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INSTALL report for GraphAlignment on malbec2

This page was generated on 2019-10-16 11:56:46 -0400 (Wed, 16 Oct 2019).

Package 713/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GraphAlignment 1.48.0
Joern P. Meier
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/GraphAlignment
Branch: RELEASE_3_9
Last Commit: ce9d1e4
Last Changed Date: 2019-05-02 11:53:09 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64 [ OK ] OK  WARNINGS 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
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: GraphAlignment
Version: 1.48.0
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL GraphAlignment
StartedAt: 2019-10-15 18:09:33 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 18:09:39 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 6.6 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL GraphAlignment
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘GraphAlignment’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c GA_alloc.c -o GA_alloc.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c GA_matrix.c -o GA_matrix.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c GA_matrix_R.c -o GA_matrix_R.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c GA_message.c -o GA_message.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c GA_vector.c -o GA_vector.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -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);
         ^~~~
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -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);
         ^~~~
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -c lap.c -o lap.o
lap.c: In function ‘LAP_checklap’:
lap.c:348:9: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result]
         scanf("%c", &wait);
         ^~~~~~~~~~~~~~~~~~
lap.c:358:7: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result]
       scanf("%c", &wait);
       ^~~~~~~~~~~~~~~~~~
lap.c:371:7: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result]
       scanf("%c", &wait);
       ^~~~~~~~~~~~~~~~~~
lap.c:384:7: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result]
       scanf("%c", &wait);
       ^~~~~~~~~~~~~~~~~~
lap.c:394:7: warning: ignoring return value of ‘scanf’, declared with attribute warn_unused_result [-Wunused-result]
       scanf("%c", &wait);
       ^~~~~~~~~~~~~~~~~~
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;
                              ^~~~
lap.c:269:16: warning: ‘min’ may be used uninitialized in this function [-Wmaybe-uninitialized]
             if (v2 == min)   /* new column found at same minimum value */
                ^
gcc -shared -L/home/biocbuild/bbs-3.9-bioc/R/lib -L/usr/local/lib -o GraphAlignment.so GA_alloc.o GA_matrix.o GA_matrix_R.o GA_message.o GA_vector.o GA_vector_R.o GraphAlignment.o lap.o -L/home/biocbuild/bbs-3.9-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-GraphAlignment/00new/GraphAlignment/libs
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (GraphAlignment)