[R-pkg-devel] Fwd: [CRAN-pretest-archived] CRAN submission Boom 0.8

[Steven Scott]

I've been trying to update the Boom package to the next version, and it
hasn't been going so well.  Hoping someone can help me figure out what next
steps I should take.

I got the attached mail from auto-check.  From what I can tell the new
version of Boom (0.8.0) has two issues.  Some long path names, and a large
install size.  Both are pre-existing issues shared with previous Boom
versions.  Nothing can be done about the long path names (but they have
never caused a problem in the past), and the large install size has to do
with the -g flag passed by R CMD INSTALL, which I don't control.  In past
versions of Boom we've let both these issues go.

The auto-check script also flags an ERROR which seems to be related to
version 0.7.0 (the current version).  Clicking through to the compiler
errors (
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/Boom-00install.html)
gives:

* installing to library
‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages’
* installing *source* package ‘Boom’ ...
** package ‘Boom’ successfully unpacked and MD5 sums checked
** libs
make[1]: Entering directory '/tmp/Rtmpnqufqi/R.INSTALL4d314a0b9495/Boom/src'
clang++-6.0  -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include"
-DNDEBUG -I. -I../inst/include -IBmath -Imath/cephes
-DNO_BOOST_THREADS -DNO_BOOST_FILESYSTEM -DADD_ -DRLANGUAGE
-I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/BH/include"
-I/usr/local/include   -fpic  -g -O3 -Wall -pedantic -mtune=native -c
Models/Bart/PoissonBartModel.cpp -o Models/Bart/PoissonBartModel.o
In file included from Models/Bart/PoissonBartModel.cpp:19:
In file included from ../inst/include/Models/Bart/PoissonBartModel.hpp:24:
In file included from ../inst/include/Models/Bart/Bart.hpp:22:
In file included from
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/set:60:
In file included from
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_tree.h:65:
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:545:9:
error: redefinition of '__not_overloaded<_Tp, _Up>'
        struct __not_overloaded<_Tp, _Up> : __not_overloaded2<_Tp, _Up> { };
               ^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:531:9:
note: previous definition is here
        struct __not_overloaded<_Tp, _Up, __void_t<
               ^
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:608:9:
error: redefinition of '__not_overloaded<_Tp, _Up>'
        struct __not_overloaded<_Tp, _Up> : __not_overloaded2<_Tp, _Up> { };
               ^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:594:9:
note: previous definition is here
        struct __not_overloaded<_Tp, _Up, __void_t<
               ^
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:671:9:
error: redefinition of '__not_overloaded<_Tp, _Up>'
        struct __not_overloaded<_Tp, _Up> : __not_overloaded2<_Tp, _Up> { };
               ^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:657:9:
note: previous definition is here
        struct __not_overloaded<_Tp, _Up, __void_t<
               ^
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:734:9:
error: redefinition of '__not_overloaded<_Tp, _Up>'
        struct __not_overloaded<_Tp, _Up> : __not_overloaded2<_Tp, _Up> { };
               ^~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/bin/../lib/gcc/x86_64-linux-gnu/8.0.1/../../../../include/c++/8.0.1/bits/stl_function.h:720:9:
note: previous definition is here
        struct __not_overloaded<_Tp, _Up, __void_t<
               ^
4 errors generated.
/home/hornik/tmp/R.check/r-devel-clang/Work/build/etc/Makeconf:166:
recipe for target 'Models/Bart/PoissonBartModel.o' failed
make[1]: *** [Models/Bart/PoissonBartModel.o] Error 1
make[1]: Leaving directory '/tmp/Rtmpnqufqi/R.INSTALL4d314a0b9495/Boom/src'
ERROR: compilation failed for package ‘Boom’
* removing ‘/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Boom’

These appear to be caused by an ill formed std::set or std::function in the
STL implementation of the host machine.  If I'm reading that wrong someone
please let me know.

Thanks!
S

---------- Forwarded message ----------
From: <Uwe.Ligges at r-project.org>
Date: Wed, Apr 4, 2018 at 1:21 PM
Subject: [CRAN-pretest-archived] CRAN submission Boom 0.8
To: steve.the.bayesian at gmail.com
Cc: CRAN-submissions at r-project.org


Dear maintainer,

package Boom_0.8.tar.gz does not pass the incoming checks automatically,
please see the following pre-tests:
Windows: <https://win-builder.r-project.org/incoming_pretest/
Boom_0.8_20180404_192911/Windows/00check.log>
Status: 4 NOTEs
Debian: <https://win-builder.r-project.org/incoming_pretest/
Boom_0.8_20180404_192911/Debian/00check.log>
Status: 3 NOTEs

Last released version's CRAN status: ERROR: 2, NOTE: 9
See: <https://CRAN.R-project.org/web/checks/check_results_Boom.html>


CRAN Web: <https://cran.r-project.org/package=Boom>

Please fix all problems and resubmit a fixed version via the webform.
If you are not sure how to fix the problems shown, please ask for help on
the R-package-devel mailing list:
<https://stat.ethz.ch/mailman/listinfo/r-package-devel>
If you are fairly certain the rejection is a false positive, please
reply-all to this message and explain.

More details are given in the directory:
<https://win-builder.r-project.org/incoming_pretest/
Boom_0.8_20180404_192911/>
The files will be removed after roughly 7 days.

Strong rev. depends: BoomSpikeSlab bsts CausalImpact cbar

Best regards,
CRAN teams' auto-check service

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