[R-SIG-Mac] Batch Commenting in editor?
Ken Nussear
knussear at usgs.gov
Tue Jan 15 20:36:09 CET 2008
Hi
Just wondering if there is a way to "batch comment" in the R editor? I
like to paste model outputs in with my scripts and comment them out so
I can follow things later. I thought it would be useful to be able to
insert a comment symbol to a batch of lines all at once.
Any thoughts?
Ken
--
Kenneth E. Nussear
Research Herpetologist, USGS
(702) 564-4515 Fax (702) 564-4600
knussear at usgs.gov
On Jan 15, 2008, at 3:00 AM, r-sig-mac-request at stat.math.ethz.ch wrote:
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> Today's Topics:
>
> 1. Re: [R] Install RSPerl in Leopard (Prof Brian Ripley)
> 2. building R package (Guillaume Blanchet)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 14 Jan 2008 19:08:26 +0000 (GMT)
> From: Prof Brian Ripley <ripley at stats.ox.ac.uk>
> Subject: Re: [R-SIG-Mac] [R] Install RSPerl in Leopard
> To: David Ochoa <dogcaesar at gmail.com>
> Cc: r-sig-mac at r-project.org
> Message-ID: <Pine.LNX.4.64.0801141812190.12548 at gannet.stats.ox.ac.uk>
> Content-Type: text/plain; charset="iso-8859-1"
>
> On Mon, 14 Jan 2008, Prof Brian Ripley wrote:
>
>> This is not the most appropriate list. But the first answer is
>> that the
>> package is not aware of sub-architectures, introduced a while back
>> in R.
>>
>> The best thing is to follow the posting guide and contact the
>> author: if that
>> fails, people on R-sig-mac might be able to walk you through the
>> changes
>> needed. It perhaps is as simple as editing
>> RSPerl/src/RinPerlMakefile.in to say
>>
>> include $(R_HOME)/etc$(R_ARCH)/Makeconf
>>
>> That should fix the first problem. But
>>
>>> cc1: error: invalid option ?arch=nocona?
>>
>> suggests there might be a further problem (for which use R-sig-mac).
>
> On my system at least that seems a compiler options mismatch (it
> works on
> my self-built version of R-devel with the above change). Removing
> -march=nocona in entries in
>
> /Library/Frameworks/R.framework/Resources/etc/i386/Makeconf
>
> on the CRAN build made this go to completion. (My build does not
> have those.) You can override in CFLAGS in personal Makevars (see
> 'Writing R Extensions').
>
> But I'll let those more expert than I on R-sig-mac comment on that
> issue.
>
>>
>>
>>
>> On Mon, 14 Jan 2008, David Ochoa wrote:
>>
>>> Hi,
>>>
>>> I am having problems installing RSPerl 0.92-1 in my Mac OSX 10.5.1.
>>> I?ve installed correctly R-2.6.1 with the .mpkg.
>>> I run the next command: <R CMD INSTALL --configure-args=' --with-
>>> in-
>>> perl ' RSPerl>
>>> And the next error message appears:
>>>
>>>
>>>
>>> RSPerl
>>> * Installing to library '/Library/Frameworks/R.framework/Resources/
>>> library'
>>> * Installing *source* package 'RSPerl' ...
>>> checking for perl... /usr/bin/perl
>>> No support for any of the Perl modules from calling Perl from R.
>>> *****************************************************
>>>
>>> Set PERL5LIB to /Library/Frameworks/R.framework/Resources/
>>> library/RSPerl/perl
>>>
>>> *****************************************************
>>> Testing: -F/Library/Frameworks/R.framework/.. -framework R
>>> Using '/usr/bin/perl' as the perl executable
>>> Perl modules (no):
>>> Adding R package to list of Perl modules to enable callbacks to R
>>> from
>>> Perl
>>> Creating the C code for dynamically loading modules with native code
>>> for Perl: R
>>> modules: R; linking:
>>> checking for gcc... gcc
>>> checking for C compiler default output file name... a.out
>>> checking whether the C compiler works... yes
>>> checking whether we are cross compiling... no
>>> checking for suffix of executables...
>>> 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
>>> Support R in Perl: yes
>>> configure: creating ./config.status
>>> config.status: creating src/Makevars
>>> config.status: creating inst/scripts/RSPerl.csh
>>> config.status: creating inst/scripts/RSPerl.bsh
>>> config.status: creating src/RinPerlMakefile
>>> config.status: creating src/Makefile.PL
>>> config.status: creating cleanup
>>> config.status: creating src/R.pm
>>> config.status: creating R/perl5lib.R
>>> making target all in RinPerlMakefile
>>> RinPerlMakefile:5: /Library/Frameworks/R.framework/Resources/etc/
>>> Makeconf: No such file or directory
>>> make: *** No rule to make target `/Library/Frameworks/R.framework/
>>> Resources/etc/Makeconf'. Stop.
>>> calling make -f Makefile.perl install
>>> make: Makefile.perl: No such file or directory
>>> make: *** No rule to make target `Makefile.perl'. Stop.
>>> chmod: blib/lib/R.pm: No such file or directory
>>> Finished configuration
>>> ** libs
>>> ** arch - i386
>>> gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -mmacosx-
>>> version-min=10.4 -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/
>>> R.framework/Resources/include -I/Library/Frameworks/R.framework/
>>> Resources/include/i386 -I. -arch i386 -arch ppc -g -pipe -fno-
>>> common -
>>> DPERL_DARWIN -no-cpp-precomp -fno-strict-aliasing -Wdeclaration-
>>> after-
>>> statement -I/usr/local/include -I/System/Library/Perl/5.8.8/darwin-
>>> thread-multi-2level/CORE -DPERL_POLLUTE -D_R_=1 -DUSE_R=1 -
>>> DUSE_TOPLEVEL_EXEC=1 -DWITH_R_IN_PERL=1 -msse3 -fPIC -g -O2 -
>>> march=nocona -c Converters.c -o Converters.o
>>> cc1: error: invalid option ?arch=nocona?
>>> lipo: can't open input file: /var/folders/qc/qcR--kvAHYGoOkmr3ZNtvk
>>> ++
>>> +TM/-Tmp-//cclHWEBN.out (No such file or directory)
>>> make: *** [Converters.o] Error 1
>>> chmod: /Library/Frameworks/R.framework/Resources/library/RSPerl/
>>> libs/
>>> i386/*: No such file or directory
>>> ERROR: compilation failed for package 'RSPerl'
>>> ** Removing '/Library/Frameworks/R.framework/Resources/library/
>>> RSPerl'
>>>
>>>
>>>
>>>
>>> Have I will changed any enviroment variable?
>>> Can anybody help me?
>>> Thanks
>>>
>>>
>>>
>>> David
>>>
>>> ______________________________________________
>>> R-help at r-project.org mailing list
>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>> PLEASE do read the posting guide
>>> http://www.R-project.org/posting-guide.html
>>> and provide commented, minimal, self-contained, reproducible code.
>>>
>>
>>
>
> --
> Brian D. Ripley, ripley at stats.ox.ac.uk
> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel: +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UK Fax: +44 1865 272595
>
> ------------------------------
>
> Message: 2
> Date: Mon, 14 Jan 2008 14:42:07 -0700
> From: "Guillaume Blanchet" <gblanchet.list at gmail.com>
> Subject: [R-SIG-Mac] building R package
> To: r-sig-mac at stat.math.ethz.ch
> Message-ID:
> <2f2c96cb0801141342u111cecf4m4ca4e5da68228dbd at mail.gmail.com>
> Content-Type: text/plain
>
> Hi all !
>
> I just installed Mac OS X 10.5.1 on my Intel MacBook Pro. Since I
> have my
> personal packages that I build and modify every so often I also
> installed
> Xcode 3. My packages contain either some C code, some Fortran code
> or both.
>
> However, I can not build a binary of my package, which I know to be
> error-free since they were running without any bugs when I was
> running Tiger
> (Mac OS 10.4.11).
>
> The message that is sent to me when I launch the command "R CMD build
> --binary AEM" (AEM being the name of my package) in the terminal is:
>
>
> macintosh:AEM Package ti-guiblanc$ R CMD build --binary AEM
> * checking for file 'AEM/DESCRIPTION' ... OK
> * preparing 'AEM':
> * checking DESCRIPTION meta-information ... OK
> * cleaning src
> * removing junk files
> * checking for LF line-endings in source and make files
> * checking for empty or unneeded directories
> * building binary distribution
> /var/folders/+5/+5Ch2A6BEb4+iULWkg5XEU+++TI/-Tmp-/Rinst965351719
> * Installing *source* package 'AEM' ...
> ** libs
> ** arch - i386
> gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk
> -mmacosx-version-min=10.4 -std=gnu99 -no-cpp-precomp
> -I/Library/Frameworks/R.framework/Resources/include
> -I/Library/Frameworks/R.framework/Resources/include/i386 -msse3 -
> fPIC
> -g -O2 -march=nocona -c buildbinary.c -o buildbinary.o
> gcc -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk
> -mmacosx-version-min=10.4 -std=gnu99 -dynamiclib
> -Wl,-headerpad_max_install_names -Wl,-macosx_version_min -Wl,10.4 -
> undefined
> dynamic_lookup -single_module -multiply_defined suppress -L/usr/
> local/lib -o
> AEM.so buildbinary.o -F/Library/Frameworks/R.framework/.. -
> framework R
> ld: warning, duplicate dylib
> /Developer/SDKs/MacOSX10.4u.sdk/usr/local/lib/libgcc_s.1.dylib
> ** arch - ppc
> gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk
> -mmacosx-version-min=10.4 -std=gnu99 -no-cpp-precomp
> -I/Library/Frameworks/R.framework/Resources/include
> -I/Library/Frameworks/R.framework/Resources/include/ppc
> -I/usr/local/include -fPIC -g -O2 -c buildbinary.c -o
> buildbinary.o
> gcc -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk
> -mmacosx-version-min=10.4 -std=gnu99 -dynamiclib
> -Wl,-headerpad_max_install_names -Wl,-macosx_version_min -Wl,10.4 -
> undefined
> dynamic_lookup -single_module -multiply_defined suppress -L/usr/
> local/lib -o
> AEM.so buildbinary.o -F/Library/Frameworks/R.framework/.. -
> framework R
> ld: warning, duplicate dylib
> /Developer/SDKs/MacOSX10.4u.sdk/usr/local/lib/libgcc_s.1.dylib
> ld: in /Developer/SDKs/MacOSX10.4u.sdk/usr/local/lib/libstdc++.
> 6.dylib, file
> is not of required architecture
> collect2: ld returned 1 exit status
> make: *** [AEM.so] Error 1
> chmod:
> /var/folders/+5/+5Ch2A6BEb4+iULWkg5XEU+++TI/-Tmp-/Rinst965351719/AEM/
> libs/ppc/*:
> No such file or directory
> ERROR: compilation failed for package 'AEM'
> ** Removing
> '/var/folders/+5/+5Ch2A6BEb4+iULWkg5XEU+++TI/-Tmp-/Rinst965351719/AEM'
> ERROR
> * installation failed
>
>
> My knowledge of the UNIX code and the terminal is limited, so please
> be
> gentle !
>
> Thanks in advance for any help.
>
> Have a nice day !
>
> Guillaume Blanchet
> PhD. candidate
> University of Alberta
>
> [[alternative HTML version deleted]]
>
>
>
> ------------------------------
>
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