snpMatrix 1.12.0
David Clayton
| Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/snpMatrix | | Last Changed Rev: 46401 / Revision: 49923 | | Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010) |
| wilson1 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | WARNINGS | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.6-bioc/meat/snpMatrix.Rcheck'
* using R version 2.11.1 (2010-05-31)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'snpMatrix/DESCRIPTION' ... OK
* this is package 'snpMatrix' version '1.12.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'snpMatrix' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
prepare_Rd: snp.clust.plot.Rd:34-36: Dropping empty section \note
prepare_Rd: snp.clust.plot.Rd:31-33: Dropping empty section \author
prepare_Rd: snp.clust.plot.Rd:28-30: Dropping empty section \references
prepare_Rd: snp.compare.Rd:36-38: Dropping empty section \note
prepare_Rd: snp.compare.Rd:33-35: Dropping empty section \author
prepare_Rd: snp.compare.Rd:30-32: Dropping empty section \references
prepare_Rd: snp.compare.Rd:42-44: Dropping empty section \seealso
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
* install options are ' --no-html'
* installing *source* package 'snpMatrix' ...
** libs
making DLL ...
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c adler32.c -o adler32.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c bind.c -o bind.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c compress.c -o compress.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c count_gt.c -o count_gt.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c covwin.c -o covwin.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c crc32.c -o crc32.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c deflate.c -o deflate.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c force_hom.c -o force_hom.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c glm_test.c -o glm_test.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c glm_test_R.c -o glm_test_R.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c gzio.c -o gzio.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c hash_index.c -o hash_index.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c hphase.c -o hphase.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c ibs.c -o ibs.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c imputation.c -o imputation.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c in.c -o in.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c infback.c -o infback.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c inffast.c -o inffast.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c inflate.c -o inflate.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c inftrees.c -o inftrees.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c input.c -o input.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c invert.c -o invert.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c ld_graphic_eps.c -o ld_graphic_eps.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c ld_with.c -o ld_with.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c mla.c -o mla.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c outdata.c -o outdata.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c pairwise_linkage.c -o pairwise_linkage.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c read_chiamo.c -o read_chiamo.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c read_hapmap.c -o read_hapmap.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c read_pedfile.c -o read_pedfile.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c read_signals.c -o read_signals.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c readbed.c -o readbed.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c readped.c -o readped.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c sdfpw.c -o sdfpw.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c single_snp_tests.c -o single_snp_tests.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c snp_summary.c -o snp_summary.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c snpmpy.c -o snpmpy.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c solve_cubic.c -o solve_cubic.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c solve_quadratic.c -o solve_quadratic.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c structure.c -o structure.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c switch.c -o switch.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c tdt.c -o tdt.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c trees.c -o trees.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c uncompr.c -o uncompr.o
gcc -I"E:/biocbld/bbs-2.6-bioc/R/include" -O3 -Wall -std=gnu99 -c zutil.c -o zutil.o
gcc -shared -s -static-libgcc -o snpMatrix.dll tmp.def adler32.o bind.o compress.o count_gt.o covwin.o crc32.o deflate.o force_hom.o glm_test.o glm_test_R.o gzio.o hash_index.o hphase.o ibs.o imputation.o in.o infback.o inffast.o inflate.o inftrees.o input.o invert.o ld_graphic_eps.o ld_with.o mla.o outdata.o pairwise_linkage.o read_chiamo.o read_hapmap.o read_pedfile.o read_signals.o readbed.o readped.o sdfpw.o single_snp_tests.o snp_summary.o snpmpy.o solve_cubic.o solve_quadratic.o structure.o switch.o tdt.o trees.o uncompr.o zutil.o -LE:/biocbld/bbs-2.6-bioc/R/bin -lR
installing to E:/biocbld/bbs-2.6-bioc/meat/snpMatrix.Rcheck/snpMatrix/libs
... done
** R
** data
** inst
** preparing package for lazy loading
Loading required package: splines
Creating a new generic function for "plot" in "snpMatrix"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (snpMatrix)