deepSNV 1.19.4
Moritz Gerstung
| Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/deepSNV | | Last Changed Rev: 117893 / Revision: 121152 | | Last Changed Date: 2016-05-26 11:46:10 -0700 (Thu, 26 May 2016) |
| zin1 | Linux (Ubuntu 16.04 LTS) / x86_64 | OK | OK | WARNINGS | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | [ OK ] | OK | WARNINGS | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | WARNINGS | OK | |
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### Running command:
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### rm -rf deepSNV.buildbin-libdir && mkdir deepSNV.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/deepSNV_1.19.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=deepSNV.buildbin-libdir --merge-multiarch deepSNV_1.19.4.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL deepSNV_1.19.4.zip && rm deepSNV_1.19.4.tar.gz deepSNV_1.19.4.zip
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install for i386
* installing *source* package 'deepSNV' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
C:/Rtools/mingw_32/bin/g++ -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/include" -I"c:/local323/include" -O2 -Wall -mtune=core2 -c bam2R.cpp -o bam2R.o
bam2R.cpp: In function 'int bam2R(char**, char**, int*, int*, int*, int*, int*, int*, int*, int*)':
bam2R.cpp:43:13: warning: unused variable 'iter' [-Wunused-variable]
hts_itr_t *iter = NULL;
^
bam2R.cpp:46:6: warning: unused variable 'c' [-Wunused-variable]
int c = 0;
^
C:/Rtools/mingw_32/bin/gcc -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/include" -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c betabinom.c -o betabinom.o
betabinom.c: In function 'pbb':
betabinom.c:27:9: warning: unused variable 'log' [-Wunused-variable]
int i, log=0;
^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o deepSNV.dll tmp.def bam2R.o betabinom.o -LD:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/lib/i386 -lhts -lz -pthread -lws2_32 -Lc:/local323/lib/i386 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/deepSNV.buildbin-libdir/deepSNV/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'deepSNV' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
C:/Rtools/mingw_64/bin/g++ -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/include" -I"c:/local323/include" -O2 -Wall -mtune=core2 -c bam2R.cpp -o bam2R.o
bam2R.cpp: In function 'int bam2R(char**, char**, int*, int*, int*, int*, int*, int*, int*, int*)':
bam2R.cpp:43:13: warning: unused variable 'iter' [-Wunused-variable]
hts_itr_t *iter = NULL;
^
bam2R.cpp:46:6: warning: unused variable 'c' [-Wunused-variable]
int c = 0;
^
C:/Rtools/mingw_64/bin/gcc -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/include" -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c betabinom.c -o betabinom.o
betabinom.c: In function 'pbb':
betabinom.c:27:9: warning: unused variable 'log' [-Wunused-variable]
int i, log=0;
^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o deepSNV.dll tmp.def bam2R.o betabinom.o -LD:/biocbld/bbs-3.4-bioc/R/library/Rhtslib/lib/x64 -lhts -lz -pthread -lws2_32 -Lc:/local323/lib/x64 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/deepSNV.buildbin-libdir/deepSNV/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'deepSNV' as deepSNV_1.19.4.zip
* DONE (deepSNV)
* installing to library 'D:/biocbld/bbs-3.4-bioc/R/library'
package 'deepSNV' successfully unpacked and MD5 sums checked