbg libmpx0-dbg libquadmath0-dbg gfortran-multilib gfortran-doc gfortran-5-multilib gfortran-5-doc libgfortran3-dbg liblapack-doc-man liblapack-doc rng-tools libgcrypt20-doc icu-doc libcrypt-ssleay-perl libstdc++-5-doc libauthen-ntlm-perl libmail-box-perl python-rsvg python-cairo texlive-base texlive-latex-base texlive-generic-recommended texinfo-doc-nonfree Recommended packages: dctrl-tools dput | dupload fakeroot libdistro-info-perl lintian patchutils python3-magic wdiff bzip2-doc libhtml-format-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl libxml-sax-expat-perl libmail-sendmail-perl The following NEW packages will be installed: cdbs debhelper devscripts dh-strip-nondeterminism dh-translations gfortran gfortran-5 intltool intltool-debian libarchive-zip-perl libblas-common libblas-dev libblas3 libencode-locale-perl libfile-listing-perl libfile-stripnondeterminism-perl libgcrypt20-dev libgfortran-5-dev libgfortran3 libgpg-error-dev libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libio-html-perl libio-socket-ssl-perl liblapack-dev liblapack3 liblwp-mediatypes-perl liblwp-protocol-https-perl libnet-http-perl libnet-ssleay-perl libqpdf21 libssh2-1 libssh2-1-dev libtext-unidecode-perl libwww-perl libwww-robotrules-perl libxml-libxml-perl libxml-namespacesupport-perl libxml-parser-perl libxml-sax-base-perl libxml-sax-perl po-debconf python-scour qpdf tex-common texinfo The following packages will be upgraded: bzip2 cpp-5 g++-5 gcc-5 gcc-5-base icu-devtools libasan2 libatomic1 libbz2-1.0 libbz2-dev libcc1-0 libcilkrts5 libgcc-5-dev libgcrypt20 libgomp1 libicu-dev libicu55 libitm1 liblsan0 libmpx0 libquadmath0 libstdc++-5-dev libstdc++6 libtsan0 libubsan0 zlib1g zlib1g-dev 27 upgraded, 49 newly installed, 0 to remove and 327 not upgraded. Need to get 66.4 MB of archives. After this operation, 69.4 MB of additional disk space will be used. 0% [Working] Get:1 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 bzip2 amd64 1.0.6-8ubuntu0.2 [32.5 kB] 0% [1 bzip2 12.6 kB/32.5 kB 39%] [Waiting for headers] Get:2 http://ppa.launchpad.net/cran/travis/ubuntu xenial/main amd64 libssh2-1 amd64 1.8.0-xenial0 [138 kB] 0% [1 bzip2 12.6 kB/32.5 kB 39%] [2 libssh2-1 2,304 B/138 kB 2%] 0% [2 libssh2-1 15.2 kB/138 kB 11%] Get:3 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libbz2-dev amd64 1.0.6-8ubuntu0.2 [29.0 kB] 0% [3 libbz2-dev 7,447 B/29.0 kB 26%] [2 libssh2-1 47.4 kB/138 kB 34%] 1% [2 libssh2-1 57.7 kB/138 kB 42%] Get:4 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libbz2-1.0 amd64 1.0.6-8ubuntu0.2 [30.7 kB] 1% [4 libbz2-1.0 3,205 B/30.7 kB 10%] [2 libssh2-1 131 kB/138 kB 95%] 1% [4 libbz2-1.0 10.0 kB/30.7 kB 33%] 1% [Connecting to ppa.launchpad.net (91.189.95.85)] Get:5 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgcrypt20 amd64 1.6.5-2ubuntu0.6 [336 kB] 1% [5 libgcrypt20 4,869 B/336 kB 1%] [Waiting for headers] Get:6 http://ppa.launchpad.net/cran/travis/ubuntu xenial/main amd64 libssh2-1-dev amd64 1.8.0-xenial0 [307 kB] 1% [5 libgcrypt20 46.1 kB/336 kB 14%] [6 libssh2-1-dev 2,544 B/307 kB 1%] 2% [6 libssh2-1-dev 58.9 kB/307 kB 19%] Get:7 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 zlib1g-dev amd64 1:1.2.8.dfsg-2ubuntu4.3 [167 kB] 2% [7 zlib1g-dev 7,445 B/167 kB 4%] [6 libssh2-1-dev 138 kB/307 kB 45%] 3% [6 libssh2-1-dev 172 kB/307 kB 56%] 3% [Waiting for headers] Get:8 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 zlib1g amd64 1:1.2.8.dfsg-2ubuntu4.3 [51.2 kB] 3% [8 zlib1g 15.2 kB/51.2 kB 30%] 3% [Working] Get:9 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libquadmath0 amd64 5.4.0-6ubuntu1~16.04.12 [131 kB] 3% [9 libquadmath0 7,445 B/131 kB 6%] 4% [Working] Get:10 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgomp1 amd64 5.4.0-6ubuntu1~16.04.12 [55.2 kB] 4% [10 libgomp1 7,447 B/55.2 kB 13%] 4% [Working] Get:11 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libitm1 amd64 5.4.0-6ubuntu1~16.04.12 [27.4 kB] 4% [11 libitm1 7,447 B/27.4 kB 27%] 4% [Working] Get:12 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libatomic1 amd64 5.4.0-6ubuntu1~16.04.12 [8,892 B] 4% [12 libatomic1 7,448 B/8,892 B 84%] 5% [Working] Get:13 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libasan2 amd64 5.4.0-6ubuntu1~16.04.12 [265 kB] 5% [13 libasan2 7,445 B/265 kB 3%] 5% [Working] Get:14 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 liblsan0 amd64 5.4.0-6ubuntu1~16.04.12 [105 kB] 5% [14 liblsan0 7,445 B/105 kB 7%] 6% [Working] Get:15 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libtsan0 amd64 5.4.0-6ubuntu1~16.04.12 [244 kB] 6% [15 libtsan0 7,445 B/244 kB 3%] 6% [Working] Get:16 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libubsan0 amd64 5.4.0-6ubuntu1~16.04.12 [95.3 kB] 6% [16 libubsan0 7,446 B/95.3 kB 8%] 7% [Working] Get:17 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libcilkrts5 amd64 5.4.0-6ubuntu1~16.04.12 [40.0 kB] 7% [17 libcilkrts5 7,447 B/40.0 kB 19%] 7% [Working] Get:18 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libmpx0 amd64 5.4.0-6ubuntu1~16.04.12 [9,762 B] 7% [18 libmpx0 2,296 B/9,762 B 24%] 7% [Working] Get:19 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 cpp-5 amd64 5.4.0-6ubuntu1~16.04.12 [7,783 kB] 7% [19 cpp-5 7,443 B/7,783 kB 0%] 16% [19 cpp-5 7,066 kB/7,783 kB 91%] 17% [Working] Get:20 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libcc1-0 amd64 5.4.0-6ubuntu1~16.04.12 [38.8 kB] 17% [20 libcc1-0 21.1 kB/38.8 kB 54%] 17% [Working] Get:21 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 g++-5 amd64 5.4.0-6ubuntu1~16.04.12 [8,430 kB] 17% [21 g++-5 47.6 kB/8,430 kB 1%] 28% [Working] Get:22 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 gcc-5 amd64 5.4.0-6ubuntu1~16.04.12 [8,612 kB] 28% [22 gcc-5 6,317 B/8,612 kB 0%] 38% [Working] Get:23 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgcc-5-dev amd64 5.4.0-6ubuntu1~16.04.12 [2,239 kB] 38% [23 libgcc-5-dev 44.5 kB/2,239 kB 2%] 41% [Working] Get:24 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libstdc++-5-dev amd64 5.4.0-6ubuntu1~16.04.12 [1,428 kB] 41% [24 libstdc++-5-dev 33.4 kB/1,428 kB 2%] 43% [Working] Get:25 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 gcc-5-base amd64 5.4.0-6ubuntu1~16.04.12 [17.4 kB] 43% [25 gcc-5-base 17.4 kB/17.4 kB 100%] 43% [Working] Get:26 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libstdc++6 amd64 5.4.0-6ubuntu1~16.04.12 [393 kB] 44% [26 libstdc++6 29.7 kB/393 kB 8%] 44% [Working] Get:27 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libicu-dev amd64 55.1-7ubuntu0.5 [8,546 kB] 44% [27 libicu-dev 29.7 kB/8,546 kB 0%] 55% [Working] Get:28 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 icu-devtools amd64 55.1-7ubuntu0.5 [166 kB] 55% [28 icu-devtools 65.5 kB/166 kB 39%] 55% [Working] Get:29 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libicu55 amd64 55.1-7ubuntu0.5 [7,650 kB] 55% [29 libicu55 33.7 kB/7,650 kB 0%] 65% [Working] Get:30 http://archive.ubuntu.com/ubuntu xenial/main amd64 intltool-debian all 0.35.0+20060710.4 [24.9 kB] 65% [30 intltool-debian 24.9 kB/24.9 kB 100%] 65% [Working] Get:31 http://archive.ubuntu.com/ubuntu xenial/main amd64 po-debconf all 1.0.19 [234 kB] 65% [31 po-debconf 16.5 kB/234 kB 7%] 66% [Working] Get:32 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libarchive-zip-perl all 1.56-2ubuntu0.1 [84.7 kB] 66% [32 libarchive-zip-perl 35.8 kB/84.7 kB 42%] 66% [Working] Get:33 http://archive.ubuntu.com/ubuntu xenial/main amd64 libfile-stripnondeterminism-perl all 0.015-1 [10.3 kB] 66% [33 libfile-stripnondeterminism-perl 10.3 kB/10.3 kB 100%] 66% [Waiting for headers] Get:34 http://archive.ubuntu.com/ubuntu xenial/main amd64 dh-strip-nondeterminism all 0.015-1 [4,864 B] 66% [34 dh-strip-nondeterminism 4,864 B/4,864 B 100%] 7,854 kB/s 2s 66% [Working] 7,854 kB/s 2s Get:35 http://archive.ubuntu.com/ubuntu xenial/main amd64 debhelper all 9.20160115ubuntu3 [739 kB] 67% [35 debhelper 18.7 kB/739 kB 3%] 7,854 kB/s 2s 68% [Working] 7,854 kB/s 2s Get:36 http://archive.ubuntu.com/ubuntu xenial/main amd64 libencode-locale-perl all 1.05-1 [12.3 kB] 68% [36 libencode-locale-perl 12.3 kB/12.3 kB 100%] 7,854 kB/s 2s 68% [Working] 7,854 kB/s 2s Get:37 http://archive.ubuntu.com/ubuntu xenial/main amd64 libhttp-date-perl all 6.02-1 [10.4 kB] 68% [37 libhttp-date-perl 10.4 kB/10.4 kB 100%] 7,854 kB/s 2s 68% [Waiting for headers] 7,854 kB/s 2s Get:38 http://archive.ubuntu.com/ubuntu xenial/main amd64 libfile-listing-perl all 6.04-1 [9,774 B] 68% [38 libfile-listing-perl 9,774 B/9,774 B 100%] 7,854 kB/s 2s 68% [Working] 7,854 kB/s 2s Get:39 http://archive.ubuntu.com/ubuntu xenial/main amd64 libhtml-tree-perl all 5.03-2 [197 kB] 69% [39 libhtml-tree-perl 32.8 kB/197 kB 17%] 7,854 kB/s 2s 69% [Working] 7,854 kB/s 2s Get:40 http://archive.ubuntu.com/ubuntu xenial/main amd64 libio-html-perl all 1.001-1 [14.9 kB] 69% [40 libio-html-perl 14.9 kB/14.9 kB 100%] 7,854 kB/s 2s 69% [Waiting for headers] 7,854 kB/s 2s Get:41 http://archive.ubuntu.com/ubuntu xenial/main amd64 liblwp-mediatypes-perl all 6.02-1 [21.7 kB] 69% [41 liblwp-mediatypes-perl 16.7 kB/21.7 kB 77%] 7,854 kB/s 2s 70% [Working] 7,854 kB/s 2s Get:42 http://archive.ubuntu.com/ubuntu xenial/main amd64 libhttp-message-perl all 6.11-1 [74.3 kB] 70% [42 libhttp-message-perl 35.8 kB/74.3 kB 48%] 7,854 kB/s 2s 70% [Working] 7,854 kB/s 2s Get:43 http://archive.ubuntu.com/ubuntu xenial/main amd64 libhttp-cookies-perl all 6.01-1 [17.2 kB] 70% [43 libhttp-cookies-perl 17.2 kB/17.2 kB 100%] 7,854 kB/s 2s 70% [Waiting for headers] 7,854 kB/s 2s Get:44 http://archive.ubuntu.com/ubuntu xenial/main amd64 libhttp-negotiate-perl all 6.00-2 [13.4 kB] 70% [44 libhttp-negotiate-perl 13.4 kB/13.4 kB 100%] 7,854 kB/s 2s 70% [Working] 7,854 kB/s 2s Get:45 http://archive.ubuntu.com/ubuntu xenial/main amd64 libnet-ssleay-perl amd64 1.72-1build1 [259 kB] 70% [45 libnet-ssleay-perl 20.1 kB/259 kB 8%] 7,854 kB/s 2s 71% [Working] 7,854 kB/s 2s Get:46 http://archive.ubuntu.com/ubuntu xenial/main amd64 libio-socket-ssl-perl all 2.024-1 [159 kB] 71% [46 libio-socket-ssl-perl 22.5 kB/159 kB 14%] 7,854 kB/s 2s 71% [Working] 7,854 kB/s 2s Get:47 http://archive.ubuntu.com/ubuntu xenial/main amd64 libnet-http-perl all 6.09-1 [24.0 kB] 72% [47 libnet-http-perl 24.0 kB/24.0 kB 100%] 7,854 kB/s 2s 72% [Working] 7,854 kB/s 2s Get:48 http://archive.ubuntu.com/ubuntu xenial/main amd64 liblwp-protocol-https-perl all 6.06-2 [8,682 B] 72% [48 liblwp-protocol-https-perl 8,682 B/8,682 B 100%] 7,854 kB/s 2s 72% [Working] 7,854 kB/s 2s Get:49 http://archive.ubuntu.com/ubuntu xenial/main amd64 libwww-robotrules-perl all 6.01-1 [14.1 kB] 72% [49 libwww-robotrules-perl 14.1 kB/14.1 kB 100%] 7,854 kB/s 2s 72% [Working] 7,854 kB/s 2s Get:50 http://archive.ubuntu.com/ubuntu xenial/main amd64 libwww-perl all 6.15-1 [146 kB] 72% [50 libwww-perl 12.2 kB/146 kB 8%] 7,854 kB/s 2s 73% [Working] 7,854 kB/s 2s Get:51 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxml-parser-perl amd64 2.44-1build1 [200 kB] 73% [51 libxml-parser-perl 35.8 kB/200 kB 18%] 7,854 kB/s 2s 73% [Working] 7,854 kB/s 2s Get:52 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 intltool all 0.51.0-2ubuntu1.16.04.1 [45.0 kB] 73% [52 intltool 45.0 kB/45.0 kB 100%] 7,854 kB/s 2s 74% [Working] 7,854 kB/s 2s Get:53 http://archive.ubuntu.com/ubuntu xenial/main amd64 dh-translations all 129 [22.1 kB] 74% [53 dh-translations 22.1 kB/22.1 kB 100%] 7,854 kB/s 2s 74% [Working] 7,854 kB/s 2s Get:54 http://archive.ubuntu.com/ubuntu xenial/main amd64 python-scour all 0.32-1 [42.7 kB] 74% [54 python-scour 42.7 kB/42.7 kB 100%] 7,854 kB/s 2s 74% [Working] 7,854 kB/s 2s Get:55 http://archive.ubuntu.com/ubuntu xenial/main amd64 cdbs all 0.4.130ubuntu2 [42.8 kB] 74% [55 cdbs 42.8 kB/42.8 kB 100%] 7,854 kB/s 2s 75% [Working] 7,854 kB/s 2s Get:56 http://archive.ubuntu.com/ubuntu xenial/main amd64 devscripts amd64 2.16.2ubuntu3 [848 kB] 75% [56 devscripts 35.8 kB/848 kB 4%] 7,854 kB/s 2s 76% [Working] 7,854 kB/s 2s Get:57 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgfortran3 amd64 5.4.0-6ubuntu1~16.04.12 [260 kB] 76% [57 libgfortran3 35.8 kB/260 kB 14%] 7,854 kB/s 1s 76% [Working] 7,854 kB/s 1s Get:58 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgfortran-5-dev amd64 5.4.0-6ubuntu1~16.04.12 [291 kB] 76% [58 libgfortran-5-dev 35.8 kB/291 kB 12%] 7,854 kB/s 1s 77% [Working] 7,854 kB/s 1s Get:59 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 gfortran-5 amd64 5.4.0-6ubuntu1~16.04.12 [8,158 kB] 77% [59 gfortran-5 13.9 kB/8,158 kB 0%] 7,854 kB/s 1s 87% [Working] 7,854 kB/s 0s Get:60 http://archive.ubuntu.com/ubuntu xenial/main amd64 gfortran amd64 4:5.3.1-1ubuntu1 [1,288 B] 87% [60 gfortran 1,288 B/1,288 B 100%] 7,854 kB/s 0s 87% [Working] 7,854 kB/s 0s Get:61 http://archive.ubuntu.com/ubuntu xenial/main amd64 libblas-common amd64 3.6.0-2ubuntu2 [5,342 B] 87% [61 libblas-common 5,342 B/5,342 B 100%] 7,854 kB/s 0s 88% [Working] 7,854 kB/s 0s Get:62 http://archive.ubuntu.com/ubuntu xenial/main amd64 libblas3 amd64 3.6.0-2ubuntu2 [147 kB] 88% [62 libblas3 0 B/147 kB 0%] 7,854 kB/s 0s 88% [Working] 7,854 kB/s 0s Get:63 http://archive.ubuntu.com/ubuntu xenial/main amd64 libblas-dev amd64 3.6.0-2ubuntu2 [153 kB] 88% [63 libblas-dev 23.7 kB/153 kB 15%] 7,854 kB/s 0s 89% [Working] 7,854 kB/s 0s Get:64 http://archive.ubuntu.com/ubuntu xenial/main amd64 libgpg-error-dev amd64 1.21-2ubuntu1 [68.2 kB] 89% [64 libgpg-error-dev 65.5 kB/68.2 kB 96%] 7,854 kB/s 0s 89% [Working] 7,854 kB/s 0s Get:65 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libgcrypt20-dev amd64 1.6.5-2ubuntu0.6 [380 kB] 89% [65 libgcrypt20-dev 35.8 kB/380 kB 9%] 7,854 kB/s 0s 90% [Working] 7,854 kB/s 0s Get:66 http://archive.ubuntu.com/ubuntu xenial/main amd64 liblapack3 amd64 3.6.0-2ubuntu2 [1,938 kB] 90% [66 liblapack3 16.4 kB/1,938 kB 1%] 7,854 kB/s 0s 92% [Working] 7,854 kB/s 0s Get:67 http://archive.ubuntu.com/ubuntu xenial/main amd64 liblapack-dev amd64 3.6.0-2ubuntu2 [1,948 kB] 92% [67 liblapack-dev 35.8 kB/1,948 kB 2%] 7,854 kB/s 0s 95% [Working] 7,854 kB/s 0s Get:68 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libqpdf21 amd64 8.0.2-3~16.04.1 [315 kB] 95% [68 libqpdf21 35.8 kB/315 kB 11%] 7,854 kB/s 0s 95% [Working] 7,854 kB/s 0s Get:69 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libtext-unidecode-perl all 1.27-1 [103 kB] 96% [69 libtext-unidecode-perl 65.5 kB/103 kB 64%] 7,854 kB/s 0s 96% [Working] 7,854 kB/s 0s Get:70 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxml-namespacesupport-perl all 1.11-1 [13.2 kB] 96% [70 libxml-namespacesupport-perl 13.2 kB/13.2 kB 100%] 7,854 kB/s 0s 96% [Working] 7,854 kB/s 0s Get:71 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxml-sax-base-perl all 1.07-1 [21.5 kB] 96% [71 libxml-sax-base-perl 18.2 kB/21.5 kB 84%] 7,854 kB/s 0s 96% [Working] 7,854 kB/s 0s Get:72 http://archive.ubuntu.com/ubuntu xenial/main amd64 libxml-sax-perl all 0.99+dfsg-2ubuntu1 [64.6 kB] 96% [72 libxml-sax-perl 61.9 kB/64.6 kB 96%] 7,854 kB/s 0s 97% [Working] 7,854 kB/s 0s Get:73 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 libxml-libxml-perl amd64 2.0123+dfsg-1ubuntu0.1 [316 kB] 97% [73 libxml-libxml-perl 35.8 kB/316 kB 11%] 7,854 kB/s 0s 97% [Working] 7,854 kB/s 0s Get:74 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 qpdf amd64 8.0.2-3~16.04.1 [242 kB] 97% [74 qpdf 8,192 B/242 kB 3%] 7,854 kB/s 0s 98% [Working] 7,854 kB/s 0s Get:75 http://archive.ubuntu.com/ubuntu xenial-updates/main amd64 tex-common all 6.04ubuntu1 [545 kB] 98% [75 tex-common 27.8 kB/545 kB 5%] 7,854 kB/s 0s 99% [Working] 7,854 kB/s 0s Get:76 http://archive.ubuntu.com/ubuntu xenial/universe amd64 texinfo amd64 6.1.0.dfsg.1-5 [744 kB] 99% [76 texinfo 13.9 kB/744 kB 2%] 7,854 kB/s 0s 100% [Working] 7,854 kB/s 0s Fetched 66.4 MB in 11s (5,759 kB/s) Extracting templates from packages: 39% Extracting templates from packages: 78% Extracting templates from packages: 100% (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../bzip2_1.0.6-8ubuntu0.2_amd64.deb ... Unpacking bzip2 (1.0.6-8ubuntu0.2) over (1.0.6-8) ... Preparing to unpack .../libbz2-dev_1.0.6-8ubuntu0.2_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.6-8ubuntu0.2) over (1.0.6-8) ... Preparing to unpack .../libbz2-1.0_1.0.6-8ubuntu0.2_amd64.deb ... Unpacking libbz2-1.0:amd64 (1.0.6-8ubuntu0.2) over (1.0.6-8) ... Processing triggers for man-db (2.7.5-1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Setting up libbz2-1.0:amd64 (1.0.6-8ubuntu0.2) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../libgcrypt20_1.6.5-2ubuntu0.6_amd64.deb ... Unpacking libgcrypt20:amd64 (1.6.5-2ubuntu0.6) over (1.6.5-2ubuntu0.5) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Setting up libgcrypt20:amd64 (1.6.5-2ubuntu0.6) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../zlib1g-dev_1%3a1.2.8.dfsg-2ubuntu4.3_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.8.dfsg-2ubuntu4.3) over (1:1.2.8.dfsg-2ubuntu4.1) ... Preparing to unpack .../zlib1g_1%3a1.2.8.dfsg-2ubuntu4.3_amd64.deb ... Unpacking zlib1g:amd64 (1:1.2.8.dfsg-2ubuntu4.3) over (1:1.2.8.dfsg-2ubuntu4.1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Setting up zlib1g:amd64 (1:1.2.8.dfsg-2ubuntu4.3) ... Processing triggers for man-db (2.7.5-1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../libquadmath0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libquadmath0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libgomp1_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libgomp1:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libitm1_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libitm1:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libatomic1_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libatomic1:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libasan2_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libasan2:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../liblsan0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking liblsan0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libtsan0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libtsan0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libubsan0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libubsan0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libcilkrts5_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libcilkrts5:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libmpx0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libmpx0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../cpp-5_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking cpp-5 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libcc1-0_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libcc1-0:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../g++-5_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking g++-5 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../gcc-5_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking gcc-5 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libgcc-5-dev_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libgcc-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../libstdc++-5-dev_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libstdc++-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Preparing to unpack .../gcc-5-base_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking gcc-5-base:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Processing triggers for man-db (2.7.5-1) ... Processing triggers for ccache (3.2.4-1) ... Updating symlinks in /usr/lib/ccache ... Setting up gcc-5-base:amd64 (5.4.0-6ubuntu1~16.04.12) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../libstdc++6_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libstdc++6:amd64 (5.4.0-6ubuntu1~16.04.12) over (5.4.0-6ubuntu1~16.04.11) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Setting up libstdc++6:amd64 (5.4.0-6ubuntu1~16.04.12) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 127711 files and directories currently installed.) Preparing to unpack .../libicu-dev_55.1-7ubuntu0.5_amd64.deb ... Unpacking libicu-dev:amd64 (55.1-7ubuntu0.5) over (55.1-7ubuntu0.4) ... Preparing to unpack .../icu-devtools_55.1-7ubuntu0.5_amd64.deb ... Unpacking icu-devtools (55.1-7ubuntu0.5) over (55.1-7ubuntu0.4) ... Preparing to unpack .../libicu55_55.1-7ubuntu0.5_amd64.deb ... Unpacking libicu55:amd64 (55.1-7ubuntu0.5) over (55.1-7ubuntu0.4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../intltool-debian_0.35.0+20060710.4_all.deb ... Unpacking intltool-debian (0.35.0+20060710.4) ... Selecting previously unselected package po-debconf. Preparing to unpack .../po-debconf_1.0.19_all.deb ... Unpacking po-debconf (1.0.19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../libarchive-zip-perl_1.56-2ubuntu0.1_all.deb ... Unpacking libarchive-zip-perl (1.56-2ubuntu0.1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../libfile-stripnondeterminism-perl_0.015-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (0.015-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../dh-strip-nondeterminism_0.015-1_all.deb ... Unpacking dh-strip-nondeterminism (0.015-1) ... Selecting previously unselected package debhelper. Preparing to unpack .../debhelper_9.20160115ubuntu3_all.deb ... Unpacking debhelper (9.20160115ubuntu3) ... Selecting previously unselected package libencode-locale-perl. Preparing to unpack .../libencode-locale-perl_1.05-1_all.deb ... Unpacking libencode-locale-perl (1.05-1) ... Selecting previously unselected package libhttp-date-perl. Preparing to unpack .../libhttp-date-perl_6.02-1_all.deb ... Unpacking libhttp-date-perl (6.02-1) ... Selecting previously unselected package libfile-listing-perl. Preparing to unpack .../libfile-listing-perl_6.04-1_all.deb ... Unpacking libfile-listing-perl (6.04-1) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../libhtml-tree-perl_5.03-2_all.deb ... Unpacking libhtml-tree-perl (5.03-2) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../libio-html-perl_1.001-1_all.deb ... Unpacking libio-html-perl (1.001-1) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../liblwp-mediatypes-perl_6.02-1_all.deb ... Unpacking liblwp-mediatypes-perl (6.02-1) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../libhttp-message-perl_6.11-1_all.deb ... Unpacking libhttp-message-perl (6.11-1) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../libhttp-cookies-perl_6.01-1_all.deb ... Unpacking libhttp-cookies-perl (6.01-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../libhttp-negotiate-perl_6.00-2_all.deb ... Unpacking libhttp-negotiate-perl (6.00-2) ... Selecting previously unselected package libnet-ssleay-perl. Preparing to unpack .../libnet-ssleay-perl_1.72-1build1_amd64.deb ... Unpacking libnet-ssleay-perl (1.72-1build1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../libio-socket-ssl-perl_2.024-1_all.deb ... Unpacking libio-socket-ssl-perl (2.024-1) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../libnet-http-perl_6.09-1_all.deb ... Unpacking libnet-http-perl (6.09-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../liblwp-protocol-https-perl_6.06-2_all.deb ... Unpacking liblwp-protocol-https-perl (6.06-2) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../libwww-robotrules-perl_6.01-1_all.deb ... Unpacking libwww-robotrules-perl (6.01-1) ... Selecting previously unselected package libwww-perl. Preparing to unpack .../libwww-perl_6.15-1_all.deb ... Unpacking libwww-perl (6.15-1) ... Selecting previously unselected package libxml-parser-perl. Preparing to unpack .../libxml-parser-perl_2.44-1build1_amd64.deb ... Unpacking libxml-parser-perl (2.44-1build1) ... Selecting previously unselected package intltool. Preparing to unpack .../intltool_0.51.0-2ubuntu1.16.04.1_all.deb ... Unpacking intltool (0.51.0-2ubuntu1.16.04.1) ... Selecting previously unselected package dh-translations. Preparing to unpack .../dh-translations_129_all.deb ... Unpacking dh-translations (129) ... Selecting previously unselected package python-scour. Preparing to unpack .../python-scour_0.32-1_all.deb ... Unpacking python-scour (0.32-1) ... Selecting previously unselected package cdbs. Preparing to unpack .../cdbs_0.4.130ubuntu2_all.deb ... Unpacking cdbs (0.4.130ubuntu2) ... Selecting previously unselected package devscripts. Preparing to unpack .../devscripts_2.16.2ubuntu3_amd64.deb ... Unpacking devscripts (2.16.2ubuntu3) ... Selecting previously unselected package libgfortran3:amd64. Preparing to unpack .../libgfortran3_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libgfortran3:amd64 (5.4.0-6ubuntu1~16.04.12) ... Selecting previously unselected package libgfortran-5-dev:amd64. Preparing to unpack .../libgfortran-5-dev_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking libgfortran-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) ... Selecting previously unselected package gfortran-5. Preparing to unpack .../gfortran-5_5.4.0-6ubuntu1~16.04.12_amd64.deb ... Unpacking gfortran-5 (5.4.0-6ubuntu1~16.04.12) ... Selecting previously unselected package gfortran. Preparing to unpack .../gfortran_4%3a5.3.1-1ubuntu1_amd64.deb ... Unpacking gfortran (4:5.3.1-1ubuntu1) ... Selecting previously unselected package libblas-common. Preparing to unpack .../libblas-common_3.6.0-2ubuntu2_amd64.deb ... Unpacking libblas-common (3.6.0-2ubuntu2) ... Selecting previously unselected package libblas3. Preparing to unpack .../libblas3_3.6.0-2ubuntu2_amd64.deb ... Unpacking libblas3 (3.6.0-2ubuntu2) ... Selecting previously unselected package libblas-dev. Preparing to unpack .../libblas-dev_3.6.0-2ubuntu2_amd64.deb ... Unpacking libblas-dev (3.6.0-2ubuntu2) ... Selecting previously unselected package libgpg-error-dev. Preparing to unpack .../libgpg-error-dev_1.21-2ubuntu1_amd64.deb ... Unpacking libgpg-error-dev (1.21-2ubuntu1) ... Selecting previously unselected package libgcrypt20-dev. Preparing to unpack .../libgcrypt20-dev_1.6.5-2ubuntu0.6_amd64.deb ... Unpacking libgcrypt20-dev (1.6.5-2ubuntu0.6) ... Selecting previously unselected package liblapack3. Preparing to unpack .../liblapack3_3.6.0-2ubuntu2_amd64.deb ... Unpacking liblapack3 (3.6.0-2ubuntu2) ... Selecting previously unselected package liblapack-dev. Preparing to unpack .../liblapack-dev_3.6.0-2ubuntu2_amd64.deb ... Unpacking liblapack-dev (3.6.0-2ubuntu2) ... Selecting previously unselected package libqpdf21:amd64. Preparing to unpack .../libqpdf21_8.0.2-3~16.04.1_amd64.deb ... Unpacking libqpdf21:amd64 (8.0.2-3~16.04.1) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../libssh2-1_1.8.0-xenial0_amd64.deb ... Unpacking libssh2-1:amd64 (1.8.0-xenial0) ... Selecting previously unselected package libssh2-1-dev:amd64. Preparing to unpack .../libssh2-1-dev_1.8.0-xenial0_amd64.deb ... Unpacking libssh2-1-dev:amd64 (1.8.0-xenial0) ... Selecting previously unselected package libtext-unidecode-perl. Preparing to unpack .../libtext-unidecode-perl_1.27-1_all.deb ... Unpacking libtext-unidecode-perl (1.27-1) ... Selecting previously unselected package libxml-namespacesupport-perl. Preparing to unpack .../libxml-namespacesupport-perl_1.11-1_all.deb ... Unpacking libxml-namespacesupport-perl (1.11-1) ... Selecting previously unselected package libxml-sax-base-perl. Preparing to unpack .../libxml-sax-base-perl_1.07-1_all.deb ... Unpacking libxml-sax-base-perl (1.07-1) ... Selecting previously unselected package libxml-sax-perl. Preparing to unpack .../libxml-sax-perl_0.99+dfsg-2ubuntu1_all.deb ... Unpacking libxml-sax-perl (0.99+dfsg-2ubuntu1) ... Selecting previously unselected package libxml-libxml-perl. Preparing to unpack .../libxml-libxml-perl_2.0123+dfsg-1ubuntu0.1_amd64.deb ... Unpacking libxml-libxml-perl (2.0123+dfsg-1ubuntu0.1) ... Selecting previously unselected package qpdf. Preparing to unpack .../qpdf_8.0.2-3~16.04.1_amd64.deb ... Unpacking qpdf (8.0.2-3~16.04.1) ... Selecting previously unselected package tex-common. Preparing to unpack .../tex-common_6.04ubuntu1_all.deb ... Unpacking tex-common (6.04ubuntu1) ... Selecting previously unselected package texinfo. Preparing to unpack .../texinfo_6.1.0.dfsg.1-5_amd64.deb ... Unpacking texinfo (6.1.0.dfsg.1-5) ... Processing triggers for man-db (2.7.5-1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Processing triggers for ccache (3.2.4-1) ... Updating symlinks in /usr/lib/ccache ... Processing triggers for install-info (6.1.0.dfsg.1-5) ... Setting up bzip2 (1.0.6-8ubuntu0.2) ... Setting up libbz2-dev:amd64 (1.0.6-8ubuntu0.2) ... Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-2ubuntu4.3) ... Setting up libquadmath0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libgomp1:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libitm1:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libatomic1:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libasan2:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up liblsan0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libtsan0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libubsan0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libcilkrts5:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libmpx0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up cpp-5 (5.4.0-6ubuntu1~16.04.12) ... Setting up libcc1-0:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libgcc-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up gcc-5 (5.4.0-6ubuntu1~16.04.12) ... Setting up libstdc++-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up g++-5 (5.4.0-6ubuntu1~16.04.12) ... Setting up libicu55:amd64 (55.1-7ubuntu0.5) ... Setting up icu-devtools (55.1-7ubuntu0.5) ... Setting up libicu-dev:amd64 (55.1-7ubuntu0.5) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up po-debconf (1.0.19) ... Setting up libarchive-zip-perl (1.56-2ubuntu0.1) ... Setting up libfile-stripnondeterminism-perl (0.015-1) ... Setting up libencode-locale-perl (1.05-1) ... Setting up libhttp-date-perl (6.02-1) ... Setting up libfile-listing-perl (6.04-1) ... Setting up libhtml-tree-perl (5.03-2) ... Setting up libio-html-perl (1.001-1) ... Setting up liblwp-mediatypes-perl (6.02-1) ... Setting up libhttp-message-perl (6.11-1) ... Setting up libhttp-cookies-perl (6.01-1) ... Setting up libhttp-negotiate-perl (6.00-2) ... Setting up libnet-ssleay-perl (1.72-1build1) ... Setting up libio-socket-ssl-perl (2.024-1) ... Setting up libnet-http-perl (6.09-1) ... Setting up libwww-robotrules-perl (6.01-1) ... Setting up python-scour (0.32-1) ... Setting up devscripts (2.16.2ubuntu3) ... Setting up libgfortran3:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up libgfortran-5-dev:amd64 (5.4.0-6ubuntu1~16.04.12) ... Setting up gfortran-5 (5.4.0-6ubuntu1~16.04.12) ... Setting up gfortran (4:5.3.1-1ubuntu1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libblas-common (3.6.0-2ubuntu2) ... Setting up libblas3 (3.6.0-2ubuntu2) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode Setting up libblas-dev (3.6.0-2ubuntu2) ... update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode Setting up libgpg-error-dev (1.21-2ubuntu1) ... Setting up libgcrypt20-dev (1.6.5-2ubuntu0.6) ... Setting up liblapack3 (3.6.0-2ubuntu2) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up liblapack-dev (3.6.0-2ubuntu2) ... update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode Setting up libqpdf21:amd64 (8.0.2-3~16.04.1) ... Setting up libssh2-1:amd64 (1.8.0-xenial0) ... Setting up libssh2-1-dev:amd64 (1.8.0-xenial0) ... Setting up libtext-unidecode-perl (1.27-1) ... Setting up libxml-namespacesupport-perl (1.11-1) ... Setting up libxml-sax-base-perl (1.07-1) ... Setting up libxml-sax-perl (0.99+dfsg-2ubuntu1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxml-libxml-perl (2.0123+dfsg-1ubuntu0.1) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up qpdf (8.0.2-3~16.04.1) ... Setting up tex-common (6.04ubuntu1) ... update-language: texlive-base not installed and configured, doing nothing! Setting up texinfo (6.1.0.dfsg.1-5) ... Setting up libwww-perl (6.15-1) ... Setting up libxml-parser-perl (2.44-1build1) ... Setting up intltool (0.51.0-2ubuntu1.16.04.1) ... Setting up dh-strip-nondeterminism (0.015-1) ... Setting up debhelper (9.20160115ubuntu3) ... Setting up liblwp-protocol-https-perl (6.06-2) ... Setting up dh-translations (129) ... Setting up cdbs (0.4.130ubuntu2) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... travis_time:end:03ae52e8:start=1627598300756432641,finish=1627598333139829979,duration=32383397338,event=configure travis_time:start:0ae95c5f $ curl -fLo /tmp/r-4.1.0_1_amd64.deb https://cdn.rstudio.com/r/ubuntu-$(lsb_release -rs | tr -d '.')/pkgs/r-4.1.0_1_amd64.deb travis_time:end:0ae95c5f:start=1627598333143091327,finish=1627598333828581095,duration=685489768,event=configure travis_time:start:099865a4 $ sudo apt-get install -y gdebi-core Reading package lists... 0% Reading package lists... 100% Reading package lists... Done Building dependency tree... 0% Building dependency tree... 0% Building dependency tree... 50% Building dependency tree... 50% Building dependency tree Reading state information... 0% Reading state information... 0% Reading state information... Done The following NEW packages will be installed: gdebi-core 0 upgraded, 1 newly installed, 0 to remove and 327 not upgraded. Need to get 9,716 B of archives. After this operation, 135 kB of additional disk space will be used. 0% [Working] Get:1 http://archive.ubuntu.com/ubuntu xenial/main amd64 gdebi-core all 0.9.5.7ubuntu1 [9,716 B] 80% [1 gdebi-core 9,716 B/9,716 B 100%] 100% [Working] Fetched 9,716 B in 0s (42.4 kB/s) Selecting previously unselected package gdebi-core. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 130221 files and directories currently installed.) Preparing to unpack .../gdebi-core_0.9.5.7ubuntu1_all.deb ... Unpacking gdebi-core (0.9.5.7ubuntu1) ... Processing triggers for man-db (2.7.5-1) ... Setting up gdebi-core (0.9.5.7ubuntu1) ... travis_time:end:099865a4:start=1627598333832336703,finish=1627598337398367008,duration=3566030305,event= travis_time:start:00cf10fc $ sudo gdebi --non-interactive /tmp/r-4.1.0_1_amd64.deb Reading package lists... 0% Reading package lists... 100% Reading package lists... Done Building dependency tree... 0% Building dependency tree... 0% Building dependency tree... 50% Building dependency tree... 50% Building dependency tree Reading state information... 0% Reading state information... 0% Reading state information... Done Reading state information... 0% Reading state information... 1% Reading state information... 3% Reading state information... 5% Reading state information... 7% Reading state information... 9% Reading state information... 11% Reading state information... 13% Reading state information... 15% Reading state information... 17% Reading state information... 19% Reading state information... 21% Reading state information... 23% Reading state information... 25% Reading state information... 27% Reading state information... 29% Reading state information... 31% Reading state information... 33% Reading state information... 35% Reading state information... 37% Reading state information... 39% Reading state information... 41% Reading state information... 43% Reading state information... 45% Reading state information... 47% Reading state information... 49% Reading state information... 51% Reading state information... 53% Reading state information... 55% Reading state information... 57% Reading state information... 59% Reading state information... 61% Reading state information... 63% Reading state information... 65% Reading state information... 67% Reading state information... 69% Reading state information... 71% Reading state information... 73% Reading state information... 75% Reading state information... 77% Reading state information... 79% Reading state information... 81% Reading state information... 83% Reading state information... 85% Reading state information... 87% Reading state information... 89% Reading state information... 91% Reading state information... 93% Reading state information... 95% Reading state information... 97% Reading state information... 99% Reading state information... Done 0% [Working] 0% [Connecting to archive.ubuntu.com] 0% [Connecting to archive.ubuntu.com (91.189.88.152)] 0% [Waiting for headers] Get:1 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libopenblas-base amd64 0.2.18-1ubuntu1 [5097 kB] 0% [1 libopenblas-base 12.6 kB/5097 kB 0%] 3% [1 libopenblas-base 319 kB/5097 kB 6%] 53% [Working] 53% [Waiting for headers] Get:2 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libopenblas-dev amd64 0.2.18-1ubuntu1 [3300 kB] 53% [2 libopenblas-dev 14.3 kB/3300 kB 0%] 88% [Working] 88% [Waiting for headers] Get:3 http://archive.ubuntu.com/ubuntu xenial/main amd64 libpaper1 amd64 1.1.24+nmu4ubuntu1 [13.7 kB] 88% [3 libpaper1 13.7 kB/13.7 kB 100%] 88% [Working] 88% [Waiting for headers] Get:4 http://archive.ubuntu.com/ubuntu xenial/main amd64 libpaper-utils amd64 1.1.24+nmu4ubuntu1 [8276 B] 88% [4 libpaper-utils 8276 B/8276 B 100%] 88% [Working] 88% [Waiting for headers] Get:5 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libpcre2-16-0 amd64 10.21-1 [157 kB] 89% [5 libpcre2-16-0 33.4 kB/157 kB 21%] 90% [Working] 90% [Waiting for headers] Get:6 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libpcre2-32-0 amd64 10.21-1 [147 kB] 91% [6 libpcre2-32-0 65.5 kB/147 kB 44%] 92% [Working] 92% [Waiting for headers] Get:7 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libpcre2-posix0 amd64 10.21-1 [5632 B] 92% [7 libpcre2-posix0 5632 B/5632 B 100%] 92% [Waiting for headers] Get:8 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libpcre2-dev amd64 10.21-1 [566 kB] 92% [8 libpcre2-dev 50.7 kB/566 kB 8%] 98% [Working] 98% [Waiting for headers] Get:9 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libpng16-16 amd64 1.6.20-2 [172 kB] 98% [9 libpng16-16 65.5 kB/172 kB 38%] 100% [Working] Fetched 9467 kB in 0s (0 B/s) Preconfiguring packages ... Preconfiguring packages ... Selecting previously unselected package libopenblas-base. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 130235 files and directories currently installed.) Preparing to unpack .../libopenblas-base_0.2.18-1ubuntu1_amd64.deb ... Unpacking libopenblas-base (0.2.18-1ubuntu1) ... Selecting previously unselected package libopenblas-dev. Preparing to unpack .../libopenblas-dev_0.2.18-1ubuntu1_amd64.deb ... Unpacking libopenblas-dev (0.2.18-1ubuntu1) ... Selecting previously unselected package libpaper1:amd64. Preparing to unpack .../libpaper1_1.1.24+nmu4ubuntu1_amd64.deb ... Unpacking libpaper1:amd64 (1.1.24+nmu4ubuntu1) ... Selecting previously unselected package libpaper-utils. Preparing to unpack .../libpaper-utils_1.1.24+nmu4ubuntu1_amd64.deb ... Unpacking libpaper-utils (1.1.24+nmu4ubuntu1) ... Selecting previously unselected package libpcre2-16-0:amd64. Preparing to unpack .../libpcre2-16-0_10.21-1_amd64.deb ... Unpacking libpcre2-16-0:amd64 (10.21-1) ... Selecting previously unselected package libpcre2-32-0:amd64. Preparing to unpack .../libpcre2-32-0_10.21-1_amd64.deb ... Unpacking libpcre2-32-0:amd64 (10.21-1) ... Selecting previously unselected package libpcre2-posix0:amd64. Preparing to unpack .../libpcre2-posix0_10.21-1_amd64.deb ... Unpacking libpcre2-posix0:amd64 (10.21-1) ... Selecting previously unselected package libpcre2-dev:amd64. Preparing to unpack .../libpcre2-dev_10.21-1_amd64.deb ... Unpacking libpcre2-dev:amd64 (10.21-1) ... Selecting previously unselected package libpng16-16:amd64. Preparing to unpack .../libpng16-16_1.6.20-2_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.20-2) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Processing triggers for man-db (2.7.5-1) ... Setting up libopenblas-base (0.2.18-1ubuntu1) ... update-alternatives: using /usr/lib/openblas-base/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode update-alternatives: using /usr/lib/openblas-base/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode Setting up libopenblas-dev (0.2.18-1ubuntu1) ... update-alternatives: using /usr/lib/openblas-base/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode update-alternatives: using /usr/lib/openblas-base/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode Setting up libpaper1:amd64 (1.1.24+nmu4ubuntu1) ... Creating config file /etc/papersize with new version Setting up libpaper-utils (1.1.24+nmu4ubuntu1) ... Setting up libpcre2-16-0:amd64 (10.21-1) ... Setting up libpcre2-32-0:amd64 (10.21-1) ... Setting up libpcre2-posix0:amd64 (10.21-1) ... Setting up libpcre2-dev:amd64 (10.21-1) ... Setting up libpng16-16:amd64 (1.6.20-2) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Selecting previously unselected package r-4.1.0. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 130397 files and directories currently installed.) Preparing to unpack /tmp/r-4.1.0_1_amd64.deb ... Unpacking r-4.1.0 (1) ... Setting up r-4.1.0 (1) ... travis_time:end:00cf10fc:start=1627598337401981291,finish=1627598347984623759,duration=10582642468,event= $ rm /tmp/r-4.1.0_1_amd64.deb travis_time:start:0d57ae45 $ sudo mkdir -p /usr/local/lib/R/site-library $R_LIBS_USER travis_time:end:0d57ae45:start=1627598347996517581,finish=1627598348004812107,duration=8294526,event= travis_time:start:0036c02a $ sudo chmod 2777 /usr/local/lib/R /usr/local/lib/R/site-library $R_LIBS_USER travis_time:end:0036c02a:start=1627598348007966777,finish=1627598348015033420,duration=7066643,event= travis_time:start:103e54d2 $ echo 'options(repos = c(CRAN = "https://cloud.r-project.org"))' > ~/.Rprofile.site travis_time:end:103e54d2:start=1627598348018067993,finish=1627598348020557877,duration=2489884,event= travis_time:start:07e596c1 $ curl -fLo /tmp/texlive.tar.gz https://github.com/jimhester/ubuntu-bin/releases/download/latest/texlive.tar.gz travis_time:end:07e596c1:start=1627598348023597491,finish=1627598349782170782,duration=1758573291,event=configure travis_time:start:159ac05a $ tar xzf /tmp/texlive.tar.gz -C ~ travis_time:end:159ac05a:start=1627598349785561300,finish=1627598351503279467,duration=1717718167,event= $ export PATH=${TRAVIS_HOME}/texlive/bin/x86_64-linux:$PATH travis_time:start:1d1a00d9 $ tlmgr update --self No connection to the internet. Unable to download the checksum of the remote TeX Live database, but found a local copy so using that. You may want to try specifying an explicit or different CTAN mirror; see the information and examples for the -repository option at http://tug.org/texlive/doc/install-tl.html (or in the output of install-tl --help). tlmgr: package repository http://ftp.math.purdue.edu/mirrors/ctan.org/systems/texlive/tlnet (not verified: unknown) tlmgr: saving backups to /home/travis/texlive/tlpkg/backups tlmgr: no self-updates for tlmgr available. travis_time:end:1d1a00d9:start=1627598351507959216,finish=1627598727467583851,duration=375959624635,event=configure travis_time:start:03ce6e5c $ curl -fLo /tmp/pandoc-2.2-1-amd64.deb https://github.com/jgm/pandoc/releases/download/2.2/pandoc-2.2-1-amd64.deb travis_time:end:03ce6e5c:start=1627598727471216770,finish=1627598728763574900,duration=1292358130,event= travis_time:start:24cef274 $ sudo dpkg -i /tmp/pandoc-2.2-1-amd64.deb Selecting previously unselected package pandoc. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 132498 files and directories currently installed.) Preparing to unpack /tmp/pandoc-2.2-1-amd64.deb ... Unpacking pandoc (2.2-1) ... Setting up pandoc (2.2-1) ... Processing triggers for man-db (2.7.5-1) ... travis_time:end:24cef274:start=1627598728766953758,finish=1627598731141615274,duration=2374661516,event= travis_time:start:13fca61c $ sudo apt-get install -f Reading package lists... 0% Reading package lists... 0% Reading package lists... 7% Reading package lists... Done Building dependency tree... 0% Building dependency tree... 0% Building dependency tree... 50% Building dependency tree... 50% Building dependency tree Reading state information... 0% Reading state information... 0% Reading state information... Done 0 upgraded, 0 newly installed, 0 to remove and 327 not upgraded. travis_time:end:13fca61c:start=1627598731145249166,finish=1627598732050134813,duration=904885647,event= $ rm /tmp/pandoc-2.2-1-amd64.deb travis_fold:end:R-install travis_fold:start:apt travis_time:start:0e84cd4e $ travis_apt_get_update travis_time:end:0e84cd4e:start=1627598732057277725,finish=1627598743250452590,duration=11193174865,event=prepare Installing APT Packages travis_time:start:0089e9f8 $ sudo -E apt-get -yq --no-install-suggests --no-install-recommends $(travis_apt_get_options) install tcl8.5-dev tk8.5-dev Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: libtcl8.5 libtk8.5 tcl8.5 tk8.5 Suggested packages: tcl-tclreadline tcl8.5-doc tk8.5-doc Recommended packages: xterm | x-terminal-emulator The following NEW packages will be installed: libtcl8.5 libtk8.5 tcl8.5 tcl8.5-dev tk8.5 tk8.5-dev 0 upgraded, 6 newly installed, 0 to remove and 327 not upgraded. Need to get 2,711 kB of archives. After this operation, 12.5 MB of additional disk space will be used. Get:1 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libtcl8.5 amd64 8.5.19-1 [696 kB] Get:2 http://archive.ubuntu.com/ubuntu xenial/universe amd64 libtk8.5 amd64 8.5.19-1ubuntu1 [655 kB] Get:3 http://archive.ubuntu.com/ubuntu xenial/universe amd64 tcl8.5 amd64 8.5.19-1 [14.0 kB] Get:4 http://archive.ubuntu.com/ubuntu xenial/universe amd64 tcl8.5-dev amd64 8.5.19-1 [672 kB] Get:5 http://archive.ubuntu.com/ubuntu xenial/universe amd64 tk8.5 amd64 8.5.19-1ubuntu1 [12.1 kB] Get:6 http://archive.ubuntu.com/ubuntu xenial/universe amd64 tk8.5-dev amd64 8.5.19-1ubuntu1 [662 kB] Fetched 2,711 kB in 1s (1,696 kB/s) Selecting previously unselected package libtcl8.5:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 132505 files and directories currently installed.) Preparing to unpack .../libtcl8.5_8.5.19-1_amd64.deb ... Unpacking libtcl8.5:amd64 (8.5.19-1) ... Selecting previously unselected package libtk8.5:amd64. Preparing to unpack .../libtk8.5_8.5.19-1ubuntu1_amd64.deb ... Unpacking libtk8.5:amd64 (8.5.19-1ubuntu1) ... Selecting previously unselected package tcl8.5. Preparing to unpack .../tcl8.5_8.5.19-1_amd64.deb ... Unpacking tcl8.5 (8.5.19-1) ... Selecting previously unselected package tcl8.5-dev:amd64. Preparing to unpack .../tcl8.5-dev_8.5.19-1_amd64.deb ... Unpacking tcl8.5-dev:amd64 (8.5.19-1) ... Selecting previously unselected package tk8.5. Preparing to unpack .../tk8.5_8.5.19-1ubuntu1_amd64.deb ... Unpacking tk8.5 (8.5.19-1ubuntu1) ... Selecting previously unselected package tk8.5-dev:amd64. Preparing to unpack .../tk8.5-dev_8.5.19-1ubuntu1_amd64.deb ... Unpacking tk8.5-dev:amd64 (8.5.19-1ubuntu1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... Processing triggers for man-db (2.7.5-1) ... Setting up libtcl8.5:amd64 (8.5.19-1) ... Setting up libtk8.5:amd64 (8.5.19-1ubuntu1) ... Setting up tcl8.5 (8.5.19-1) ... Setting up tcl8.5-dev:amd64 (8.5.19-1) ... Setting up tk8.5 (8.5.19-1ubuntu1) ... Setting up tk8.5-dev:amd64 (8.5.19-1ubuntu1) ... Processing triggers for libc-bin (2.23-0ubuntu11) ... travis_time:end:0089e9f8:start=1627598743254187273,finish=1627598748745125327,duration=5490938054,event=prepare travis_fold:end:apt travis_time:start:0c40f0fc travis_time:end:0c40f0fc:start=1627598748748599256,finish=1627598748750847189,duration=2247933,event=fix_ps4 travis_time:start:23c1b1b4  travis_fold:start:git.checkout travis_time:start:27f7b576 $ git clone --depth=50 --branch=master https://github.com/VilainLab/nanotatoR.git VilainLab/nanotatoR Cloning into 'VilainLab/nanotatoR'... remote: Enumerating objects: 679, done. remote: Counting objects: 0% (1/679) remote: Counting objects: 1% (7/679) remote: Counting objects: 2% (14/679) remote: Counting objects: 3% (21/679) remote: Counting objects: 4% (28/679) remote: Counting objects: 5% (34/679) remote: Counting objects: 6% (41/679) remote: Counting objects: 7% (48/679) remote: Counting objects: 8% (55/679) remote: Counting objects: 9% (62/679) remote: Counting objects: 10% 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Resolving deltas: 0% (0/419) Resolving deltas: 2% (10/419) Resolving deltas: 3% (14/419) Resolving deltas: 7% (32/419) Resolving deltas: 8% (35/419) Resolving deltas: 9% (40/419) Resolving deltas: 10% (44/419) Resolving deltas: 15% (65/419) Resolving deltas: 16% (70/419) Resolving deltas: 18% (78/419) Resolving deltas: 19% (80/419) Resolving deltas: 21% (89/419) Resolving deltas: 22% (94/419) Resolving deltas: 23% (98/419) Resolving deltas: 26% (110/419) Resolving deltas: 27% (116/419) Resolving deltas: 31% (132/419) Resolving deltas: 32% (138/419) Resolving deltas: 35% (148/419) Resolving deltas: 36% (151/419) Resolving deltas: 37% (157/419) Resolving deltas: 38% (161/419) Resolving deltas: 39% (165/419) Resolving deltas: 40% (170/419) Resolving deltas: 42% (177/419) Resolving deltas: 44% (185/419) Resolving deltas: 45% (190/419) Resolving deltas: 47% (197/419) Resolving deltas: 48% (205/419) Resolving deltas: 51% (216/419) Resolving deltas: 52% (218/419) Resolving deltas: 54% (227/419) Resolving deltas: 56% (237/419) Resolving deltas: 57% (242/419) Resolving deltas: 59% (248/419) Resolving deltas: 60% (255/419) Resolving deltas: 61% (256/419) Resolving deltas: 62% (262/419) Resolving deltas: 63% (264/419) Resolving deltas: 64% (270/419) Resolving deltas: 66% (277/419) Resolving deltas: 67% (281/419) Resolving deltas: 68% (285/419) Resolving deltas: 72% (304/419) Resolving deltas: 73% (306/419) Resolving deltas: 74% (311/419) Resolving deltas: 80% (336/419) Resolving deltas: 84% (356/419) Resolving deltas: 86% (362/419) Resolving deltas: 87% (365/419) Resolving deltas: 89% (373/419) Resolving deltas: 91% (382/419) Resolving deltas: 92% (386/419) Resolving deltas: 98% (414/419) Resolving deltas: 99% (417/419) Resolving deltas: 100% (419/419) Resolving deltas: 100% (419/419), done. travis_time:end:27f7b576:start=1627598748756981202,finish=1627598749889460812,duration=1132479610,event=checkout $ cd VilainLab/nanotatoR $ git checkout -qf 401e6167cb90a8f1479d9194c070a6d3874792cb travis_fold:end:git.checkout  travis_time:end:27f7b576:start=1627598748756981202,finish=1627598749904896788,duration=1147915586,event=checkout travis_time:start:048a894b travis_time:end:048a894b:start=1627598749908195987,finish=1627598749913937883,duration=5741896,event=env travis_fold:start:cache.1 Setting up build cache $ export CASHER_DIR=${TRAVIS_HOME}/.casher travis_time:start:073e7932 $ Installing caching utilities travis_time:end:073e7932:start=1627598750672249422,finish=1627598750965708323,duration=293458901,event=setup_casher travis_time:start:15ce6748 travis_time:end:15ce6748:start=1627598750970505615,finish=1627598750973315296,duration=2809681,event=setup_casher travis_time:start:048b11e9 attempting to download cache archive fetching master/cache--linux-xenial-e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855--R-4.1.0.tgz fetching master/cache-linux-xenial-e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855--R-4.1.0.tgz fetching master/cache--R-4.1.0.tgz could not download cache travis_time:end:048b11e9:start=1627598750976658980,finish=1627598752398412963,duration=1421753983,event=setup_casher travis_fold:end:cache.1  travis_fold:start:package Setting up package cache travis_time:start:0ed96618 travis_time:end:0ed96618:start=1627598752402373529,finish=1627598752404903939,duration=2530410,event=setup_cache travis_time:start:0f397a62 adding /home/travis/R/Library to cache creating directory /home/travis/R/Library travis_time:end:0f397a62:start=1627598752408193254,finish=1627598753320224915,duration=912031661,event=setup_cache travis_fold:end:package travis_fold:start:R-session-info R session information $ Rscript -e 'sessionInfo()' R version 4.1.0 (2021-05-18) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 16.04.6 LTS Matrix products: default BLAS: /usr/lib/openblas-base/libblas.so.3 LAPACK: /usr/lib/libopenblasp-r0.2.18.so locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] compiler_4.1.0 travis_fold:end:R-session-info travis_fold:start:Bioconductor Installing Bioconductor travis_time:start:06227ae5 $ Rscript -e 'if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager");if (FALSE) BiocManager::install(version = "devel", ask = FALSE);cat(append = TRUE, file = "~/.Rprofile.site", "options(repos = BiocManager::repositories());")' Installing package into ‘/home/travis/R/Library’ (as ‘lib’ is unspecified) trying URL 'https://cloud.r-project.org/src/contrib/BiocManager_1.30.16.tar.gz' Content type 'application/x-gzip' length 262502 bytes (256 KB) ================================================== downloaded 256 KB * installing *source* package ‘BiocManager’ ... ** package ‘BiocManager’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocManager) The downloaded source packages are in ‘/tmp/RtmplwtWfc/downloaded_packages’ travis_time:end:06227ae5:start=1627598753522940886,finish=1627598756929797425,duration=3406856539,event=install travis_fold:end:Bioconductor travis_fold:start:R-dependencies Installing package dependencies Installing R packages: remotes travis_time:start:0699d815 $ Rscript -e 'install.packages(c("remotes"));if (!all(c("remotes") %in% installed.packages())) { q(status = 1, save = "no")}' 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Installing package into ‘/home/travis/R/Library’ (as ‘lib’ is unspecified) trying URL 'https://cloud.r-project.org/src/contrib/remotes_2.4.0.tar.gz' Content type 'application/x-gzip' length 149836 bytes (146 KB) ================================================== downloaded 146 KB 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘remotes’ ... ** package ‘remotes’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (remotes) The downloaded source packages are in ‘/tmp/RtmpOIgAdY/downloaded_packages’ travis_time:end:0699d815:start=1627598756934294037,finish=1627598763623071091,duration=6688777054,event= travis_time:start:09a7c6a0 $ Rscript -e 'deps <- remotes::dev_package_deps(dependencies = NA);remotes::install_deps(dependencies = TRUE);if (!all(deps$package %in% installed.packages())) { message("missing: ", paste(setdiff(deps$package, installed.packages()), collapse=", ")); q(status = 1, save = "no")}' 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org xfun (NA -> 0.24 ) [CRAN] rlang (NA -> 0.4.11 ) [CRAN] base64enc (NA -> 0.1-3 ) [CRAN] digest (NA -> 0.6.27 ) [CRAN] stringi (NA -> 1.7.3 ) [CRAN] magrittr (NA -> 2.0.1 ) [CRAN] glue (NA -> 1.4.2 ) [CRAN] mime (NA -> 0.11 ) [CRAN] yaml (NA -> 2.2.1 ) [CRAN] stringr (NA -> 1.4.0 ) [CRAN] markdown (NA -> 1.1 ) [CRAN] highr (NA -> 0.9 ) [CRAN] evaluate (NA -> 0.14 ) [CRAN] Rcpp (NA -> 1.0.7 ) [CRAN] bitops (NA -> 1.0-7 ) [CRAN] ellipsis (NA -> 0.3.2 ) [CRAN] vctrs (NA -> 0.3.8 ) [CRAN] purrr (NA -> 0.3.4 ) [CRAN] sys (NA -> 3.4 ) [CRAN] zlibbioc (NA -> 1.38.0 ) [CRAN] askpass (NA -> 1.1 ) [CRAN] GenomeInf... (NA -> 1.2.6 ) [CRAN] RCurl (NA -> 1.98-1.3) [CRAN] fastmap (NA -> 1.1.0 ) [CRAN] cachem (NA -> 1.0.5 ) [CRAN] R6 (NA -> 2.5.0 ) [CRAN] openssl (NA -> 1.4.4 ) [CRAN] jsonlite (NA -> 1.7.2 ) [CRAN] curl (NA -> 4.3.2 ) [CRAN] bit (NA -> 4.0.4 ) [CRAN] crayon (NA -> 1.4.1 ) [CRAN] GenomeInfoDb (NA -> 1.28.1 ) [CRAN] XVector (NA -> 0.32.0 ) [CRAN] plogr (NA -> 0.2.0 ) [CRAN] pkgconfig (NA -> 2.0.3 ) [CRAN] memoise (NA -> 2.0.0 ) [CRAN] blob (NA -> 1.2.2 ) [CRAN] bit64 (NA -> 4.0.5 ) [CRAN] Biostrings (NA -> 2.60.1 ) [CRAN] png (NA -> 0.1-7 ) [CRAN] httr (NA -> 1.4.2 ) [CRAN] KEGGREST (NA -> 1.32.0 ) [CRAN] S4Vectors (NA -> 0.30.0 ) [CRAN] RSQLite (NA -> 2.2.7 ) [CRAN] DBI (NA -> 1.1.1 ) [CRAN] IRanges (NA -> 2.26.0 ) [CRAN] Biobase (NA -> 2.52.0 ) [CRAN] BiocGenerics (NA -> 0.38.0 ) [CRAN] xml2 (NA -> 1.3.2 ) [CRAN] plyr (NA -> 1.8.6 ) [CRAN] XML (NA -> 3.99-0.6) [CRAN] utf8 (NA -> 1.2.2 ) [CRAN] cli (NA -> 3.0.1 ) [CRAN] fansi (NA -> 0.5.0 ) [CRAN] pillar (NA -> 1.6.2 ) [CRAN] generics (NA -> 0.1.0 ) [CRAN] cpp11 (NA -> 0.3.1 ) [CRAN] tidyselect (NA -> 1.1.1 ) [CRAN] tibble (NA -> 3.1.3 ) [CRAN] lifecycle (NA -> 1.0.0 ) [CRAN] dplyr (NA -> 1.0.7 ) [CRAN] selectr (NA -> 0.4-2 ) [CRAN] ps (NA -> 1.6.0 ) [CRAN] tinytex (NA -> 0.32 ) [CRAN] htmltools (NA -> 0.5.1.1 ) [CRAN] processx (NA -> 3.5.2 ) [CRAN] withr (NA -> 2.4.2 ) [CRAN] rstudioapi (NA -> 0.13 ) [CRAN] rmarkdown (NA -> 2.9 ) [CRAN] knitr (NA -> 1.33 ) [CRAN] fs (NA -> 1.5.0 ) [CRAN] clipr (NA -> 0.7.1 ) [CRAN] callr (NA -> 3.7.0 ) [CRAN] prettyunits (NA -> 1.1.1 ) [CRAN] hms (NA -> 1.1.0 ) [CRAN] rematch (NA -> 1.0.1 ) [CRAN] progress (NA -> 1.2.2 ) [CRAN] cellranger (NA -> 1.1.0 ) [CRAN] tzdb (NA -> 0.1.2 ) [CRAN] vroom (NA -> 1.5.3 ) [CRAN] backports (NA -> 1.2.1 ) [CRAN] tidyr (NA -> 1.1.3 ) [CRAN] broom (NA -> 0.7.9 ) [CRAN] readr (NA -> 2.0.0 ) [CRAN] forcats (NA -> 0.5.1 ) [CRAN] colorspace (NA -> 2.0-2 ) [CRAN] viridisLite (NA -> 0.4.0 ) [CRAN] RColorBrewer (NA -> 1.1-2 ) [CRAN] munsell (NA -> 0.5.0 ) [CRAN] labeling (NA -> 0.4.2 ) [CRAN] farver (NA -> 2.1.0 ) [CRAN] scales (NA -> 1.1.1 ) [CRAN] isoband (NA -> 0.2.5 ) [CRAN] gtable (NA -> 0.3.0 ) [CRAN] uuid (NA -> 0.1-4 ) [CRAN] rappdirs (NA -> 0.3.3 ) [CRAN] rematch2 (NA -> 2.1.2 ) [CRAN] ids (NA -> 1.0.1 ) [CRAN] googledrive (NA -> 2.0.0 ) [CRAN] gargle (NA -> 1.2.0 ) [CRAN] data.table (NA -> 1.14.0 ) [CRAN] assertthat (NA -> 0.2.1 ) [CRAN] diffobj (NA -> 0.3.4 ) [CRAN] rprojroot (NA -> 2.0.2 ) [CRAN] desc (NA -> 1.3.0 ) [CRAN] Annotatio... (NA -> 1.54.1 ) [CRAN] RISmed (NA -> 2.3.0 ) [CRAN] XML2R (NA -> 0.0.6 ) [CRAN] rvest (NA -> 1.0.1 ) [CRAN] reprex (NA -> 2.0.0 ) [CRAN] readxl (NA -> 1.3.1 ) [CRAN] modelr (NA -> 0.1.8 ) [CRAN] lubridate (NA -> 1.7.10 ) [CRAN] haven (NA -> 2.4.1 ) [CRAN] ggplot2 (NA -> 3.3.5 ) [CRAN] googleshe... (NA -> 1.0.0 ) [CRAN] dtplyr (NA -> 1.1.0 ) [CRAN] dbplyr (NA -> 2.1.1 ) [CRAN] waldo (NA -> 0.2.5 ) [CRAN] praise (NA -> 1.0.0 ) [CRAN] pkgload (NA -> 1.2.1 ) [CRAN] brio (NA -> 1.1.2 ) [CRAN] zip (NA -> 2.2.0 ) [CRAN] org.Hs.eg.db (NA -> 3.13.0 ) [CRAN] VarfromPDB (NA -> 2.2.10 ) [CRAN] tidyverse (NA -> 1.3.1 ) [CRAN] GenomicRa... (NA -> 1.44.0 ) [CRAN] testthat (NA -> 3.0.4 ) [CRAN] rentrez (NA -> 1.2.3 ) [CRAN] openxlsx (NA -> 4.2.4 ) [CRAN] hash (NA -> 2.2.6.1 ) [CRAN] Installing 131 packages: xfun, rlang, base64enc, digest, stringi, magrittr, glue, mime, yaml, stringr, markdown, highr, evaluate, Rcpp, bitops, ellipsis, vctrs, purrr, sys, zlibbioc, askpass, GenomeInfoDbData, RCurl, fastmap, cachem, R6, openssl, jsonlite, curl, bit, crayon, GenomeInfoDb, XVector, plogr, pkgconfig, memoise, blob, bit64, Biostrings, png, httr, KEGGREST, S4Vectors, RSQLite, DBI, IRanges, Biobase, BiocGenerics, xml2, plyr, XML, utf8, cli, fansi, pillar, generics, cpp11, tidyselect, tibble, lifecycle, dplyr, selectr, ps, tinytex, htmltools, processx, withr, rstudioapi, rmarkdown, knitr, fs, clipr, callr, prettyunits, hms, rematch, progress, cellranger, tzdb, vroom, backports, tidyr, broom, readr, forcats, colorspace, viridisLite, RColorBrewer, munsell, labeling, farver, scales, isoband, gtable, uuid, rappdirs, rematch2, ids, googledrive, gargle, data.table, assertthat, diffobj, rprojroot, desc, AnnotationDbi, RISmed, XML2R, rvest, reprex, readxl, modelr, lubridate, haven, ggplot2, googlesheets4, dtplyr, dbplyr, waldo, praise, pkgload, brio, zip, org.Hs.eg.db, VarfromPDB, tidyverse, GenomicRanges, testthat, rentrez, openxlsx, hash Installing packages into ‘/home/travis/R/Library’ (as ‘lib’ is unspecified) trying URL 'https://cloud.r-project.org/src/contrib/xfun_0.24.tar.gz' Content type 'application/x-gzip' length 112441 bytes (109 KB) ================================================== downloaded 109 KB trying URL 'https://cloud.r-project.org/src/contrib/rlang_0.4.11.tar.gz' Content type 'application/x-gzip' length 861727 bytes (841 KB) ================================================== downloaded 841 KB trying URL 'https://cloud.r-project.org/src/contrib/base64enc_0.1-3.tar.gz' Content type 'application/x-gzip' length 7833 bytes ================================================== downloaded 7833 bytes 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for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘xfun’ ... ** package ‘xfun’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o xfun.so base64.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-xfun/00new/xfun/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (xfun) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rlang’ ... ** package ‘rlang’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./lib/ -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c capture.c -o capture.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./lib/ -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c export.c -o export.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./lib/ -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c internal.c -o internal.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./lib/ -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c lib.c -o lib.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./lib/ -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c version.c -o version.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o rlang.so capture.o export.o internal.o lib.o version.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-rlang/00new/rlang/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rlang) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘base64enc’ ... ** package ‘base64enc’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c uriencode.c -o uriencode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c utf8.c -o utf8.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o base64enc.so base64.o uriencode.o utf8.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-base64enc/00new/base64enc/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (base64enc) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘digest’ ... ** package ‘digest’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c SpookyV2.cpp -o SpookyV2.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c aes.c -o aes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c blake3.c -o blake3.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c blake3_dispatch.c -o blake3_dispatch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c blake3_portable.c -o blake3_portable.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c crc32.c -o crc32.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c digest.c -o digest.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c digest2int.c -o digest2int.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c md5.c -o md5.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pmurhash.c -o pmurhash.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c raes.c -o raes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sha1.c -o sha1.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sha2.c -o sha2.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sha256.c -o sha256.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c spooky_serialize.cpp -o spooky_serialize.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c xxhash.c -o xxhash.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o digest.so SpookyV2.o aes.o blake3.o blake3_dispatch.o blake3_portable.o crc32.o digest.o digest2int.o init.o md5.o pmurhash.o raes.o sha1.o sha2.o sha256.o spooky_serialize.o xxhash.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-digest/00new/digest/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (digest) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘stringi’ ... ** package ‘stringi’ successfully unpacked and MD5 sums checked ** using staged installation checking for R_HOME... /opt/R/4.1.0/lib/R checking for R... /opt/R/4.1.0/lib/R/bin/R checking for endianness... little checking for R >= 3.1.0 for C++11 use... yes checking for R < 3.4.0 for CXX1X flag use... no checking for cat... /bin/cat checking for local ICUDT_DIR... icu69/data checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking elf.h usability... yes checking elf.h presence... yes checking for elf.h... yes checking whether we are using the GNU C++ compiler... yes checking whether g++ -std=gnu++11 accepts -g... yes checking whether the C++ compiler supports the long long type... yes checking whether the compiler implements namespaces... yes checking whether the compiler supports Standard Template Library... yes checking whether std::map is available... yes checking for pkg-config... /usr/bin/pkg-config checking with pkg-config for the system ICU4C... 55.1 checking for ICU4C >= 55... yes checking for additional required CPPFLAGS, LDFLAGS, and LIBS... done checking whether an ICU4C-based project can be built... yes checking programmatically for sufficient U_ICU_VERSION_MAJOR_NUM... yes checking programmatically if U_CHARSET_IS_UTF8 is defined and set... no checking the capabilities of the ICU data library (ucnv, uloc, utrans)... yes checking the capabilities of the ICU data library (ucol)... yes configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/uconfig_local.h config.status: creating src/install.libs.R *** stringi configure summary: ICU_FOUND=1 STRINGI_CXXSTD=CXX_STD=CXX11 STRINGI_CFLAGS= -fpic STRINGI_CPPFLAGS=-I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H STRINGI_CXXFLAGS= -fpic STRINGI_LDFLAGS=-L/usr/lib/x86_64-linux-gnu STRINGI_LIBS=-licui18n -licuuc -licudata *** Compiler settings used: CC=gcc LD=g++ -std=gnu++14 CFLAGS=-g -O2 -fpic CPPFLAGS=-I/usr/local/include -UDEBUG -DNDEBUG CXX=g++ -std=gnu++11 CXXFLAGS=-g -O2 -fpic LDFLAGS= LIBS= ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_brkiter.cpp -o stri_brkiter.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_collator.cpp -o stri_collator.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_common.cpp -o stri_common.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_compare.cpp -o stri_compare.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_base.cpp -o stri_container_base.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_bytesearch.cpp -o stri_container_bytesearch.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_listint.cpp -o stri_container_listint.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_listraw.cpp -o stri_container_listraw.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_listutf8.cpp -o stri_container_listutf8.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_regex.cpp -o stri_container_regex.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_usearch.cpp -o stri_container_usearch.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_utf16.cpp -o stri_container_utf16.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_utf8.cpp -o stri_container_utf8.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_container_utf8_indexable.cpp -o stri_container_utf8_indexable.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_encoding_conversion.cpp -o stri_encoding_conversion.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_encoding_detection.cpp -o stri_encoding_detection.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_encoding_management.cpp -o stri_encoding_management.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_escape.cpp -o stri_escape.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_exception.cpp -o stri_exception.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_ICU_settings.cpp -o stri_ICU_settings.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_join.cpp -o stri_join.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_length.cpp -o stri_length.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_pad.cpp -o stri_pad.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_prepare_arg.cpp -o stri_prepare_arg.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_random.cpp -o stri_random.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_reverse.cpp -o stri_reverse.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_count.cpp -o stri_search_class_count.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_detect.cpp -o stri_search_class_detect.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_extract.cpp -o stri_search_class_extract.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_locate.cpp -o stri_search_class_locate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_replace.cpp -o stri_search_class_replace.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_split.cpp -o stri_search_class_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_startsendswith.cpp -o stri_search_class_startsendswith.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_subset.cpp -o stri_search_class_subset.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_class_trim.cpp -o stri_search_class_trim.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_common.cpp -o stri_search_common.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_count.cpp -o stri_search_coll_count.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_detect.cpp -o stri_search_coll_detect.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_extract.cpp -o stri_search_coll_extract.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_locate.cpp -o stri_search_coll_locate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_replace.cpp -o stri_search_coll_replace.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_split.cpp -o stri_search_coll_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_startsendswith.cpp -o stri_search_coll_startsendswith.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_coll_subset.cpp -o stri_search_coll_subset.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_boundaries_count.cpp -o stri_search_boundaries_count.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_boundaries_extract.cpp -o stri_search_boundaries_extract.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_boundaries_locate.cpp -o stri_search_boundaries_locate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_boundaries_split.cpp -o stri_search_boundaries_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_count.cpp -o stri_search_fixed_count.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_detect.cpp -o stri_search_fixed_detect.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_extract.cpp -o stri_search_fixed_extract.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_locate.cpp -o stri_search_fixed_locate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_replace.cpp -o stri_search_fixed_replace.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_split.cpp -o stri_search_fixed_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_subset.cpp -o stri_search_fixed_subset.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_fixed_startsendswith.cpp -o stri_search_fixed_startsendswith.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_in.cpp -o stri_search_in.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_other_split.cpp -o stri_search_other_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_count.cpp -o stri_search_regex_count.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_detect.cpp -o stri_search_regex_detect.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_extract.cpp -o stri_search_regex_extract.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_locate.cpp -o stri_search_regex_locate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_match.cpp -o stri_search_regex_match.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_replace.cpp -o stri_search_regex_replace.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_split.cpp -o stri_search_regex_split.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_search_regex_subset.cpp -o stri_search_regex_subset.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_sort.cpp -o stri_sort.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_sprintf.cpp -o stri_sprintf.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_stats.cpp -o stri_stats.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_stringi.cpp -o stri_stringi.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_sub.cpp -o stri_sub.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_test.cpp -o stri_test.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_time_zone.cpp -o stri_time_zone.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_time_calendar.cpp -o stri_time_calendar.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_time_symbols.cpp -o stri_time_symbols.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_time_format.cpp -o stri_time_format.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_trans_casemap.cpp -o stri_trans_casemap.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_trans_other.cpp -o stri_trans_other.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_trans_normalization.cpp -o stri_trans_normalization.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_trans_transliterate.cpp -o stri_trans_transliterate.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_ucnv.cpp -o stri_ucnv.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_uloc.cpp -o stri_uloc.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_utils.cpp -o stri_utils.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I/usr/include/x86_64-linux-gnu -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -I/usr/local/include -fpic -fpic -g -O2 -c stri_wrap.cpp -o stri_wrap.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o stringi.so stri_brkiter.o stri_collator.o stri_common.o stri_compare.o stri_container_base.o stri_container_bytesearch.o stri_container_listint.o stri_container_listraw.o stri_container_listutf8.o stri_container_regex.o stri_container_usearch.o stri_container_utf16.o stri_container_utf8.o stri_container_utf8_indexable.o stri_encoding_conversion.o stri_encoding_detection.o stri_encoding_management.o stri_escape.o stri_exception.o stri_ICU_settings.o stri_join.o stri_length.o stri_pad.o stri_prepare_arg.o stri_random.o stri_reverse.o stri_search_class_count.o stri_search_class_detect.o stri_search_class_extract.o stri_search_class_locate.o stri_search_class_replace.o stri_search_class_split.o stri_search_class_startsendswith.o stri_search_class_subset.o stri_search_class_trim.o stri_search_common.o stri_search_coll_count.o stri_search_coll_detect.o stri_search_coll_extract.o stri_search_coll_locate.o stri_search_coll_replace.o stri_search_coll_split.o stri_search_coll_startsendswith.o stri_search_coll_subset.o stri_search_boundaries_count.o stri_search_boundaries_extract.o stri_search_boundaries_locate.o stri_search_boundaries_split.o stri_search_fixed_count.o stri_search_fixed_detect.o stri_search_fixed_extract.o stri_search_fixed_locate.o stri_search_fixed_replace.o stri_search_fixed_split.o stri_search_fixed_subset.o stri_search_fixed_startsendswith.o stri_search_in.o stri_search_other_split.o stri_search_regex_count.o stri_search_regex_detect.o stri_search_regex_extract.o stri_search_regex_locate.o stri_search_regex_match.o stri_search_regex_replace.o stri_search_regex_split.o stri_search_regex_subset.o stri_sort.o stri_sprintf.o stri_stats.o stri_stringi.o stri_sub.o stri_test.o stri_time_zone.o stri_time_calendar.o stri_time_symbols.o stri_time_format.o stri_trans_casemap.o stri_trans_other.o stri_trans_normalization.o stri_trans_transliterate.o stri_ucnv.o stri_uloc.o stri_utils.o stri_wrap.o -L/usr/lib/x86_64-linux-gnu -licui18n -licuuc -licudata -L/opt/R/4.1.0/lib/R/lib -lR installing via 'install.libs.R' to /home/travis/R/Library/00LOCK-stringi/00new/stringi ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (stringi) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘magrittr’ ... ** package ‘magrittr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pipe.c -o pipe.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c utils.c -o utils.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o magrittr.so pipe.o utils.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-magrittr/00new/magrittr/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (magrittr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘glue’ ... ** package ‘glue’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c glue.c -o glue.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c trim.c -o trim.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o glue.so glue.o init.o trim.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-glue/00new/glue/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (glue) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘mime’ ... ** package ‘mime’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rawmatch.c -o rawmatch.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o mime.so init.o rawmatch.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-mime/00new/mime/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (mime) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘yaml’ ... ** package ‘yaml’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c api.c -o api.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dumper.c -o dumper.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c emitter.c -o emitter.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c implicit.c -o implicit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c loader.c -o loader.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c parser.c -o parser.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c r_emit.c -o r_emit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c r_ext.c -o r_ext.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c r_parse.c -o r_parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c reader.c -o reader.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c scanner.c -o scanner.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -DNDEBUG -I/usr/local/include -fpic -g -O2 -c writer.c -o writer.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-yaml/00new/yaml/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (yaml) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘evaluate’ ... ** package ‘evaluate’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (evaluate) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘Rcpp’ ... ** package ‘Rcpp’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c api.cpp -o api.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c attributes.cpp -o attributes.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c barrier.cpp -o barrier.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c date.cpp -o date.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c module.cpp -o module.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c rcpp_init.cpp -o rcpp_init.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-Rcpp/00new/Rcpp/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (Rcpp) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘bitops’ ... ** package ‘bitops’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bit-ops.c -o bit-ops.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cksum.c -o cksum.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o bitops.so bit-ops.o cksum.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-bitops/00new/bitops/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (bitops) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘sys’ ... ** package ‘sys’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c exec.c -o exec.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o sys.so exec.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-sys/00new/sys/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (sys) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘zlibbioc’ ... ** using staged installation configure: creating ./config.status config.status: creating src/Makevars ** libs mkdir -p "/home/travis/R/Library/00LOCK-zlibbioc/00new/zlibbioc/include" gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c R_init_zlibbioc.c -o R_init_zlibbioc.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o zlibbioc.so R_init_zlibbioc.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-zlibbioc/00new/zlibbioc/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (zlibbioc) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘GenomeInfoDbData’ ... ** using staged installation ** data ** inst ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (GenomeInfoDbData) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘fastmap’ ... ** package ‘fastmap’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Ilib/ -I/usr/local/include -DR_NO_REMAP -fpic -g -O2 -c fastmap.cpp -o fastmap.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Ilib/ -I/usr/local/include -fpic -g -O2 -c init.c -o init.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o fastmap.so fastmap.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-fastmap/00new/fastmap/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (fastmap) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘R6’ ... ** package ‘R6’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (R6) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘jsonlite’ ... ** package ‘jsonlite’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c collapse_array.c -o collapse_array.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c collapse_object.c -o collapse_object.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c collapse_pretty.c -o collapse_pretty.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c escape_chars.c -o escape_chars.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c integer64_to_na.c -o integer64_to_na.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c is_datelist.c -o is_datelist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c is_recordlist.c -o is_recordlist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c is_scalarlist.c -o is_scalarlist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c modp_numtoa.c -o modp_numtoa.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c null_to_na.c -o null_to_na.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c num_to_char.c -o num_to_char.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c parse.c -o parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c prettify.c -o prettify.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c push_parser.c -o push_parser.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c r-base64.c -o r-base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c register.c -o register.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c row_collapse.c -o row_collapse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c transpose_list.c -o transpose_list.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c validate.c -o validate.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl.c -o yajl/yajl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_buf.c -o yajl/yajl_buf.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_encode.c -o yajl/yajl_encode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_gen.c -o yajl/yajl_gen.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_lex.c -o yajl/yajl_lex.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_parser.c -o yajl/yajl_parser.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iyajl/api -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c yajl/yajl_tree.c -o yajl/yajl_tree.o ar rcs yajl/libstatyajl.a yajl/yajl.o yajl/yajl_alloc.o yajl/yajl_buf.o yajl/yajl_encode.o yajl/yajl_gen.o yajl/yajl_lex.o yajl/yajl_parser.o yajl/yajl_tree.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o jsonlite.so base64.o collapse_array.o collapse_object.o collapse_pretty.o escape_chars.o integer64_to_na.o is_datelist.o is_recordlist.o is_scalarlist.o modp_numtoa.o null_to_na.o num_to_char.o parse.o prettify.o push_parser.o r-base64.o register.o row_collapse.o transpose_list.o validate.o -Lyajl -lstatyajl -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-jsonlite/00new/jsonlite/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org in method for ‘asJSON’ with signature ‘"blob"’: no definition for class “blob” ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (jsonlite) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘curl’ ... ** package ‘curl’ successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS= Using PKG_LIBS=-lcurl ** libs rm -f curl.so callbacks.o curl.o download.o escape.o fetch.o form.o getdate.o handle.o ieproxy.o init.o interrupt.o multi.o nslookup.o reflist.o split.o ssl.o typechecking.o utils.o version.o winidn.o writer.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c callbacks.c -o callbacks.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c curl.c -o curl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c download.c -o download.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c escape.c -o escape.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c fetch.c -o fetch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c form.c -o form.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c getdate.c -o getdate.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c handle.c -o handle.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ieproxy.c -o ieproxy.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c interrupt.c -o interrupt.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c multi.c -o multi.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c nslookup.c -o nslookup.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c reflist.c -o reflist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c split.c -o split.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ssl.c -o ssl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c typechecking.c -o typechecking.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c version.c -o version.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c winidn.c -o winidn.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DSTRICT_R_HEADERS -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c writer.c -o writer.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o curl.so callbacks.o curl.o download.o escape.o fetch.o form.o getdate.o handle.o ieproxy.o init.o interrupt.o multi.o nslookup.o reflist.o split.o ssl.o typechecking.o utils.o version.o winidn.o writer.o -lcurl -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-curl/00new/curl/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (curl) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘bit’ ... ** package ‘bit’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c attrutil.c -o attrutil.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bit.c -o bit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c chunkutil.c -o chunkutil.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c clone.c -o clone.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c integerutil.c -o integerutil.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c merge.c -o merge.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rle.c -o rle.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sort.c -o sort.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o bit.so attrutil.o bit.o chunkutil.o clone.o init.o integerutil.o merge.o rle.o sort.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-bit/00new/bit/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (bit) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘crayon’ ... ** package ‘crayon’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (crayon) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘plogr’ ... ** package ‘plogr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (plogr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘pkgconfig’ ... ** package ‘pkgconfig’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (pkgconfig) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘png’ ... ** package ‘png’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include `libpng-config --cflags` -fpic -g -O2 -c read.c -o read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include `libpng-config --cflags` -fpic -g -O2 -c write.c -o write.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o png.so read.o write.o -lpng12 -lz -lm -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-png/00new/png/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (png) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘DBI’ ... ** package ‘DBI’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (DBI) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘BiocGenerics’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Creating a new generic function for ‘append’ in package ‘BiocGenerics’ Creating a new generic function for ‘as.data.frame’ in package ‘BiocGenerics’ Creating a new generic function for ‘cbind’ in package ‘BiocGenerics’ Creating a new generic function for ‘rbind’ in package ‘BiocGenerics’ Creating a new generic function for ‘do.call’ in package ‘BiocGenerics’ Creating a new generic function for ‘duplicated’ in package ‘BiocGenerics’ Creating a new generic function for ‘anyDuplicated’ in package ‘BiocGenerics’ Creating a new generic function for ‘eval’ in package ‘BiocGenerics’ Creating a new generic function for ‘pmax’ in package ‘BiocGenerics’ Creating a new generic function for ‘pmin’ in package ‘BiocGenerics’ Creating a new generic function for ‘pmax.int’ in package ‘BiocGenerics’ Creating a new generic function for ‘pmin.int’ in package ‘BiocGenerics’ Creating a new generic function for ‘Reduce’ in package ‘BiocGenerics’ Creating a new generic function for ‘Filter’ in package ‘BiocGenerics’ Creating a new generic function for ‘Find’ in package ‘BiocGenerics’ Creating a new generic function for ‘Map’ in package ‘BiocGenerics’ Creating a new generic function for ‘Position’ in package ‘BiocGenerics’ Creating a new generic function for ‘get’ in package ‘BiocGenerics’ Creating a new generic function for ‘mget’ in package ‘BiocGenerics’ Creating a new generic function for ‘grep’ in package ‘BiocGenerics’ Creating a new generic function for ‘grepl’ in package ‘BiocGenerics’ Creating a new generic function for ‘is.unsorted’ in package ‘BiocGenerics’ Creating a new generic function for ‘lapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘sapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘mapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘match’ in package ‘BiocGenerics’ Creating a new generic function for ‘order’ in package ‘BiocGenerics’ Creating a new generic function for ‘paste’ in package ‘BiocGenerics’ Creating a new generic function for ‘rank’ in package ‘BiocGenerics’ Creating a new generic function for ‘rownames’ in package ‘BiocGenerics’ Creating a new generic function for ‘colnames’ in package ‘BiocGenerics’ Creating a new generic function for ‘union’ in package ‘BiocGenerics’ Creating a new generic function for ‘intersect’ in package ‘BiocGenerics’ Creating a new generic function for ‘setdiff’ in package ‘BiocGenerics’ Creating a new generic function for ‘sort’ in package ‘BiocGenerics’ Creating a new generic function for ‘table’ in package ‘BiocGenerics’ Creating a new generic function for ‘tapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘unique’ in package ‘BiocGenerics’ Creating a new generic function for ‘unsplit’ in package ‘BiocGenerics’ Creating a new generic function for ‘var’ in package ‘BiocGenerics’ Creating a new generic function for ‘sd’ in package ‘BiocGenerics’ Creating a new generic function for ‘which.min’ in package ‘BiocGenerics’ Creating a new generic function for ‘which.max’ in package ‘BiocGenerics’ Creating a new generic function for ‘IQR’ in package ‘BiocGenerics’ Creating a new generic function for ‘mad’ in package ‘BiocGenerics’ Creating a new generic function for ‘xtabs’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterCall’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterApply’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterApplyLB’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterEvalQ’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterExport’ in package ‘BiocGenerics’ Creating a new generic function for ‘clusterMap’ in package ‘BiocGenerics’ Creating a new generic function for ‘parLapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘parSapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘parApply’ in package ‘BiocGenerics’ Creating a new generic function for ‘parRapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘parCapply’ in package ‘BiocGenerics’ Creating a new generic function for ‘parLapplyLB’ in package ‘BiocGenerics’ Creating a new generic function for ‘parSapplyLB’ in package ‘BiocGenerics’ Creating a new generic function for ‘basename’ in package ‘BiocGenerics’ Creating a new generic function for ‘dirname’ in package ‘BiocGenerics’ ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (BiocGenerics) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘xml2’ ... ** package ‘xml2’ successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS=-I/usr/include/libxml2 Using PKG_LIBS=-lxml2 ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c connection.cpp -o connection.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fpic -g -O2 -c init.c -o init.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_doc.cpp -o xml2_doc.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_init.cpp -o xml2_init.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_namespace.cpp -o xml2_namespace.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_node.cpp -o xml2_node.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_output.cpp -o xml2_output.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_schema.cpp -o xml2_schema.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_url.cpp -o xml2_url.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -I/usr/include/libxml2 -DUCHAR_TYPE=wchar_t -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xml2_xpath.cpp -o xml2_xpath.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o xml2.so connection.o init.o xml2_doc.o xml2_init.o xml2_namespace.o xml2_node.o xml2_output.o xml2_schema.o xml2_url.o xml2_xpath.o -lxml2 -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-xml2/00new/xml2/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (xml2) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘XML’ ... ** package ‘XML’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for sed... /bin/sed checking for pkg-config... /usr/bin/pkg-config checking for xml2-config... /usr/bin/xml2-config USE_XML2 = yes SED_EXTENDED_ARG: -E Minor 9, Patch 3 for 2.9.3 Located parser file -I/usr/include/libxml2/parser.h Checking for 1.8: -I/usr/include/libxml2 Using libxml2.* checking for gzopen in -lz... yes checking for xmlParseFile in -lxml2... yes checking for xmlHashSize in -lxml2... yes Using built-in xmlHashSize Checking DTD parsing (presence of externalSubset)... checking for xmlHashSize in -lxml2... yes Found xmlHashSize checking for xmlOutputBufferCreateBuffer in -lxml2... yes have xmlOutputBufferCreateBuffer() checking for xmlDocDumpFormatMemoryEnc in -lxml2... yes checking libxml/xmlversion.h usability... yes checking libxml/xmlversion.h presence... yes checking for libxml/xmlversion.h... yes Expat: FALSE Checking for return type of xmlHashScan element routine. No return value for xmlHashScan xmlNs has a context field Checking for cetype_t enumeration Using recent version of R with cetype_t enumeration type for encoding checking for xmlsec1-config... no nodegc default xml-debug default Version has XML_WITH_ZLIB Version has xmlHasFeature() **************************************** Configuration information: Libxml settings libxml include directory: -I/usr/include/libxml2 libxml library directory: -lxml2 -lz -lxml2 libxml 2: -DLIBXML2=1 Compilation flags: -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 Link flags: -lxml2 -lz -lxml2 **************************************** configure: creating ./config.status config.status: creating src/Makevars config.status: creating R/supports.R config.status: creating inst/scripts/RSXML.csh config.status: creating inst/scripts/RSXML.bsh ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c DocParse.c -o DocParse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c EventParse.c -o EventParse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c ExpatParse.c -o ExpatParse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c HTMLParse.c -o HTMLParse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c NodeGC.c -o NodeGC.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c RSDTD.c -o RSDTD.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c RUtils.c -o RUtils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c Rcatalog.c -o Rcatalog.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c Utils.c -o Utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c XMLEventParse.c -o XMLEventParse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c XMLHashTree.c -o XMLHashTree.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c XMLTree.c -o XMLTree.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c fixNS.c -o fixNS.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c libxmlFeatures.c -o libxmlFeatures.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c schema.c -o schema.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c xmlsecurity.c -o xmlsecurity.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DLIBXML_NAMESPACE_HAS_CONTEXT=1 -DHAVE_R_CETYPE_T=1 -DHAVE_XML_WITH_ZLIB=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1 -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 -I. -DLIBXML2=1 -I/usr/local/include -fpic -g -O2 -c xpath.c -o xpath.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o XML.so DocParse.o EventParse.o ExpatParse.o HTMLParse.o NodeGC.o RSDTD.o RUtils.o Rcatalog.o Utils.o XMLEventParse.o XMLHashTree.o XMLTree.o fixNS.o libxmlFeatures.o schema.o xmlsecurity.o xpath.o -lxml2 -lz -lxml2 -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-XML/00new/XML/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Creating a generic function for ‘source’ from package ‘base’ in package ‘XML’ in method for ‘xmlAttrsToDataFrame’ with signature ‘"AsIs"’: no definition for class “AsIs” in method for ‘readKeyValueDB’ with signature ‘"AsIs"’: no definition for class “AsIs” in method for ‘readSolrDoc’ with signature ‘"AsIs"’: no definition for class “AsIs” ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (XML) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘utf8’ ... ** package ‘utf8’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c as_utf8.c -o as_utf8.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c bytes.c -o bytes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c context.c -o context.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c render.c -o render.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c render_table.c -o render_table.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c string.c -o string.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c text.c -o text.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8_encode.c -o utf8_encode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8_format.c -o utf8_format.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8_normalize.c -o utf8_normalize.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8_valid.c -o utf8_valid.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8_width.c -o utf8_width.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c util.c -o util.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/array.c -o utf8lite/src/array.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/char.c -o utf8lite/src/char.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/encode.c -o utf8lite/src/encode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/error.c -o utf8lite/src/error.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/escape.c -o utf8lite/src/escape.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/graph.c -o utf8lite/src/graph.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/graphscan.c -o utf8lite/src/graphscan.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/normalize.c -o utf8lite/src/normalize.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/render.c -o utf8lite/src/render.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/text.c -o utf8lite/src/text.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/textassign.c -o utf8lite/src/textassign.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/textiter.c -o utf8lite/src/textiter.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -Iutf8lite/src -fpic -g -O2 -c utf8lite/src/textmap.c -o utf8lite/src/textmap.o ar rcs libcutf8lite.a utf8lite/src/array.o utf8lite/src/char.o utf8lite/src/encode.o utf8lite/src/error.o utf8lite/src/escape.o utf8lite/src/graph.o utf8lite/src/graphscan.o utf8lite/src/normalize.o utf8lite/src/render.o utf8lite/src/text.o utf8lite/src/textassign.o utf8lite/src/textiter.o utf8lite/src/textmap.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o utf8.so as_utf8.o bytes.o context.o init.o render.o render_table.o string.o text.o utf8_encode.o utf8_format.o utf8_normalize.o utf8_valid.o utf8_width.o util.o -L. -lcutf8lite -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-utf8/00new/utf8/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (utf8) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘fansi’ ... ** package ‘fansi’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c assumptions.c -o assumptions.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c has.c -o has.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c nchar.c -o nchar.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c read.c -o read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rnchar.c -o rnchar.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c state.c -o state.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c strip.c -o strip.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c strsplit.c -o strsplit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c tabs.c -o tabs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c tohtml.c -o tohtml.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unhandled.c -o unhandled.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unique.c -o unique.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c utf8.c -o utf8.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c wrap.c -o wrap.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o fansi.so assumptions.o has.o init.o nchar.o read.o rnchar.o state.o strip.o strsplit.o tabs.o tohtml.o unhandled.o unique.o utf8.o utils.o wrap.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-fansi/00new/fansi/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (fansi) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘generics’ ... ** package ‘generics’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (generics) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘cpp11’ ... ** package ‘cpp11’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (cpp11) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘ps’ ... ** package ‘ps’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -g -O2 -Wall px.c -o px gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c api-common.c -o api-common.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c common.c -o common.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c extra.c -o extra.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dummy.c -o dummy.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c error-codes.c -o error-codes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c posix.c -o posix.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c api-posix.c -o api-posix.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c linux.c -o linux.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c api-linux.c -o api-linux.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o posix.o api-posix.o linux.o api-linux.o -L/opt/R/4.1.0/lib/R/lib -lR installing via 'install.libs.R' to /home/travis/R/Library/00LOCK-ps/00new/ps ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (ps) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘withr’ ... ** package ‘withr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (withr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rstudioapi’ ... ** package ‘rstudioapi’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rstudioapi) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘fs’ ... ** package ‘fs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c init.cc -o init.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c id.cc -o id.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c file.cc -o file.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c utils.cc -o utils.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c link.cc -o link.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c path.cc -o path.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c getmode.cc -o getmode.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c fs.cc -o fs.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c dir.cc -o dir.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c error.cc -o error.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c unix/getmode.cc -o unix/getmode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c bsd/setmode.c -o bsd/setmode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c bsd/strmode.c -o bsd/strmode.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I./libuv-1.38.1/include -I. -pthread -I/usr/local/include -fpic -g -O2 -c bsd/reallocarray.c -o bsd/reallocarray.o (cd libuv-1.38.1 \ && CC="gcc" CFLAGS="-g -O2 -I/usr/local/include -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" LDFLAGS="-L/usr/local/lib" ./configure --quiet) make --directory=libuv-1.38.1 \ HAVE_DTRACE=0 make[1]: Entering directory '/tmp/RtmpLsBzos/R.INSTALL50a125328bf2/fs/src/libuv-1.38.1' CC src/libuv_la-fs-poll.lo CC src/libuv_la-idna.lo CC src/libuv_la-inet.lo CC src/libuv_la-random.lo CC src/libuv_la-strscpy.lo CC src/libuv_la-threadpool.lo CC src/libuv_la-timer.lo CC src/libuv_la-uv-data-getter-setters.lo CC src/libuv_la-uv-common.lo CC src/libuv_la-version.lo CC src/unix/libuv_la-async.lo CC src/unix/libuv_la-core.lo CC src/unix/libuv_la-dl.lo CC src/unix/libuv_la-fs.lo CC src/unix/libuv_la-getaddrinfo.lo CC src/unix/libuv_la-getnameinfo.lo CC src/unix/libuv_la-loop-watcher.lo CC src/unix/libuv_la-loop.lo CC src/unix/libuv_la-pipe.lo CC src/unix/libuv_la-poll.lo CC src/unix/libuv_la-process.lo CC src/unix/libuv_la-random-devurandom.lo CC src/unix/libuv_la-signal.lo CC src/unix/libuv_la-stream.lo CC src/unix/libuv_la-tcp.lo CC src/unix/libuv_la-thread.lo CC src/unix/libuv_la-tty.lo CC src/unix/libuv_la-udp.lo CC src/unix/libuv_la-linux-core.lo CC src/unix/libuv_la-linux-inotify.lo CC src/unix/libuv_la-linux-syscalls.lo CC src/unix/libuv_la-procfs-exepath.lo CC src/unix/libuv_la-proctitle.lo CC src/unix/libuv_la-random-getrandom.lo CC src/unix/libuv_la-random-sysctl-linux.lo CCLD libuv.la ar: `u' modifier ignored since `D' is the default (see `U') make[1]: Leaving directory '/tmp/RtmpLsBzos/R.INSTALL50a125328bf2/fs/src/libuv-1.38.1' g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o fs.so init.o id.o file.o utils.o link.o path.o getmode.o fs.o dir.o error.o unix/getmode.o bsd/setmode.o bsd/strmode.o bsd/reallocarray.o ./libuv-1.38.1/.libs/libuv.a -pthread -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-fs/00new/fs/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (fs) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘clipr’ ... ** package ‘clipr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (clipr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘prettyunits’ ... ** package ‘prettyunits’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (prettyunits) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rematch’ ... ** package ‘rematch’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rematch) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘backports’ ... ** package ‘backports’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dotsElt.c -o dotsElt.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dotsLength.c -o dotsLength.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o backports.so dotsElt.o dotsLength.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-backports/00new/backports/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (backports) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘colorspace’ ... ** package ‘colorspace’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c colorspace.c -o colorspace.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o colorspace.so colorspace.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-colorspace/00new/colorspace/libs ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (colorspace) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘viridisLite’ ... ** package ‘viridisLite’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (viridisLite) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘RColorBrewer’ ... ** package ‘RColorBrewer’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (RColorBrewer) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘labeling’ ... ** package ‘labeling’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (labeling) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘farver’ ... ** package ‘farver’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ColorSpace.cpp -o ColorSpace.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Comparison.cpp -o Comparison.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Conversion.cpp -o Conversion.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c encode.cpp -o encode.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c farver.cpp -o farver.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.cpp -o init.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o farver.so ColorSpace.o Comparison.o Conversion.o encode.o farver.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-farver/00new/farver/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (farver) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘isoband’ ... ** package ‘isoband’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c clip-lines.cpp -o clip-lines.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c init.cpp -o init.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c isoband.cpp -o isoband.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c polygon.cpp -o polygon.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c separate-polygons.cpp -o separate-polygons.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c test-clip-lines.cpp -o test-clip-lines.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c test-runner.cpp -o test-runner.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Itestthat -I/usr/local/include -fpic -g -O2 -c test-separate-polygons.cpp -o test-separate-polygons.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o isoband.so clip-lines.o init.o isoband.o polygon.o separate-polygons.o test-clip-lines.o test-runner.o test-separate-polygons.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-isoband/00new/isoband/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (isoband) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘gtable’ ... ** package ‘gtable’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (gtable) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘uuid’ ... ** package ‘uuid’ successfully unpacked and MD5 sums checked ** using staged installation checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... yes checking for stdlib.h... (cached) yes checking sys/file.h usability... yes checking sys/file.h presence... yes checking for sys/file.h... yes checking sys/ioctl.h usability... yes checking sys/ioctl.h presence... yes checking for sys/ioctl.h... yes checking sys/socket.h usability... yes checking sys/socket.h presence... yes checking for sys/socket.h... yes checking sys/sockio.h usability... no checking sys/sockio.h presence... no checking for sys/sockio.h... no checking sys/syscall.h usability... yes checking sys/syscall.h presence... yes checking for sys/syscall.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking sys/un.h usability... yes checking sys/un.h presence... yes checking for sys/un.h... yes checking for unistd.h... (cached) yes checking for net/if.h... yes checking for net/if_dl.h... no checking for jrand48... yes checking for flock... yes checking for struct sockaddr.sa_len... no checking dlfcn.h usability... yes checking dlfcn.h presence... yes checking for dlfcn.h... yes checking for library containing dlsym... -ldl configure: creating ./config.status config.status: creating src/Makevars config.status: creating src/config.h ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c R.c -o R.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c clear.c -o clear.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c compare.c -o compare.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c copy.c -o copy.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c gen_uuid.c -o gen_uuid.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c isnull.c -o isnull.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c pack.c -o pack.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c parse.c -o parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c rand.c -o rand.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c unpack.c -o unpack.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -I/usr/local/include -fpic -g -O2 -c unparse.c -o unparse.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o uuid.so R.o clear.o compare.o copy.o gen_uuid.o isnull.o pack.o parse.o rand.o unpack.o unparse.o -ldl -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-uuid/00new/uuid/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (uuid) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rappdirs’ ... ** package ‘rappdirs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c win-path.c -o win-path.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o rappdirs.so init.o win-path.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-rappdirs/00new/rappdirs/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rappdirs) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘data.table’ ... ** package ‘data.table’ successfully unpacked and MD5 sums checked ** using staged installation gcc 5.4.0 zlib 1.2.8 is available ok R CMD SHLIB supports OpenMP without any extra hint ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c assign.c -o assign.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c between.c -o between.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c bmerge.c -o bmerge.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c chmatch.c -o chmatch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c cj.c -o cj.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c coalesce.c -o coalesce.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c dogroups.c -o dogroups.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fastmean.c -o fastmean.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fcast.c -o fcast.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fifelse.c -o fifelse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fmelt.c -o fmelt.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c forder.c -o forder.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c frank.c -o frank.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fread.c -o fread.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c freadR.c -o freadR.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c froll.c -o froll.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c frollR.c -o frollR.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c frolladaptive.c -o frolladaptive.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fsort.c -o fsort.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fwrite.c -o fwrite.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c fwriteR.c -o fwriteR.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c gsumm.c -o gsumm.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c ijoin.c -o ijoin.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c inrange.c -o inrange.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c nafill.c -o nafill.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c nqrecreateindices.c -o nqrecreateindices.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c openmp-utils.c -o openmp-utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c quickselect.c -o quickselect.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c rbindlist.c -o rbindlist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c reorder.c -o reorder.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c shift.c -o shift.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c snprintf.c -o snprintf.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c subset.c -o subset.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c transpose.c -o transpose.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c types.c -o types.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c uniqlist.c -o uniqlist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c vecseq.c -o vecseq.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -g -O2 -c wrappers.c -o wrappers.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o fwriteR.o gsumm.o ijoin.o init.o inrange.o nafill.o nqrecreateindices.o openmp-utils.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fopenmp -lz -L/opt/R/4.1.0/lib/R/lib -lR PKG_CFLAGS = -fopenmp PKG_LIBS = -fopenmp -lz if [ "data.table.so" != "datatable.so" ]; then mv data.table.so datatable.so; fi if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id datatable.so datatable.so; fi installing to /home/travis/R/Library/00LOCK-data.table/00new/data.table/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (data.table) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘assertthat’ ... ** package ‘assertthat’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (assertthat) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rprojroot’ ... ** package ‘rprojroot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rprojroot) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘praise’ ... ** package ‘praise’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (praise) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘brio’ ... ** package ‘brio’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c brio.c -o brio.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c file_line_endings.c -o file_line_endings.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c read_file.c -o read_file.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c read_file_raw.c -o read_file_raw.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c read_lines.c -o read_lines.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c write_file.c -o write_file.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c write_lines.c -o write_lines.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o brio.so brio.o file_line_endings.o init.o read_file.o read_file_raw.o read_lines.o write_file.o write_lines.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-brio/00new/brio/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (brio) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘zip’ ... ** package ‘zip’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -g -O2 miniz.c zip.c unixutils.c tools/cmdzip.c -o tools/cmdzip gcc -g -O2 miniz.c zip.c unixutils.c tools/cmdunzip.c -o tools/cmdunzip gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c miniz.c -o miniz.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rzip.c -o rzip.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c zip.c -o zip.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unixutils.c -o unixutils.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o zip.so init.o miniz.o rzip.o zip.o unixutils.o -L/opt/R/4.1.0/lib/R/lib -lR installing via 'install.libs.R' to /home/travis/R/Library/00LOCK-zip/00new/zip ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (zip) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘hash’ ... ** package ‘hash’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (hash) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘stringr’ ... ** package ‘stringr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (stringr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘markdown’ ... ** package ‘markdown’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rbase64.c -o Rbase64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rinit.c -o Rinit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rmarkdown.c -o Rmarkdown.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c autolink.c -o autolink.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c buffer.c -o buffer.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c houdini_href_e.c -o houdini_href_e.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c houdini_html_e.c -o houdini_html_e.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c html.c -o html.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c html_smartypants.c -o html_smartypants.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c markdown.c -o markdown.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c stack.c -o stack.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o markdown.so Rbase64.o Rinit.o Rmarkdown.o autolink.o buffer.o houdini_href_e.o houdini_html_e.o html.o html_smartypants.o markdown.o stack.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-markdown/00new/markdown/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (markdown) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘highr’ ... ** package ‘highr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (highr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘ellipsis’ ... ** package ‘ellipsis’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c dots.c -o dots.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o ellipsis.so dots.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-ellipsis/00new/ellipsis/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (ellipsis) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘purrr’ ... ** package ‘purrr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c backports.c -o backports.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c coerce.c -o coerce.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c conditions.c -o conditions.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c flatten.c -o flatten.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c map.c -o map.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pluck.c -o pluck.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c transpose.c -o transpose.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c utils.c -o utils.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o purrr.so backports.o coerce.o conditions.o flatten.o init.o map.o pluck.o transpose.o utils.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-purrr/00new/purrr/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (purrr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘askpass’ ... ** package ‘askpass’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c askpass.c -o askpass.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o askpass.so askpass.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-askpass/00new/askpass/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (askpass) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘RCurl’ ... ** package ‘RCurl’ successfully unpacked and MD5 sums checked ** using staged installation checking for curl-config... /usr/bin/curl-config checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking how to run the C preprocessor... gcc -E Version has a libidn field Version has CURLOPT_URL Version has CURLINFO_EFFECTIVE_URL Version has CURLINFO_RESPONSE_CODE Version has CURLINFO_TOTAL_TIME Version has CURLINFO_NAMELOOKUP_TIME Version has CURLINFO_CONNECT_TIME Version has CURLINFO_PRETRANSFER_TIME Version has CURLINFO_SIZE_UPLOAD Version has CURLINFO_SIZE_DOWNLOAD Version has CURLINFO_SPEED_DOWNLOAD Version has CURLINFO_SPEED_UPLOAD Version has CURLINFO_HEADER_SIZE Version has CURLINFO_REQUEST_SIZE Version has CURLINFO_SSL_VERIFYRESULT Version has CURLINFO_FILETIME Version has CURLINFO_CONTENT_LENGTH_DOWNLOAD Version has CURLINFO_CONTENT_LENGTH_UPLOAD Version has CURLINFO_STARTTRANSFER_TIME Version has CURLINFO_CONTENT_TYPE Version has CURLINFO_REDIRECT_TIME Version has CURLINFO_REDIRECT_COUNT Version has CURLINFO_PRIVATE Version has CURLINFO_HTTP_CONNECTCODE Version has CURLINFO_HTTPAUTH_AVAIL Version has CURLINFO_PROXYAUTH_AVAIL Version has CURLINFO_OS_ERRNO Version has CURLINFO_NUM_CONNECTS Version has CURLINFO_SSL_ENGINES Version has CURLINFO_COOKIELIST Version has CURLINFO_LASTSOCKET Version has CURLINFO_FTP_ENTRY_PATH Version has CURLINFO_REDIRECT_URL Version has CURLINFO_PRIMARY_IP Version has CURLINFO_APPCONNECT_TIME Version has CURLINFO_CERTINFO Version has CURLINFO_CONDITION_UNMET Version has CURLOPT_WRITEDATA Version has CURLOPT_KEYPASSWD Version has CURLOPT_DIRLISTONLY Version has CURLOPT_APPEND Version has CURLOPT_KRBLEVEL Version has CURLOPT_USE_SSL Version has CURLOPT_TIMEOUT_MS Version has CURLOPT_CONNECTTIMEOUT_MS Version has CURLOPT_HTTP_TRANSFER_DECODING Version has CURLOPT_HTTP_CONTENT_DECODING Version has CURLOPT_NEW_FILE_PERMS Version has CURLOPT_NEW_DIRECTORY_PERMS Version has CURLOPT_POSTREDIR Version has CURLOPT_OPENSOCKETFUNCTION Version has CURLOPT_OPENSOCKETDATA Version has CURLOPT_COPYPOSTFIELDS Version has CURLOPT_PROXY_TRANSFER_MODE Version has CURLOPT_SEEKFUNCTION Version has CURLOPT_SEEKDATA Version has CURLOPT_CRLFILE Version has CURLOPT_ISSUERCERT Version has CURLOPT_ADDRESS_SCOPE Version has CURLOPT_CERTINFO Version has CURLOPT_USERNAME Version has CURLOPT_PASSWORD Version has CURLOPT_PROXYUSERNAME Version has CURLOPT_PROXYPASSWORD Version has CURLOPT_SSH_HOST_PUBLIC_KEY_MD5 Version has CURLOPT_NOPROXY Version has CURLOPT_TFTP_BLKSIZE Version has CURLOPT_SOCKS5_GSSAPI_SERVICE Version has CURLOPT_SOCKS5_GSSAPI_NEC Version has CURLOPT_PROTOCOLS Version has CURLOPT_REDIR_PROTOCOLS Version has CURLOPT_SSH_AUTH_TYPES Version has CURLOPT_SSH_PUBLIC_KEYFILE Version has CURLOPT_SSH_PRIVATE_KEYFILE Version has CURLOPT_FTP_SSL_CCC Version has CURLOPT_COOKIELIST Version has CURLOPT_IGNORE_CONTENT_LENGTH Version has CURLOPT_FTP_SKIP_PASV_IP Version has CURLOPT_FTP_FILEMETHOD Version has CURLOPT_LOCALPORT Version has CURLOPT_LOCALPORTRANGE Version has CURLOPT_CONNECT_ONLY Version has CURLOPT_CONV_FROM_NETWORK_FUNCTION Version has CURLOPT_CONV_TO_NETWORK_FUNCTION Version has CURLOPT_CONV_FROM_UTF8_FUNCTION Version has CURLOPT_MAX_SEND_SPEED_LARGE Version has CURLOPT_MAX_RECV_SPEED_LARGE Version has CURLOPT_FTP_ALTERNATIVE_TO_USER Version has CURLOPT_SOCKOPTFUNCTION Version has CURLOPT_SOCKOPTDATA Version has CURLOPT_SSL_SESSIONID_CACHE libcurl version: libcurl 7.47.0 configure: creating ./config.status config.status: creating src/Makevars ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c curl.c -o curl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c curlInit.c -o curlInit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c curl_base64.c -o curl_base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c enums.c -o enums.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c json.c -o json.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c memoryManagement.c -o memoryManagement.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -DHAVE_LIBIDN_FIELD=1 -DHAVE_CURLOPT_URL=1 -DHAVE_CURLINFO_EFFECTIVE_URL=1 -DHAVE_CURLINFO_RESPONSE_CODE=1 -DHAVE_CURLINFO_TOTAL_TIME=1 -DHAVE_CURLINFO_NAMELOOKUP_TIME=1 -DHAVE_CURLINFO_CONNECT_TIME=1 -DHAVE_CURLINFO_PRETRANSFER_TIME=1 -DHAVE_CURLINFO_SIZE_UPLOAD=1 -DHAVE_CURLINFO_SIZE_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_DOWNLOAD=1 -DHAVE_CURLINFO_SPEED_UPLOAD=1 -DHAVE_CURLINFO_HEADER_SIZE=1 -DHAVE_CURLINFO_REQUEST_SIZE=1 -DHAVE_CURLINFO_SSL_VERIFYRESULT=1 -DHAVE_CURLINFO_FILETIME=1 -DHAVE_CURLINFO_CONTENT_LENGTH_DOWNLOAD=1 -DHAVE_CURLINFO_CONTENT_LENGTH_UPLOAD=1 -DHAVE_CURLINFO_STARTTRANSFER_TIME=1 -DHAVE_CURLINFO_CONTENT_TYPE=1 -DHAVE_CURLINFO_REDIRECT_TIME=1 -DHAVE_CURLINFO_REDIRECT_COUNT=1 -DHAVE_CURLINFO_PRIVATE=1 -DHAVE_CURLINFO_HTTP_CONNECTCODE=1 -DHAVE_CURLINFO_HTTPAUTH_AVAIL=1 -DHAVE_CURLINFO_PROXYAUTH_AVAIL=1 -DHAVE_CURLINFO_OS_ERRNO=1 -DHAVE_CURLINFO_NUM_CONNECTS=1 -DHAVE_CURLINFO_SSL_ENGINES=1 -DHAVE_CURLINFO_COOKIELIST=1 -DHAVE_CURLINFO_LASTSOCKET=1 -DHAVE_CURLINFO_FTP_ENTRY_PATH=1 -DHAVE_CURLINFO_REDIRECT_URL=1 -DHAVE_CURLINFO_PRIMARY_IP=1 -DHAVE_CURLINFO_APPCONNECT_TIME=1 -DHAVE_CURLINFO_CERTINFO=1 -DHAVE_CURLINFO_CONDITION_UNMET=1 -DHAVE_CURLOPT_WRITEDATA=1 -DHAVE_CURLOPT_KEYPASSWD=1 -DHAVE_CURLOPT_DIRLISTONLY=1 -DHAVE_CURLOPT_APPEND=1 -DHAVE_CURLOPT_KRBLEVEL=1 -DHAVE_CURLOPT_USE_SSL=1 -DHAVE_CURLOPT_TIMEOUT_MS=1 -DHAVE_CURLOPT_CONNECTTIMEOUT_MS=1 -DHAVE_CURLOPT_HTTP_TRANSFER_DECODING=1 -DHAVE_CURLOPT_HTTP_CONTENT_DECODING=1 -DHAVE_CURLOPT_NEW_FILE_PERMS=1 -DHAVE_CURLOPT_NEW_DIRECTORY_PERMS=1 -DHAVE_CURLOPT_POSTREDIR=1 -DHAVE_CURLOPT_OPENSOCKETFUNCTION=1 -DHAVE_CURLOPT_OPENSOCKETDATA=1 -DHAVE_CURLOPT_COPYPOSTFIELDS=1 -DHAVE_CURLOPT_PROXY_TRANSFER_MODE=1 -DHAVE_CURLOPT_SEEKFUNCTION=1 -DHAVE_CURLOPT_SEEKDATA=1 -DHAVE_CURLOPT_CRLFILE=1 -DHAVE_CURLOPT_ISSUERCERT=1 -DHAVE_CURLOPT_ADDRESS_SCOPE=1 -DHAVE_CURLOPT_CERTINFO=1 -DHAVE_CURLOPT_USERNAME=1 -DHAVE_CURLOPT_PASSWORD=1 -DHAVE_CURLOPT_PROXYUSERNAME=1 -DHAVE_CURLOPT_PROXYPASSWORD=1 -DHAVE_CURLOPT_SSH_HOST_PUBLIC_KEY_MD5=1 -DHAVE_CURLOPT_NOPROXY=1 -DHAVE_CURLOPT_TFTP_BLKSIZE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_SERVICE=1 -DHAVE_CURLOPT_SOCKS5_GSSAPI_NEC=1 -DHAVE_CURLOPT_PROTOCOLS=1 -DHAVE_CURLOPT_REDIR_PROTOCOLS=1 -DHAVE_CURLOPT_SSH_AUTH_TYPES=1 -DHAVE_CURLOPT_SSH_PUBLIC_KEYFILE=1 -DHAVE_CURLOPT_SSH_PRIVATE_KEYFILE=1 -DHAVE_CURLOPT_FTP_SSL_CCC=1 -DHAVE_CURLOPT_COOKIELIST=1 -DHAVE_CURLOPT_IGNORE_CONTENT_LENGTH=1 -DHAVE_CURLOPT_FTP_SKIP_PASV_IP=1 -DHAVE_CURLOPT_FTP_FILEMETHOD=1 -DHAVE_CURLOPT_LOCALPORT=1 -DHAVE_CURLOPT_LOCALPORTRANGE=1 -DHAVE_CURLOPT_CONNECT_ONLY=1 -DHAVE_CURLOPT_CONV_FROM_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_TO_NETWORK_FUNCTION=1 -DHAVE_CURLOPT_CONV_FROM_UTF8_FUNCTION=1 -DHAVE_CURLOPT_MAX_SEND_SPEED_LARGE=1 -DHAVE_CURLOPT_MAX_RECV_SPEED_LARGE=1 -DHAVE_CURLOPT_FTP_ALTERNATIVE_TO_USER=1 -DHAVE_CURLOPT_SOCKOPTFUNCTION=1 -DHAVE_CURLOPT_SOCKOPTDATA=1 -DHAVE_CURLOPT_SSL_SESSIONID_CACHE=1 -I/usr/include/libxml2 -I/usr/local/include -fpic -g -O2 -c myUTF8.c -o myUTF8.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o RCurl.so base64.o curl.o curlInit.o curl_base64.o enums.o json.o memoryManagement.o myUTF8.o -L/usr/lib/x86_64-linux-gnu -lcurl -lxml2 -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-RCurl/00new/RCurl/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (RCurl) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘cachem’ ... ** package ‘cachem’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cache.c -o cache.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o cachem.so cache.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-cachem/00new/cachem/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (cachem) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘bit64’ ... ** package ‘bit64’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bsearch.c -o bsearch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cache.c -o cache.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c hash64.c -o hash64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c integer64.c -o integer64.o integer64.c:270:1: warning: ‘no_sanitize’ attribute directive ignored [-Wattributes] __attribute__((no_sanitize("signed-integer-overflow"))) SEXP plus_integer64(SEXP e1_, SEXP e2_, SEXP ret_){  ^ integer64.c:285:1: warning: ‘no_sanitize’ attribute directive ignored [-Wattributes] __attribute__((no_sanitize("signed-integer-overflow"))) SEXP minus_integer64(SEXP e1_, SEXP e2_, SEXP ret_){  ^ integer64.c:300:1: warning: ‘no_sanitize’ attribute directive ignored [-Wattributes] __attribute__((no_sanitize("signed-integer-overflow"))) SEXP diff_integer64(SEXP x_, SEXP lag_, SEXP n_, SEXP ret_){  ^ integer64.c:347:1: warning: ‘no_sanitize’ attribute directive ignored [-Wattributes] __attribute__((no_sanitize("signed-integer-overflow"))) SEXP times_integer64_integer64(SEXP e1_, SEXP e2_, SEXP ret_){  ^ gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sort64.c -o sort64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sortuse64.c -o sortuse64.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o bit64.so bsearch.o cache.o hash64.o init.o integer64.o sort64.o sortuse64.o -lm -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-bit64/00new/bit64/libs ** R ** data ** exec ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (bit64) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘S4Vectors’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c AEbufs.c -o AEbufs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c DataFrame_class.c -o DataFrame_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Hits_class.c -o Hits_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c LLint_class.c -o LLint_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c List_class.c -o List_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c R_init_S4Vectors.c -o R_init_S4Vectors.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rle_class.c -o Rle_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rle_utils.c -o Rle_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c SEXP_utils.c -o SEXP_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c SimpleList_class.c -o SimpleList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c anyMissing.c -o anyMissing.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c character_utils.c -o character_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c eval_utils.c -o eval_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c hash_utils.c -o hash_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c integer_utils.c -o integer_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c logical_utils.c -o logical_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c map_ranges_to_runs.c -o map_ranges_to_runs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c raw_utils.c -o raw_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c safe_arithm.c -o safe_arithm.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sort_utils.c -o sort_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c subsetting_utils.c -o subsetting_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c vector_utils.c -o vector_utils.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o S4Vectors.so AEbufs.o DataFrame_class.o Hits_class.o LLint_class.o List_class.o R_init_S4Vectors.o Rle_class.o Rle_utils.o SEXP_utils.o SimpleList_class.o anyMissing.o character_utils.o eval_utils.o hash_utils.o integer_utils.o logical_utils.o map_ranges_to_runs.o raw_utils.o safe_arithm.o sort_utils.o subsetting_utils.o vector_utils.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-S4Vectors/00new/S4Vectors/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org in method for ‘normalizeSingleBracketReplacementValue’ with signature ‘"List"’: no definition for class “List” Creating a new generic function for ‘unname’ in package ‘S4Vectors’ Creating a new generic function for ‘expand.grid’ in package ‘S4Vectors’ Creating a new generic function for ‘findMatches’ in package ‘S4Vectors’ Creating a generic function for ‘setequal’ from package ‘base’ in package ‘S4Vectors’ in method for ‘coerce’ with signature ‘"Hits","DFrame"’: no definition for class “DFrame” Creating a generic function for ‘as.factor’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘tabulate’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘cov’ from package ‘stats’ in package ‘S4Vectors’ Creating a generic function for ‘cor’ from package ‘stats’ in package ‘S4Vectors’ Creating a generic function for ‘smoothEnds’ from package ‘stats’ in package ‘S4Vectors’ Creating a generic function for ‘runmed’ from package ‘stats’ in package ‘S4Vectors’ Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘substr’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘substring’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ���chartr’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘tolower’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘toupper’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘sub’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘gsub’ from package ‘base’ in package ‘S4Vectors’ Creating a generic function for ‘nlevels’ from package ‘base’ in package ‘S4Vectors’ in method for ‘coerce’ with signature ‘"data.table","DFrame"’: no definition for class “data.table” Creating a generic function for ‘complete.cases’ from package ‘stats’ in package ‘S4Vectors’ ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (S4Vectors) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘Biobase’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c Rinit.c -o Rinit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c anyMissing.c -o anyMissing.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c envir.c -o envir.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c matchpt.c -o matchpt.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rowMedians.c -o rowMedians.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c sublist_extract.c -o sublist_extract.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o Biobase.so Rinit.o anyMissing.o envir.o matchpt.o rowMedians.o sublist_extract.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-Biobase/00new/Biobase/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (Biobase) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘plyr’ ... ** package ‘plyr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c loop_apply.c -o loop_apply.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c split-numeric.cpp -o split-numeric.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o plyr.so RcppExports.o loop_apply.o split-numeric.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-plyr/00new/plyr/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (plyr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘cli’ ... ** package ‘cli’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cleancall.c -o cleancall.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c errors.c -o errors.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c progress-altrep.c -o progress-altrep.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c progress.c -o progress.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c thread.c -o thread.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c tty.c -o tty.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c win-utf8.c -o win-utf8.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o cli.so cleancall.o errors.o init.o progress-altrep.o progress.o thread.o tty.o win-utf8.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-cli/00new/cli/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (cli) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘lifecycle’ ... ** package ‘lifecycle’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (lifecycle) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tinytex’ ... ** package ‘tinytex’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tinytex) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘htmltools’ ... ** package ‘htmltools’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c template.c -o template.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o htmltools.so init.o template.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-htmltools/00new/htmltools/libs ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (htmltools) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘processx’ ... ** package ‘processx’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -g -O2 -L/usr/local/lib -Wall tools/px.c -o tools/px gcc -g -O2 -L/usr/local/lib supervisor/supervisor.c \ supervisor/utils.c -o supervisor/supervisor gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c client.c -o client.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c errors.c -o errors.o gcc -shared -L"/opt/R/4.1.0/lib/R/lib" -L/usr/local/lib -o client.so base64.o client.o errors.o \ -L"/opt/R/4.1.0/lib/R/lib" -lR gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c poll.c -o poll.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c processx-connection.c -o processx-connection.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c processx-vector.c -o processx-vector.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c create-time.c -o create-time.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/childlist.c -o unix/childlist.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/connection.c -o unix/connection.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/processx.c -o unix/processx.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/sigchld.c -o unix/sigchld.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/utils.c -o unix/utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c unix/named_pipe.c -o unix/named_pipe.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cleancall.c -o cleancall.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o processx.so init.o poll.o errors.o processx-connection.o processx-vector.o create-time.o base64.o unix/childlist.o unix/connection.o unix/processx.o unix/sigchld.o unix/utils.o unix/named_pipe.o cleancall.o -L/opt/R/4.1.0/lib/R/lib -lR installing via 'install.libs.R' to /home/travis/R/Library/00LOCK-processx/00new/processx ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (processx) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tzdb’ ... ** package ‘tzdb’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c api.cpp -o api.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c cpp11.cpp -o cpp11.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c names.cpp -o names.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c path.cpp -o path.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c tz.cpp -o tz.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -c version.cpp -o version.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o tzdb.so api.o cpp11.o names.o path.o tz.o version.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-tzdb/00new/tzdb/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tzdb) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘munsell’ ... ** package ‘munsell’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (munsell) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘diffobj’ ... ** package ‘diffobj’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c diff.c -o diff.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c diffobj.c -o diffobj.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o diffobj.so diff.o diffobj.o init.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-diffobj/00new/diffobj/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (diffobj) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘desc’ ... ** package ‘desc’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (desc) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘lubridate’ ... ** package ‘lubridate’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_fixed.cc -o cctz/src/time_zone_fixed.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_if.cc -o cctz/src/time_zone_if.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_impl.cc -o cctz/src/time_zone_impl.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_info.cc -o cctz/src/time_zone_info.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_libc.cc -o cctz/src/time_zone_libc.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_lookup.cc -o cctz/src/time_zone_lookup.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/time_zone_posix.cc -o cctz/src/time_zone_posix.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c cctz/src/zone_info_source.cc -o cctz/src/zone_info_source.o ar rcs libcctz.a ./cctz/src/time_zone_fixed.o ./cctz/src/time_zone_if.o ./cctz/src/time_zone_impl.o ./cctz/src/time_zone_info.o ./cctz/src/time_zone_libc.o ./cctz/src/time_zone_lookup.o ./cctz/src/time_zone_posix.o ./cctz/src/zone_info_source.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c update.cpp -o update.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c datetime.c -o datetime.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c period.c -o period.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c tparse.c -o tparse.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o lubridate.so RcppExports.o update.o utils.o datetime.o period.o tparse.o -L. -lcctz -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-lubridate/00new/lubridate/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (lubridate) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘openxlsx’ ... ** package ‘openxlsx’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c helper_functions.cpp -o helper_functions.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c load_workbook.cpp -o load_workbook.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c read_workbook.cpp -o read_workbook.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c write_data.cpp -o write_data.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c write_file.cpp -o write_file.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fpic -g -O2 -c write_file_2.cpp -o write_file_2.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o openxlsx.so RcppExports.o helper_functions.o load_workbook.o read_workbook.o write_data.o write_file.o write_file_2.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-openxlsx/00new/openxlsx/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (openxlsx) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘vctrs’ ... ** package ‘vctrs’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c altrep-rle.c -o altrep-rle.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c arg-counter.c -o arg-counter.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c arg.c -o arg.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c bind.c -o bind.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c c-unchop.c -o c-unchop.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c c.c -o c.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c callables.c -o callables.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast-bare.c -o cast-bare.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast-dispatch.c -o cast-dispatch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cast.c -o cast.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c compare.c -o compare.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c complete.c -o complete.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c conditions.c -o conditions.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c dictionary.c -o dictionary.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c dim.c -o dim.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c equal.c -o equal.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c fields.c -o fields.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c fill.c -o fill.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c group.c -o group.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c growable.c -o growable.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c hash.c -o hash.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c names.c -o names.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-groups.c -o order-groups.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-radix.c -o order-radix.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-sortedness.c -o order-sortedness.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-transform.c -o order-transform.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c order-truelength.c -o order-truelength.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c poly-op.c -o poly-op.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c proxy-restore.c -o proxy-restore.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c proxy.c -o proxy.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ptype2-dispatch.c -o ptype2-dispatch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rep.c -o rep.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c runs.c -o runs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c shape.c -o shape.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c size-common.c -o size-common.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c size.c -o size.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-array.c -o slice-array.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-assign-array.c -o slice-assign-array.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-assign.c -o slice-assign.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice-chop.c -o slice-chop.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c slice.c -o slice.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c split.c -o split.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c subscript-loc.c -o subscript-loc.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c subscript.c -o subscript.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c translate.c -o translate.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-data-frame.c -o type-data-frame.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-date-time.c -o type-date-time.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-factor.c -o type-factor.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-info.c -o type-info.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type-tibble.c -o type-tibble.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type.c -o type.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c type2.c -o type2.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c typeof2-s3.c -o typeof2-s3.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c typeof2.c -o typeof2.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c unspecified.c -o unspecified.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils-dispatch.c -o utils-dispatch.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils-rlang.c -o utils-rlang.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c version.c -o version.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o vctrs.so altrep-rle.o arg-counter.o arg.o bind.o c-unchop.o c.o callables.o cast-bare.o cast-dispatch.o cast.o compare.o complete.o conditions.o dictionary.o dim.o equal.o fields.o fill.o group.o growable.o hash.o init.o names.o order-groups.o order-radix.o order-sortedness.o order-transform.o order-truelength.o poly-op.o proxy-restore.o proxy.o ptype2-dispatch.o rep.o runs.o shape.o size-common.o size.o slice-array.o slice-assign-array.o slice-assign.o slice-chop.o slice.o split.o subscript-loc.o subscript.o translate.o type-data-frame.o type-date-time.o type-factor.o type-info.o type-tibble.o type.o type2.o typeof2-s3.o typeof2.o unspecified.o utils-dispatch.o utils-rlang.o utils.o version.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-vctrs/00new/vctrs/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (vctrs) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘openssl’ ... ** package ‘openssl’ successfully unpacked and MD5 sums checked ** using staged installation Found pkg-config cflags and libs! Using PKG_CFLAGS= Using PKG_LIBS=-l:libssl.so.1.0.0 -l:libcrypto.so.1.0.0 ** libs rm -f aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o openssl.so bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c aes.c -o aes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c base64.c -o base64.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bignum.c -o bignum.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c cert.c -o cert.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c compatibility.c -o compatibility.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c diffie.c -o diffie.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c envelope.c -o envelope.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c error.c -o error.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c hash.c -o hash.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c info.c -o info.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c keygen.c -o keygen.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c keys.c -o keys.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c onload.c -o onload.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c openssh.c -o openssh.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c password.c -o password.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pbkdf.c -o pbkdf.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pem.c -o pem.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pkcs12.c -o pkcs12.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c pkcs7.c -o pkcs7.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rand.c -o rand.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c rsa.c -o rsa.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c signing.c -o signing.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c ssl.c -o ssl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c stream.c -o stream.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c write.c -o write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c x25519.c -o x25519.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bcrypt/bcrypt_pbkdf.c -o bcrypt/bcrypt_pbkdf.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c bcrypt/blowfish.c -o bcrypt/blowfish.o ar rcs bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o openssl.so aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o -Lbcrypt -lstatbcrypt -l:libssl.so.1.0.0 -l:libcrypto.so.1.0.0 -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-openssl/00new/openssl/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (openssl) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘memoise’ ... ** package ‘memoise’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (memoise) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘IRanges’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c CompressedAtomicList_utils.c -o CompressedAtomicList_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c CompressedList_class.c -o CompressedList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c Grouping_class.c -o Grouping_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c IPosRanges_comparison.c -o IPosRanges_comparison.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c IRanges_class.c -o IRanges_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c IRanges_constructor.c -o IRanges_constructor.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c NCList.c -o NCList.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c R_init_IRanges.c -o R_init_IRanges.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c Ranges_class.c -o Ranges_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c RleViews_utils.c -o RleViews_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c SimpleIRangesList_class.c -o SimpleIRangesList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c coverage_methods.c -o coverage_methods.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c extractListFragments.c -o extractListFragments.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I/usr/local/include -fpic -g -O2 -c inter_range_methods.c -o inter_range_methods.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o IRanges.so CompressedAtomicList_utils.o CompressedIRangesList_class.o CompressedList_class.o Grouping_class.o IPosRanges_comparison.o IRanges_class.o IRanges_constructor.o NCList.o R_init_IRanges.o Ranges_class.o RleViews_utils.o S4Vectors_stubs.o SimpleIRangesList_class.o coverage_methods.o extractListFragments.o inter_range_methods.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-IRanges/00new/IRanges/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Creating a generic function for ‘drop’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘runmed’ from package ‘stats’ in package ‘IRanges’ Creating a generic function for ‘chartr’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘toupper’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘tolower’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘sub’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘gsub’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘startsWith’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘endsWith’ from package ‘base’ in package ‘IRanges’ Creating a generic function for ‘smoothEnds’ from package ‘stats’ in package ‘IRanges’ ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (IRanges) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘selectr’ ... ** package ‘selectr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (selectr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘knitr’ ... ** package ‘knitr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (knitr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘callr’ ... ** package ‘callr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (callr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘scales’ ... ** package ‘scales’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (scales) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘XML2R’ ... ** package ‘XML2R’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (XML2R) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘pkgload’ ... ** package ‘pkgload’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (pkgload) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘GenomeInfoDb’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (GenomeInfoDb) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘XVector’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c Ocopy_byteblocks.c -o Ocopy_byteblocks.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c RDS_random_access.c -o RDS_random_access.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c R_init_XVector.c -o R_init_XVector.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c SharedDouble_class.c -o SharedDouble_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c SharedInteger_class.c -o SharedInteger_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c SharedRaw_class.c -o SharedRaw_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c SharedVector_class.c -o SharedVector_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XDouble_class.c -o XDouble_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XInteger_class.c -o XInteger_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XRawList_comparison.c -o XRawList_comparison.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XRaw_class.c -o XRaw_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XVectorList_class.c -o XVectorList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c XVector_class.c -o XVector_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c io_utils.c -o io_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c slice_methods.c -o slice_methods.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c vector_copy.c -o vector_copy.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c view_summarization_methods.c -o view_summarization_methods.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o XVector.so IRanges_stubs.o Ocopy_byteblocks.o RDS_random_access.o R_init_XVector.o S4Vectors_stubs.o SharedDouble_class.o SharedInteger_class.o SharedRaw_class.o SharedVector_class.o XDouble_class.o XInteger_class.o XRawList_comparison.o XRaw_class.o XVectorList_class.o XVector_class.o io_utils.o slice_methods.o vector_copy.o view_summarization_methods.o -lz -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-XVector/00new/XVector/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (XVector) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘blob’ ... ** package ‘blob’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (blob) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘httr’ ... ** package ‘httr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (httr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘pillar’ ... ** package ‘pillar’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (pillar) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tidyselect’ ... ** package ‘tidyselect’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tidyselect) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rmarkdown’ ... ** package ‘rmarkdown’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rmarkdown) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘hms’ ... ** package ‘hms’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (hms) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘ids’ ... ** package ‘ids’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (ids) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘Biostrings’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c BAB_class.c -o BAB_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c BitMatrix.c -o BitMatrix.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c MIndex_class.c -o MIndex_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c PreprocessedTB_class.c -o PreprocessedTB_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c R_init_Biostrings.c -o R_init_Biostrings.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c RoSeqs_utils.c -o RoSeqs_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c SparseList_utils.c -o SparseList_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c XStringSetList_class.c -o XStringSetList_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c XStringSet_class.c -o XStringSet_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c XString_class.c -o XString_class.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c XVector_stubs.c -o XVector_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c align_needwunsQS.c -o align_needwunsQS.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c align_pairwiseAlignment.c -o align_pairwiseAlignment.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c align_utils.c -o align_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c find_palindromes.c -o find_palindromes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c gtestsim.c -o gtestsim.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c inject_code.c -o inject_code.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c letter_frequency.c -o letter_frequency.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c lowlevel_matching.c -o lowlevel_matching.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_PWM.c -o match_PWM.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pattern.c -o match_pattern.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pattern_boyermoore.c -o match_pattern_boyermoore.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pattern_indels.c -o match_pattern_indels.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pattern_shiftor.c -o match_pattern_shiftor.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pdict.c -o match_pdict.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pdict_ACtree2.c -o match_pdict_ACtree2.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pdict_Twobit.c -o match_pdict_Twobit.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_pdict_utils.c -o match_pdict_utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c match_reporting.c -o match_reporting.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c matchprobes.c -o matchprobes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c pmatchPattern.c -o pmatchPattern.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c read_fasta_files.c -o read_fasta_files.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c read_fastq_files.c -o read_fastq_files.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c replaceAt.c -o replaceAt.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c replace_letter_at.c -o replace_letter_at.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c strutils.c -o strutils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c translate.c -o translate.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c unstrsplit_methods.c -o unstrsplit_methods.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c utils.c -o utils.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I'/home/travis/R/Library/XVector/include' -I/usr/local/include -fpic -g -O2 -c xscat.c -o xscat.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o Biostrings.so BAB_class.o BitMatrix.o IRanges_stubs.o MIndex_class.o PreprocessedTB_class.o R_init_Biostrings.o RoSeqs_utils.o S4Vectors_stubs.o SparseList_utils.o XStringSetList_class.o XStringSet_class.o XString_class.o XVector_stubs.o align_needwunsQS.o align_pairwiseAlignment.o align_utils.o find_palindromes.o gtestsim.o inject_code.o letter_frequency.o lowlevel_matching.o match_PWM.o match_pattern.o match_pattern_boyermoore.o match_pattern_indels.o match_pattern_shiftor.o match_pdict.o match_pdict_ACtree2.o match_pdict_Twobit.o match_pdict_utils.o match_reporting.o matchprobes.o pmatchPattern.o read_fasta_files.o read_fastq_files.o replaceAt.o replace_letter_at.o strutils.o translate.o unstrsplit_methods.o utils.o xscat.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-Biostrings/00new/Biostrings/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org in method for ‘twoWayAlphabetFrequencyByQuality’ with signature ‘"QualityScaledXStringSet"’: no definition for class “QualityScaledXStringSet” Creating a new generic function for ‘strsplit’ in package ‘Biostrings’ Creating a generic function for ‘ls’ from package ‘base’ in package ‘Biostrings’ Creating a new generic function for ‘pattern’ in package ‘Biostrings’ Creating a new generic function for ‘offset’ in package ‘Biostrings’ ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (Biostrings) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘RSQLite’ ... ** package ‘RSQLite’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbColumn.cpp -o DbColumn.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbColumnDataSource.cpp -o DbColumnDataSource.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbColumnDataSourceFactory.cpp -o DbColumnDataSourceFactory.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbColumnStorage.cpp -o DbColumnStorage.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbConnection.cpp -o DbConnection.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbDataFrame.cpp -o DbDataFrame.o In file included from DbDataFrame.cpp:7:0: vendor/boost/bind.hpp:41:265: note: #pragma message: The practice of declaring the Bind placeholders (_1, _2, ...) in the global namespace is deprecated. Please use + using namespace boost::placeholders, or define BOOST_BIND_GLOBAL_PLACEHOLDERS to retain the current behavior. g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c DbResult.cpp -o DbResult.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c SqliteColumnDataSource.cpp -o SqliteColumnDataSource.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c SqliteColumnDataSourceFactory.cpp -o SqliteColumnDataSourceFactory.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c SqliteDataFrame.cpp -o SqliteDataFrame.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c SqliteResult.cpp -o SqliteResult.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c SqliteResultImpl.cpp -o SqliteResultImpl.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c affinity.c -o affinity.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c connection.cpp -o connection.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c extension-functions.c -o extension-functions.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c extensions.cpp -o extensions.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c import-file.c -o import-file.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c regexp.c -o regexp.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c result.cpp -o result.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c rsqlite.cpp -o rsqlite.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I. -Ivendor -DRSQLITE_USE_BUNDLED_SQLITE -DSQLITE_ENABLE_RTREE -DSQLITE_ENABLE_FTS3 -DSQLITE_ENABLE_FTS3_PARENTHESIS -DSQLITE_ENABLE_FTS5 -DSQLITE_ENABLE_JSON1 -DSQLITE_ENABLE_STAT4 -DSQLITE_SOUNDEX -DRCPP_DEFAULT_INCLUDE_CALL=false -DRCPP_USING_UTF8_ERROR_STRING -DBOOST_NO_AUTO_PTR -DSQLITE_MAX_LENGTH=2147483647 -DHAVE_USLEEP=1 -I'/home/travis/R/Library/plogr/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c vendor/sqlite3/sqlite3.c -o vendor/sqlite3/sqlite3.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o RSQLite.so DbColumn.o DbColumnDataSource.o DbColumnDataSourceFactory.o DbColumnStorage.o DbConnection.o DbDataFrame.o DbResult.o RcppExports.o SqliteColumnDataSource.o SqliteColumnDataSourceFactory.o SqliteDataFrame.o SqliteResult.o SqliteResultImpl.o affinity.o connection.o extension-functions.o extensions.o import-file.o regexp.o result.o rsqlite.o vendor/sqlite3/sqlite3.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-RSQLite/00new/RSQLite/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (RSQLite) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tibble’ ... ** package ‘tibble’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c attributes.c -o attributes.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c coerce.c -o coerce.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c matrixToDataFrame.c -o matrixToDataFrame.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o tibble.so attributes.o coerce.o init.o matrixToDataFrame.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-tibble/00new/tibble/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tibble) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘progress’ ... ** package ‘progress’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (progress) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘gargle’ ... ** package ‘gargle’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (gargle) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘RISmed’ ... ** package ‘RISmed’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (RISmed) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘reprex’ ... ** package ‘reprex’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (reprex) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘GenomicRanges’ ... ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c R_init_GenomicRanges.c -o R_init_GenomicRanges.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/S4Vectors/include' -I'/home/travis/R/Library/IRanges/include' -I/usr/local/include -fpic -g -O2 -c transcript_utils.c -o transcript_utils.o gcc -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o GenomicRanges.so IRanges_stubs.o R_init_GenomicRanges.o S4Vectors_stubs.o transcript_utils.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-GenomicRanges/00new/GenomicRanges/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (GenomicRanges) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rentrez’ ... ** package ‘rentrez’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rentrez) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘KEGGREST’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (KEGGREST) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘dplyr’ ... ** package ‘dplyr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c chop.cpp -o chop.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c filter.cpp -o filter.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c funs.cpp -o funs.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c group_by.cpp -o group_by.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c group_data.cpp -o group_data.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c imports.cpp -o imports.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c init.cpp -o init.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c mask.cpp -o mask.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c mutate.cpp -o mutate.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c slice.cpp -o slice.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -c summarise.cpp -o summarise.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o dplyr.so chop.o filter.o funs.o group_by.o group_data.o imports.o init.o mask.o mutate.o slice.o summarise.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-dplyr/00new/dplyr/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (dplyr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘cellranger’ ... ** package ‘cellranger’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (cellranger) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘vroom’ ... ** package ‘vroom’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c Iconv.cpp -o Iconv.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c LocaleInfo.cpp -o LocaleInfo.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c altrep.cc -o altrep.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c cpp11.cpp -o cpp11.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c delimited_index.cc -o delimited_index.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c delimited_index_connection.cc -o delimited_index_connection.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c fixed_width_index_connection.cc -o fixed_width_index_connection.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c gen.cc -o gen.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c grisu3.c -o grisu3.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c guess_type.cc -o guess_type.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c iconv_file.cc -o iconv_file.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c index_collection.cc -o index_collection.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom.cc -o vroom.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_big_int.cc -o vroom_big_int.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_chr.cc -o vroom_chr.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_date.cc -o vroom_date.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_dbl.cc -o vroom_dbl.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_dttm.cc -o vroom_dttm.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_errors.cpp -o vroom_errors.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_fct.cc -o vroom_fct.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_fwf.cc -o vroom_fwf.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_int.cc -o vroom_int.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_num.cc -o vroom_num.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_rle.cc -o vroom_rle.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_time.cc -o vroom_time.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -fpic -g -O2 -c vroom_write.cc -o vroom_write.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o vroom.so Iconv.o LocaleInfo.o altrep.o cpp11.o delimited_index.o delimited_index_connection.o fixed_width_index_connection.o gen.o grisu3.o guess_type.o iconv_file.o index_collection.o vroom.o vroom_big_int.o vroom_chr.o vroom_date.o vroom_dbl.o vroom_dttm.o vroom_errors.o vroom_fct.o vroom_fwf.o vroom_int.o vroom_num.o vroom_rle.o vroom_time.o vroom_write.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-vroom/00new/vroom/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (vroom) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘forcats’ ... ** package ‘forcats’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (forcats) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rematch2’ ... ** package ‘rematch2’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rematch2) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘googledrive’ ... ** package ‘googledrive’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (googledrive) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘rvest’ ... ** package ‘rvest’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (rvest) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘ggplot2’ ... ** package ‘ggplot2’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (ggplot2) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘VarfromPDB’ ... ** package ‘VarfromPDB’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (VarfromPDB) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tidyr’ ... ** package ‘tidyr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -fpic -g -O2 -c cpp11.cpp -o cpp11.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -fpic -g -O2 -c fill.cpp -o fill.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -fpic -g -O2 -c melt.cpp -o melt.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -fpic -g -O2 -c simplifyPieces.cpp -o simplifyPieces.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o tidyr.so cpp11.o fill.o melt.o simplifyPieces.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-tidyr/00new/tidyr/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tidyr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘readr’ ... ** package ‘readr’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c Collector.cpp -o Collector.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c CollectorGuess.cpp -o CollectorGuess.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c Iconv.cpp -o Iconv.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c LocaleInfo.cpp -o LocaleInfo.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c Reader.cpp -o Reader.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c Source.cpp -o Source.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c Tokenizer.cpp -o Tokenizer.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c TokenizerDelim.cpp -o TokenizerDelim.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c TokenizerFwf.cpp -o TokenizerFwf.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c TokenizerWs.cpp -o TokenizerWs.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c connection.cpp -o connection.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c cpp11.cpp -o cpp11.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c datetime.cpp -o datetime.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c grisu3.c -o grisu3.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c init.c -o init.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c parse.cpp -o parse.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c read.cpp -o read.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c type_convert.cpp -o type_convert.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c write.cpp -o write.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I'/home/travis/R/Library/tzdb/include' -I/usr/local/include -fpic -g -O2 -c write_delim.cpp -o write_delim.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o readr.so Collector.o CollectorGuess.o Iconv.o LocaleInfo.o Reader.o Source.o Tokenizer.o TokenizerDelim.o TokenizerFwf.o TokenizerWs.o connection.o cpp11.o datetime.o grisu3.o init.o parse.o read.o type_convert.o write.o write_delim.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-readr/00new/readr/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Error: compilation failed - subscript out of bounds at e[[4]] Error: compilation failed - subscript out of bounds at e[[4]] Error: compilation failed - subscript out of bounds at e[[4]] Error: compilation failed - subscript out of bounds at e[[4]] Error: compilation failed - subscript out of bounds at e[[4]] ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (readr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘AnnotationDbi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org Creating a new generic function for ‘packageName’ in package ‘AnnotationDbi’ Creating a generic function for ‘ls’ from package ‘base’ in package ‘AnnotationDbi’ Creating a generic function for ‘eapply’ from package ‘base’ in package ‘AnnotationDbi’ Creating a generic function for ‘exists’ from package ‘base’ in package ‘AnnotationDbi’ Creating a generic function for ‘sample’ from package ‘base’ in package ‘AnnotationDbi’ ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (AnnotationDbi) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘readxl’ ... ** package ‘readxl’ successfully unpacked and MD5 sums checked ** using staged installation ** libs g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c XlsWorkBook.cpp -o XlsWorkBook.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c XlsWorkSheet.cpp -o XlsWorkSheet.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c XlsxWorkBook.cpp -o XlsxWorkBook.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c XlsxWorkSheet.cpp -o XlsxWorkSheet.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c cran.c -o cran.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c endian.c -o endian.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c ole.c -o ole.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xls.c -o xls.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c xlstool.c -o xlstool.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -Iunix -I. -DRCPP_DEFAULT_INCLUDE_CALL=false -I'/home/travis/R/Library/progress/include' -I'/home/travis/R/Library/Rcpp/include' -I/usr/local/include -fvisibility=hidden -fpic -g -O2 -c zip.cpp -o zip.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o readxl.so RcppExports.o XlsWorkBook.o XlsWorkSheet.o XlsxWorkBook.o XlsxWorkSheet.o cran.o endian.o ole.o xls.o xlstool.o zip.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-readxl/00new/readxl/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (readxl) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘googlesheets4’ ... ** package ‘googlesheets4’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (googlesheets4) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘dtplyr’ ... ** package ‘dtplyr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (dtplyr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘dbplyr’ ... ** package ‘dbplyr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (dbplyr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘waldo’ ... ** package ‘waldo’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (waldo) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘broom’ ... ** package ‘broom’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (broom) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘haven’ ... ** package ‘haven’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c tagged_na.c -o tagged_na.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_parser.c -o readstat/readstat_parser.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_bits.c -o readstat/readstat_bits.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_metadata.c -o readstat/readstat_metadata.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_io_unistd.c -o readstat/readstat_io_unistd.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_variable.c -o readstat/readstat_variable.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_writer.c -o readstat/readstat_writer.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_error.c -o readstat/readstat_error.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_convert.c -o readstat/readstat_convert.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/CKHashTable.c -o readstat/CKHashTable.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_malloc.c -o readstat/readstat_malloc.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/readstat_value.c -o readstat/readstat_value.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_xport_write.c -o readstat/sas/readstat_xport_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas7bcat_read.c -o readstat/sas/readstat_sas7bcat_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas7bdat_write.c -o readstat/sas/readstat_sas7bdat_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas7bcat_write.c -o readstat/sas/readstat_sas7bcat_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/ieee.c -o readstat/sas/ieee.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_xport_read.c -o readstat/sas/readstat_xport_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas.c -o readstat/sas/readstat_sas.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas_rle.c -o readstat/sas/readstat_sas_rle.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_xport.c -o readstat/sas/readstat_xport.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/sas/readstat_sas7bdat_read.c -o readstat/sas/readstat_sas7bdat_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav_compress.c -o readstat/spss/readstat_sav_compress.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_spss_parse.c -o readstat/spss/readstat_spss_parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav_read.c -o readstat/spss/readstat_sav_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_por_read.c -o readstat/spss/readstat_por_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav.c -o readstat/spss/readstat_sav.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_zsav_compress.c -o readstat/spss/readstat_zsav_compress.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav_parse_timestamp.c -o readstat/spss/readstat_sav_parse_timestamp.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_zsav_read.c -o readstat/spss/readstat_zsav_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav_write.c -o readstat/spss/readstat_sav_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_spss.c -o readstat/spss/readstat_spss.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_por.c -o readstat/spss/readstat_por.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_por_write.c -o readstat/spss/readstat_por_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_zsav_write.c -o readstat/spss/readstat_zsav_write.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_sav_parse.c -o readstat/spss/readstat_sav_parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/spss/readstat_por_parse.c -o readstat/spss/readstat_por_parse.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/stata/readstat_dta_read.c -o readstat/stata/readstat_dta_read.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/stata/readstat_dta.c -o readstat/stata/readstat_dta.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/stata/readstat_dta_parse_timestamp.c -o readstat/stata/readstat_dta_parse_timestamp.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c readstat/stata/readstat_dta_write.c -o readstat/stata/readstat_dta_write.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c DfReader.cpp -o DfReader.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c cpp11.cpp -o cpp11.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c DfWriter.cpp -o DfWriter.o g++ -std=gnu++11 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I'/home/travis/R/Library/cpp11/include' -I/usr/local/include -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -c haven_types.cpp -o haven_types.o g++ -std=gnu++11 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o haven.so tagged_na.o readstat/readstat_parser.o readstat/readstat_bits.o readstat/readstat_metadata.o readstat/readstat_io_unistd.o readstat/readstat_variable.o readstat/readstat_writer.o readstat/readstat_error.o readstat/readstat_convert.o readstat/CKHashTable.o readstat/readstat_malloc.o readstat/readstat_value.o readstat/sas/readstat_xport_write.o readstat/sas/readstat_sas7bcat_read.o readstat/sas/readstat_sas7bdat_write.o readstat/sas/readstat_sas7bcat_write.o readstat/sas/ieee.o readstat/sas/readstat_xport_read.o readstat/sas/readstat_sas.o readstat/sas/readstat_sas_rle.o readstat/sas/readstat_xport.o readstat/sas/readstat_sas7bdat_read.o readstat/spss/readstat_sav_compress.o readstat/spss/readstat_spss_parse.o readstat/spss/readstat_sav_read.o readstat/spss/readstat_por_read.o readstat/spss/readstat_sav.o readstat/spss/readstat_zsav_compress.o readstat/spss/readstat_sav_parse_timestamp.o readstat/spss/readstat_zsav_read.o readstat/spss/readstat_sav_write.o readstat/spss/readstat_spss.o readstat/spss/readstat_por.o readstat/spss/readstat_por_write.o readstat/spss/readstat_zsav_write.o readstat/spss/readstat_sav_parse.o readstat/spss/readstat_por_parse.o readstat/stata/readstat_dta_read.o readstat/stata/readstat_dta.o readstat/stata/readstat_dta_parse_timestamp.o readstat/stata/readstat_dta_write.o DfReader.o cpp11.o DfWriter.o haven_types.o -lz -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-haven/00new/haven/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (haven) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘org.Hs.eg.db’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (org.Hs.eg.db) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘testthat’ ... ** package ‘testthat’ successfully unpacked and MD5 sums checked ** using staged installation ** libs gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -I/usr/local/include -fpic -g -O2 -c init.c -o init.o gcc -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -I/usr/local/include -fpic -g -O2 -c reassign.c -o reassign.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -I/usr/local/include -fpic -g -O2 -c test-catch.cpp -o test-catch.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -I/usr/local/include -fpic -g -O2 -c test-example.cpp -o test-example.o g++ -std=gnu++14 -I"/opt/R/4.1.0/lib/R/include" -DNDEBUG -I../inst/include -DCOMPILING_TESTTHAT -I/usr/local/include -fpic -g -O2 -c test-runner.cpp -o test-runner.o g++ -std=gnu++14 -shared -L/opt/R/4.1.0/lib/R/lib -L/usr/local/lib -o testthat.so init.o reassign.o test-catch.o test-example.o test-runner.o -L/opt/R/4.1.0/lib/R/lib -lR installing to /home/travis/R/Library/00LOCK-testthat/00new/testthat/libs ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (testthat) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘modelr’ ... ** package ‘modelr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (modelr) 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * installing *source* package ‘tidyverse’ ... ** package ‘tidyverse’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** help *** installing help indices *** copying figures ** building package indices 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** installing vignettes ** testing if installed package can be loaded from temporary location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package can be loaded from final location 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org ** testing if installed package keeps a record of temporary installation path * DONE (tidyverse) The downloaded source packages are in ‘/tmp/RtmpRWLIhi/downloaded_packages’ travis_time:end:09a7c6a0:start=1627598763627209524,finish=1627599973058772217,duration=1209431562693,event= travis_fold:end:R-dependencies travis_fold:start:R-build Building package Building with: R CMD build travis_time:start:0403f9e0 $ R CMD build . 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * checking for file ‘./DESCRIPTION’ ... OK * preparing ‘nanotatoR’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... OK * checking for LF line-endings in source and make files and shell scripts * checking for empty or unneeded directories * building ‘nanotatoR_3.13.tar.gz’ travis_time:end:0403f9e0:start=1627599973065460631,finish=1627600002176026129,duration=29110565498,event=script travis_fold:end:R-build travis_fold:start:R-check Checking package Checking with: R CMD check nanotatoR_3.13.tar.gz --as-cran travis_time:start:13540608 $ R CMD check "${PKG_TARBALL}" --as-cran; CHECK_RET=$? 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details replacement repositories: CRAN: https://cloud.r-project.org * using log directory ‘/home/travis/build/VilainLab/nanotatoR/nanotatoR.Rcheck’ * using R version 4.1.0 (2021-05-18) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--as-cran’ * checking for file ‘nanotatoR/DESCRIPTION’ ... OK * this is package ‘nanotatoR’ version ‘3.13’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... NOTE Found the following hidden files and directories: .travis.yml These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘nanotatoR’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking for future file timestamps ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... NOTE Non-standard file/directory found at top level: ‘README.Rmd’ * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 2 NOTEs See ‘/home/travis/build/VilainLab/nanotatoR/nanotatoR.Rcheck/00check.log’ for details. travis_time:end:13540608:start=1627600002180223440,finish=1627600185274071137,duration=183093847697,event=script travis_fold:end:R-check The command "R CMD check "${PKG_TARBALL}" --as-cran; CHECK_RET=$?" exited with 0. travis_fold:start:cache.2 store build cache travis_time:start:042dbea6 travis_time:end:042dbea6:start=1627600185280510984,finish=1627600185283302074,duration=2791090,event=cache travis_time:start:01e63c90 changes detected, packing new archive uploading master/cache--linux-xenial-e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855--R-4.1.0.tgz cache uploaded travis_time:end:01e63c90:start=1627600185287078900,finish=1627600201141600374,duration=15854521474,event=cache travis_fold:end:cache.2  Done. Your build exited with 0.