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This page was generated on 2022-04-13 12:06:40 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for GraphAlignment on tokay2


To the developers/maintainers of the GraphAlignment package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GraphAlignment.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 819/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GraphAlignment 1.58.0  (landing page)
Joern P. Meier
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/GraphAlignment
git_branch: RELEASE_3_14
git_last_commit: bc70f85
git_last_commit_date: 2021-10-26 11:51:55 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: GraphAlignment
Version: 1.58.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GraphAlignment_1.58.0.tar.gz && rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GraphAlignment.buildbin-libdir GraphAlignment_1.58.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GraphAlignment_1.58.0.zip && rm GraphAlignment_1.58.0.tar.gz GraphAlignment_1.58.0.zip
StartedAt: 2022-04-12 03:54:39 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 03:57:38 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 179.1 seconds
RetCode: 0
Status:   OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GraphAlignment_1.58.0.tar.gz && rm -rf GraphAlignment.buildbin-libdir && mkdir GraphAlignment.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GraphAlignment.buildbin-libdir GraphAlignment_1.58.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GraphAlignment_1.58.0.zip && rm GraphAlignment_1.58.0.tar.gz GraphAlignment_1.58.0.zip
###
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##############################################################################


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100  103k  100  103k    0     0   369k      0 --:--:-- --:--:-- --:--:--  371k

install for i386

* installing *source* package 'GraphAlignment' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_alloc.c -o GA_alloc.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_matrix.c -o GA_matrix.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_matrix_R.c -o GA_matrix_R.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_message.c -o GA_message.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_vector.c -o GA_vector.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_vector_R.c -o GA_vector_R.o
GA_vector_R.c: In function 'GA_clamp_mode_from_R':
GA_vector_R.c:139:9: warning: unused variable 'size' [-Wunused-variable]
     int size = LENGTH(robj);
         ^~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GraphAlignment.c -o GraphAlignment.o
GraphAlignment.c: In function 'GA_encode_directed_graph':
GraphAlignment.c:138:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else]
                 if (matrix->elts[i][j] == 1)
                    ^
GraphAlignment.c:159:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else]
                 if (matrix->elts[i][j] == 1)
                    ^
GraphAlignment.c: In function 'GA_directed_mode_from_R':
GraphAlignment.c:264:9: warning: unused variable 'size' [-Wunused-variable]
     int size = LENGTH(robj);
         ^~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c lap.c -o lap.o
lap.c: In function 'LAP_lap':
lap.c:64:30: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized]
   col  j, j1, j2, endofpath, last, low, up, *collist, *matches;
                              ^~~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o GraphAlignment.dll tmp.def GA_alloc.o GA_matrix.o GA_matrix_R.o GA_message.o GA_vector.o GA_vector_R.o GraphAlignment.o lap.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/GraphAlignment.buildbin-libdir/00LOCK-GraphAlignment/00new/GraphAlignment/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'GraphAlignment'
    finding HTML links ... done
    AlignNetworks                           html  
    AlignedPairs                            html  
    AnalyzeAlignment                        html  
    ComputeLinkParameters                   html  
    ComputeM                                html  
    ComputeNodeParameters                   html  
    ComputeScores                           html  
    CreateScoreMatrix                       html  
    EncodeDirectedGraph                     html  
    GenerateExample                         html  
    GetBinNumber                            html  
    InitialAlignment                        html  
    InvertPermutation                       html  
    LinearAssignment                        html  
    MatrixToBin                             html  
    Permute                                 html  
    Trace                                   html  
    VectorToBin                             html  
** 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

install for x64

* installing *source* package 'GraphAlignment' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_alloc.c -o GA_alloc.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_matrix.c -o GA_matrix.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_matrix_R.c -o GA_matrix_R.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_message.c -o GA_message.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_vector.c -o GA_vector.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GA_vector_R.c -o GA_vector_R.o
GA_vector_R.c: In function 'GA_clamp_mode_from_R':
GA_vector_R.c:139:9: warning: unused variable 'size' [-Wunused-variable]
     int size = LENGTH(robj);
         ^~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c GraphAlignment.c -o GraphAlignment.o
GraphAlignment.c: In function 'GA_encode_directed_graph':
GraphAlignment.c:138:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else]
                 if (matrix->elts[i][j] == 1)
                    ^
GraphAlignment.c:159:20: warning: suggest explicit braces to avoid ambiguous 'else' [-Wdangling-else]
                 if (matrix->elts[i][j] == 1)
                    ^
GraphAlignment.c: In function 'GA_directed_mode_from_R':
GraphAlignment.c:264:9: warning: unused variable 'size' [-Wunused-variable]
     int size = LENGTH(robj);
         ^~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c lap.c -o lap.o
lap.c: In function 'LAP_lap':
lap.c:64:30: warning: 'last' may be used uninitialized in this function [-Wmaybe-uninitialized]
   col  j, j1, j2, endofpath, last, low, up, *collist, *matches;
                              ^~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o GraphAlignment.dll tmp.def GA_alloc.o GA_matrix.o GA_matrix_R.o GA_message.o GA_vector.o GA_vector_R.o GraphAlignment.o lap.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/GraphAlignment.buildbin-libdir/GraphAlignment/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'GraphAlignment' as GraphAlignment_1.58.0.zip
* DONE (GraphAlignment)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'GraphAlignment' successfully unpacked and MD5 sums checked