snpStats 1.22.0
David Clayton
| Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/snpStats | | Last Changed Rev: 117079 / Revision: 122332 | | Last Changed Date: 2016-05-03 14:20:18 -0700 (Tue, 03 May 2016) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | [ OK ] | OK | OK | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf snpStats.buildbin-libdir && mkdir snpStats.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin2/BBS/3.3/bioc/src/contrib/snpStats_1.22.0.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --library=snpStats.buildbin-libdir --merge-multiarch snpStats_1.22.0.tar.gz && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL snpStats_1.22.0.zip && rm snpStats_1.22.0.tar.gz snpStats_1.22.0.zip
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install for i386
* installing *source* package 'snpStats' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Runcertain.c -o Runcertain.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c bind.c -o bind.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c count_gt.c -o count_gt.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c covwin.c -o covwin.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c force_hom.c -o force_hom.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c fst.c -o fst.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c glm_test.c -o glm_test.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c glm_test_R.c -o glm_test_R.o
glm_test_R.c: In function 'snp_rhs_score':
glm_test_R.c:368:7: warning: unused variable 'max_name_length' [-Wunused-variable]
int max_name_length = MAX_NAME_LENGTH -1;
^
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c hash_index.c -o hash_index.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c hphase.c -o hphase.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c imputation.c -o imputation.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c in.c -o in.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c input.c -o input.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c invert.c -o invert.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c ipf.c -o ipf.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c ld.c -o ld.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c misc.c -o misc.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c mla.c -o mla.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c mvphenotype.c -o mvphenotype.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c outdata.c -o outdata.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c plink.c -o plink.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c read_uncertain.c -o read_uncertain.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c readped.c -o readped.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c single_snp_tests.c -o single_snp_tests.o
single_snp_tests.c: In function 'score_single':
single_snp_tests.c:327:4: warning: 'name_index' may be used uninitialized in this function [-Wmaybe-uninitialized]
do_impute(Snps, n, diploid, subset, nsubj, name_index, Rule, gt2ht,
^
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c snp_summary.c -o snp_summary.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c snpmpy.c -o snpmpy.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c solve_cubic.c -o solve_cubic.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c structure.c -o structure.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c subset.c -o subset.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c switch.c -o switch.o
switch.c: In function 'test_switch':
switch.c:32:8: warning: variable 'female2' set but not used [-Wunused-but-set-variable]
int *female2 = NULL;
^
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c tdt.c -o tdt.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c testBig.c -o testBig.o
C:/Rtools/mingw_32/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O3 -Wall -std=gnu99 -mtune=core2 -c uncertain.c -o uncertain.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o snpStats.dll tmp.def Runcertain.o bind.o count_gt.o covwin.o force_hom.o fst.o glm_test.o glm_test_R.o hash_index.o hphase.o imputation.o in.o input.o invert.o ipf.o ld.o misc.o mla.o mvphenotype.o outdata.o plink.o read_uncertain.o readped.o single_snp_tests.o snp_summary.o snpmpy.o solve_cubic.o structure.o subset.o switch.o tdt.o testBig.o uncertain.o -LE:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -Lc:/local323/lib/i386 -Lc:/local323/lib -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-3.3-bioc/meat/snpStats.buildbin-libdir/snpStats/libs/i386
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'snpStats'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'snpStats' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Runcertain.c -o Runcertain.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c bind.c -o bind.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c count_gt.c -o count_gt.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c covwin.c -o covwin.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c force_hom.c -o force_hom.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c fst.c -o fst.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c glm_test.c -o glm_test.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c glm_test_R.c -o glm_test_R.o
glm_test_R.c: In function 'snp_rhs_score':
glm_test_R.c:368:7: warning: unused variable 'max_name_length' [-Wunused-variable]
int max_name_length = MAX_NAME_LENGTH -1;
^
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c hash_index.c -o hash_index.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c hphase.c -o hphase.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c imputation.c -o imputation.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c in.c -o in.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c input.c -o input.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c invert.c -o invert.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c ipf.c -o ipf.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c ld.c -o ld.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c misc.c -o misc.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c mla.c -o mla.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c mvphenotype.c -o mvphenotype.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c outdata.c -o outdata.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c plink.c -o plink.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c read_uncertain.c -o read_uncertain.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c readped.c -o readped.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c single_snp_tests.c -o single_snp_tests.o
single_snp_tests.c: In function 'score_single':
single_snp_tests.c:327:4: warning: 'name_index' may be used uninitialized in this function [-Wmaybe-uninitialized]
do_impute(Snps, n, diploid, subset, nsubj, name_index, Rule, gt2ht,
^
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c snp_summary.c -o snp_summary.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c snpmpy.c -o snpmpy.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c solve_cubic.c -o solve_cubic.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c structure.c -o structure.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c subset.c -o subset.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c switch.c -o switch.o
switch.c: In function 'test_switch':
switch.c:32:8: warning: variable 'female2' set but not used [-Wunused-but-set-variable]
int *female2 = NULL;
^
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c tdt.c -o tdt.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c testBig.c -o testBig.o
C:/Rtools/mingw_64/bin/gcc -I"E:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -std=gnu99 -mtune=core2 -c uncertain.c -o uncertain.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o snpStats.dll tmp.def Runcertain.o bind.o count_gt.o covwin.o force_hom.o fst.o glm_test.o glm_test_R.o hash_index.o hphase.o imputation.o in.o input.o invert.o ipf.o ld.o misc.o mla.o mvphenotype.o outdata.o plink.o read_uncertain.o readped.o single_snp_tests.o snp_summary.o snpmpy.o solve_cubic.o structure.o subset.o switch.o tdt.o testBig.o uncertain.o -LE:/biocbld/bbs-3.3-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -Lc:/local323/lib/x64 -Lc:/local323/lib -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lR
installing to E:/biocbld/bbs-3.3-bioc/meat/snpStats.buildbin-libdir/snpStats/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'snpStats' as snpStats_1.22.0.zip
* DONE (snpStats)
* installing to library 'E:/biocbld/bbs-3.3-bioc/R/library'
package 'snpStats' successfully unpacked and MD5 sums checked