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INSTALL report for SMAP on tokay2

This page was generated on 2018-10-17 08:33:30 -0400 (Wed, 17 Oct 2018).

Package 1390/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SMAP 1.44.0
Robin Andersson
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/SMAP
Branch: RELEASE_3_7
Last Commit: 3219eed
Last Changed Date: 2018-04-30 10:35:07 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SMAP
Version: 1.44.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/SMAP_1.44.0.tar.gz && rm -rf SMAP.buildbin-libdir && mkdir SMAP.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SMAP.buildbin-libdir SMAP_1.44.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL SMAP_1.44.0.zip && rm SMAP_1.44.0.tar.gz SMAP_1.44.0.zip
StartedAt: 2018-10-16 18:35:37 -0400 (Tue, 16 Oct 2018)
EndedAt: 2018-10-16 18:36:08 -0400 (Tue, 16 Oct 2018)
EllapsedTime: 30.4 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/SMAP_1.44.0.tar.gz && rm -rf SMAP.buildbin-libdir && mkdir SMAP.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SMAP.buildbin-libdir SMAP_1.44.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL SMAP_1.44.0.zip && rm SMAP_1.44.0.tar.gz SMAP_1.44.0.zip
###
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install for i386

* installing *source* package 'SMAP' ...
** libs
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c gradient.c -o gradient.o
gradient.c: In function 'prior_gradient':
gradient.c:142:7: warning: variable 'lower' set but not used [-Wunused-but-set-variable]
   int lower;
       ^
gradient.c: In function 'hmm_update':
gradient.c:247:10: warning: unused variable 'tmp' [-Wunused-variable]
   double tmp;
          ^
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c overlap.c -o overlap.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c prob.c -o prob.o
C:/Rtools/mingw_32/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O3 -Wall  -std=gnu99 -mtune=generic -c viterbi.c -o viterbi.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o SMAP.dll tmp.def gradient.o init.o overlap.o prob.o viterbi.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/SMAP.buildbin-libdir/SMAP/libs/i386
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SMAP'
    finding HTML links ... done
    GBM                                     html  
    SMAP-internal                           html  
    SMAPHMM-class                           html  
    SMAPHMM                                 html  
    SMAPObservations-class                  html  
    SMAPObservations                        html  
    SMAPProfile-class                       html  
    SMAPProfiles-class                      html  
    smap                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'SMAP' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c gradient.c -o gradient.o
gradient.c: In function 'prior_gradient':
gradient.c:142:7: warning: variable 'lower' set but not used [-Wunused-but-set-variable]
   int lower;
       ^
gradient.c: In function 'hmm_update':
gradient.c:247:10: warning: unused variable 'tmp' [-Wunused-variable]
   double tmp;
          ^
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c init.c -o init.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c overlap.c -o overlap.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c prob.c -o prob.o
C:/Rtools/mingw_64/bin/gcc  -I"C:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mtune=generic -c viterbi.c -o viterbi.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o SMAP.dll tmp.def gradient.o init.o overlap.o prob.o viterbi.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.7-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.7-bioc/meat/SMAP.buildbin-libdir/SMAP/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SMAP' as SMAP_1.44.0.zip
* DONE (SMAP)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'SMAP' successfully unpacked and MD5 sums checked
In R CMD INSTALL