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BioC 3.3: CHECK report for LEA on moscato2

This page was generated on 2016-10-13 12:53:43 -0700 (Thu, 13 Oct 2016).

Package 623/1210HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
LEA 1.4.0
Eric Frichot
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/LEA
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  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: LEA
Version: 1.4.0
Command: rm -rf LEA.buildbin-libdir LEA.Rcheck && mkdir LEA.buildbin-libdir LEA.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=LEA.buildbin-libdir LEA_1.4.0.tar.gz >LEA.Rcheck\00install.out 2>&1 && cp LEA.Rcheck\00install.out LEA-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=LEA.buildbin-libdir --install="check:LEA-install.out" --force-multiarch --no-vignettes --timings LEA_1.4.0.tar.gz
StartedAt: 2016-10-13 05:35:30 -0700 (Thu, 13 Oct 2016)
EndedAt: 2016-10-13 05:47:00 -0700 (Thu, 13 Oct 2016)
EllapsedTime: 690.3 seconds
RetCode: 0
Status:  OK  
CheckDir: LEA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf LEA.buildbin-libdir LEA.Rcheck && mkdir LEA.buildbin-libdir LEA.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=LEA.buildbin-libdir LEA_1.4.0.tar.gz >LEA.Rcheck\00install.out 2>&1 && cp LEA.Rcheck\00install.out LEA-install.out  && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=LEA.buildbin-libdir --install="check:LEA-install.out" --force-multiarch --no-vignettes --timings LEA_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/LEA.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'LEA/DESCRIPTION' ... OK
* this is package 'LEA' version '1.4.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'LEA' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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
* loading checks for arch 'i386'
** 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* loading checks for arch 'x64'
** 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 namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
** checking loading without being on the library search path ... OK
* checking 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 ... OK
* 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 for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'E:/biocbld/bbs-3.3-bioc/meat/LEA.buildbin-libdir/LEA/libs/i386/LEA.dll':
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.
The detected symbols are linked into the code but might come from
libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
main_LFMM        128.95   0.07  129.80
main_sNMF         23.29   5.21   64.07
adjusted_pvalues  18.95   0.00   19.04
pvalues           18.81   0.02   18.83
zscores           18.77   0.00   19.45
mlog10pvalues     18.66   0.00   18.69
readZscore         9.91   0.02   10.34
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                   user system elapsed
main_LFMM        117.55   0.06  118.18
main_sNMF         22.17   6.12   59.63
mlog10pvalues     20.46   0.03   20.62
pvalues           20.19   0.00   20.19
zscores           18.17   0.02   18.19
adjusted_pvalues  16.86   0.02   18.01
readZscore        10.12   0.00   10.83
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'E:/biocbld/bbs-3.3-bioc/meat/LEA.Rcheck/00check.log'
for details.

LEA.Rcheck/00install.out:


install for i386

* installing *source* package 'LEA' ...
** libs
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_LFMM.c -o R_LFMM.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_crossEntropy.c -o R_crossEntropy.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_createDataSet.c -o R_createDataSet.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_sNMF.c -o R_sNMF.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_ancestrymap2geno.c -o R_ancestrymap2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_ancestrymap2lfmm.c -o R_ancestrymap2lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_geno2lfmm.c -o R_geno2lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_lfmm2geno.c -o R_lfmm2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_pca.c -o R_pca.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_ped2geno.c -o R_ped2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_ped2lfmm.c -o R_ped2lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_vcf2geno.c -o R_vcf2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_tracyWidom.c -o R_tracyWidom.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_init_LEA.c -o R_init_LEA.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bituint/bituint.c -o bituint/bituint.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bituint/calc_bituint.c -o bituint/calc_bituint.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bituint/io_geno_bituint.c -o bituint/io_geno_bituint.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bituint/slice_bituint.c -o bituint/slice_bituint.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c bituint/thread_bituint.c -o bituint/thread_bituint.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/ancestrymap.c -o convert/ancestrymap.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/geno.c -o convert/geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/ped.c -o convert/ped.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/vcf2geno.c -o convert/vcf2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/geno2lfmm.c -o convert/geno2lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/lfmm2geno.c -o convert/lfmm2geno.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c convert/register_convert.c -o convert/register_convert.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/createDataSet.c -o createDataSet/createDataSet.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/error_cds.c -o createDataSet/error_cds.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/print_cds.c -o createDataSet/print_cds.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/register_cds.c -o createDataSet/register_cds.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/crossEntropy.c -o crossEntropy/crossEntropy.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/error_ce.c -o crossEntropy/error_ce.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/print_ce.c -o crossEntropy/print_ce.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/register_ce.c -o crossEntropy/register_ce.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_double.c -o io/io_data_double.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_float.c -o io/io_data_float.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_int.c -o io/io_data_int.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/io_error.c -o io/io_error.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/io_tools.c -o io/io_tools.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c io/print_bar.c -o io/print_bar.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/beta.c -o LFMM/beta.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/error_lfmm.c -o LFMM/error_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/lfmm_k0.c -o LFMM/lfmm_k0.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/slice_lfmm.c -o LFMM/slice_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/U.c -o LFMM/U.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/beta_k0.c -o LFMM/beta_k0.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/lfmm_algo.c -o LFMM/lfmm_algo.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/print_lfmm.c -o LFMM/print_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/thread_lfmm.c -o LFMM/thread_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/V.c -o LFMM/V.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/data_lfmm.c -o LFMM/data_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/LFMM.c -o LFMM/LFMM.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/register_lfmm.c -o LFMM/register_lfmm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c LFMM/thread_var.c -o LFMM/thread_var.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/cholesky.c -o matrix/cholesky.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/error_matrix.c -o matrix/error_matrix.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/normalize.c -o matrix/normalize.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/slice_matrix.c -o matrix/slice_matrix.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/data.c -o matrix/data.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/inverse.c -o matrix/inverse.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/rand.c -o matrix/rand.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/sylvester.c -o matrix/sylvester.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/diagonalize.c -o matrix/diagonalize.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/matrix.c -o matrix/matrix.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/random_projection.c -o matrix/random_projection.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix/thread_matrix.c -o matrix/thread_matrix.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/blockpivot.c -o nnlsm/blockpivot.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/nnlsm.c -o nnlsm/nnlsm.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/solvenormaleqcomb.c -o nnlsm/solvenormaleqcomb.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/sort.c -o nnlsm/sort.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pca/calc_cov.c -o pca/calc_cov.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pca/error_pca.c -o pca/error_pca.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pca/pca.c -o pca/pca.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pca/print_pca.c -o pca/print_pca.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c pca/register_pca.c -o pca/register_pca.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als.c -o sNMF/als.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_k1.c -o sNMF/als_k1.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/criteria.c -o sNMF/criteria.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/print_snmf.c -o sNMF/print_snmf.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/sNMF.c -o sNMF/sNMF.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_Q.c -o sNMF/thread_Q.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_F.c -o sNMF/als_F.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_Q.c -o sNMF/als_Q.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/error_snmf.c -o sNMF/error_snmf.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/register_snmf.c -o sNMF/register_snmf.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_F.c -o sNMF/thread_F.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_snmf.c -o sNMF/thread_snmf.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/beta_distribution.c -o stats/beta_distribution.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_density.c -o stats/gamma_density.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/ln_beta_function.c -o stats/ln_beta_function.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/beta_function.c -o stats/beta_function.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_distribution.c -o stats/gamma_distribution.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/ln_gamma_function.c -o stats/ln_gamma_function.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/entire_incomplete_gamma_function.c -o stats/entire_incomplete_gamma_function.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_dist_tables.c -o stats/gamma_dist_tables.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/student_t_distribution.c -o stats/student_t_distribution.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/factorial.c -o stats/factorial.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_function.c -o stats/gamma_function.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/error_tracyWidom.c -o tracyWidom/error_tracyWidom.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/register_tracyWidom.c -o tracyWidom/register_tracyWidom.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/print_tracyWidom.c -o tracyWidom/print_tracyWidom.o
C:/Rtools/mingw_32/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/tracyWidom.c -o tracyWidom/tracyWidom.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o LEA.dll tmp.def R_LFMM.o R_crossEntropy.o R_createDataSet.o R_sNMF.o R_ancestrymap2geno.o R_ancestrymap2lfmm.o R_geno2lfmm.o R_lfmm2geno.o R_pca.o R_ped2geno.o R_ped2lfmm.o R_vcf2geno.o R_tracyWidom.o R_init_LEA.o bituint/bituint.o bituint/calc_bituint.o bituint/io_geno_bituint.o bituint/slice_bituint.o bituint/thread_bituint.o convert/ancestrymap.o convert/geno.o convert/ped.o convert/vcf2geno.o convert/geno2lfmm.o convert/lfmm2geno.o convert/register_convert.o createDataSet/createDataSet.o createDataSet/error_cds.o createDataSet/print_cds.o createDataSet/register_cds.o crossEntropy/crossEntropy.o crossEntropy/error_ce.o crossEntropy/print_ce.o crossEntropy/register_ce.o io/io_data_double.o io/io_data_float.o io/io_data_int.o io/io_error.o io/io_tools.o io/print_bar.o LFMM/beta.o LFMM/error_lfmm.o LFMM/lfmm_k0.o LFMM/slice_lfmm.o LFMM/U.o LFMM/beta_k0.o LFMM/lfmm_algo.o LFMM/print_lfmm.o LFMM/thread_lfmm.o LFMM/V.o LFMM/data_lfmm.o LFMM/LFMM.o LFMM/register_lfmm.o LFMM/thread_var.o matrix/cholesky.o matrix/error_matrix.o matrix/normalize.o matrix/slice_matrix.o matrix/data.o matrix/inverse.o matrix/rand.o matrix/sylvester.o matrix/diagonalize.o matrix/matrix.o matrix/random_projection.o matrix/thread_matrix.o nnlsm/blockpivot.o nnlsm/nnlsm.o nnlsm/solvenormaleqcomb.o nnlsm/sort.o pca/calc_cov.o pca/error_pca.o pca/pca.o pca/print_pca.o pca/register_pca.o sNMF/als.o sNMF/als_k1.o sNMF/criteria.o sNMF/print_snmf.o sNMF/sNMF.o sNMF/thread_Q.o sNMF/als_F.o sNMF/als_Q.o sNMF/error_snmf.o sNMF/register_snmf.o sNMF/thread_F.o sNMF/thread_snmf.o stats/beta_distribution.o stats/gamma_density.o stats/ln_beta_function.o stats/beta_function.o stats/gamma_distribution.o stats/ln_gamma_function.o stats/entire_incomplete_gamma_function.o stats/gamma_dist_tables.o stats/student_t_distribution.o stats/factorial.o stats/gamma_function.o tracyWidom/error_tracyWidom.o tracyWidom/register_tracyWidom.o tracyWidom/print_tracyWidom.o tracyWidom/tracyWidom.o -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lRlapack -LE:/biocbld/BBS-3˜1.3-B/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -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/LEA.buildbin-libdir/LEA/libs/i386
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'LEA'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'LEA' ...
** libs
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_LFMM.c -o R_LFMM.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_crossEntropy.c -o R_crossEntropy.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_createDataSet.c -o R_createDataSet.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_sNMF.c -o R_sNMF.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_ancestrymap2geno.c -o R_ancestrymap2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_ancestrymap2lfmm.c -o R_ancestrymap2lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_geno2lfmm.c -o R_geno2lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_lfmm2geno.c -o R_lfmm2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_pca.c -o R_pca.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_ped2geno.c -o R_ped2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_ped2lfmm.c -o R_ped2lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_vcf2geno.c -o R_vcf2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_tracyWidom.c -o R_tracyWidom.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_init_LEA.c -o R_init_LEA.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bituint/bituint.c -o bituint/bituint.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bituint/calc_bituint.c -o bituint/calc_bituint.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bituint/io_geno_bituint.c -o bituint/io_geno_bituint.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bituint/slice_bituint.c -o bituint/slice_bituint.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c bituint/thread_bituint.c -o bituint/thread_bituint.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/ancestrymap.c -o convert/ancestrymap.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/geno.c -o convert/geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/ped.c -o convert/ped.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/vcf2geno.c -o convert/vcf2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/geno2lfmm.c -o convert/geno2lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/lfmm2geno.c -o convert/lfmm2geno.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c convert/register_convert.c -o convert/register_convert.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/createDataSet.c -o createDataSet/createDataSet.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/error_cds.c -o createDataSet/error_cds.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/print_cds.c -o createDataSet/print_cds.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c createDataSet/register_cds.c -o createDataSet/register_cds.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/crossEntropy.c -o crossEntropy/crossEntropy.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/error_ce.c -o crossEntropy/error_ce.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/print_ce.c -o crossEntropy/print_ce.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c crossEntropy/register_ce.c -o crossEntropy/register_ce.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_double.c -o io/io_data_double.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_float.c -o io/io_data_float.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/io_data_int.c -o io/io_data_int.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/io_error.c -o io/io_error.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/io_tools.c -o io/io_tools.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c io/print_bar.c -o io/print_bar.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/beta.c -o LFMM/beta.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/error_lfmm.c -o LFMM/error_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/lfmm_k0.c -o LFMM/lfmm_k0.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/slice_lfmm.c -o LFMM/slice_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/U.c -o LFMM/U.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/beta_k0.c -o LFMM/beta_k0.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/lfmm_algo.c -o LFMM/lfmm_algo.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/print_lfmm.c -o LFMM/print_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/thread_lfmm.c -o LFMM/thread_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/V.c -o LFMM/V.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/data_lfmm.c -o LFMM/data_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/LFMM.c -o LFMM/LFMM.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/register_lfmm.c -o LFMM/register_lfmm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c LFMM/thread_var.c -o LFMM/thread_var.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/cholesky.c -o matrix/cholesky.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/error_matrix.c -o matrix/error_matrix.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/normalize.c -o matrix/normalize.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/slice_matrix.c -o matrix/slice_matrix.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/data.c -o matrix/data.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/inverse.c -o matrix/inverse.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/rand.c -o matrix/rand.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/sylvester.c -o matrix/sylvester.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/diagonalize.c -o matrix/diagonalize.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/matrix.c -o matrix/matrix.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/random_projection.c -o matrix/random_projection.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix/thread_matrix.c -o matrix/thread_matrix.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/blockpivot.c -o nnlsm/blockpivot.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/nnlsm.c -o nnlsm/nnlsm.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/solvenormaleqcomb.c -o nnlsm/solvenormaleqcomb.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c nnlsm/sort.c -o nnlsm/sort.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pca/calc_cov.c -o pca/calc_cov.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pca/error_pca.c -o pca/error_pca.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pca/pca.c -o pca/pca.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pca/print_pca.c -o pca/print_pca.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c pca/register_pca.c -o pca/register_pca.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als.c -o sNMF/als.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_k1.c -o sNMF/als_k1.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/criteria.c -o sNMF/criteria.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/print_snmf.c -o sNMF/print_snmf.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/sNMF.c -o sNMF/sNMF.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_Q.c -o sNMF/thread_Q.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_F.c -o sNMF/als_F.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/als_Q.c -o sNMF/als_Q.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/error_snmf.c -o sNMF/error_snmf.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/register_snmf.c -o sNMF/register_snmf.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_F.c -o sNMF/thread_F.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c sNMF/thread_snmf.c -o sNMF/thread_snmf.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/beta_distribution.c -o stats/beta_distribution.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_density.c -o stats/gamma_density.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/ln_beta_function.c -o stats/ln_beta_function.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/beta_function.c -o stats/beta_function.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_distribution.c -o stats/gamma_distribution.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/ln_gamma_function.c -o stats/ln_gamma_function.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/entire_incomplete_gamma_function.c -o stats/entire_incomplete_gamma_function.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_dist_tables.c -o stats/gamma_dist_tables.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/student_t_distribution.c -o stats/student_t_distribution.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/factorial.c -o stats/factorial.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c stats/gamma_function.c -o stats/gamma_function.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/error_tracyWidom.c -o tracyWidom/error_tracyWidom.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/register_tracyWidom.c -o tracyWidom/register_tracyWidom.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/print_tracyWidom.c -o tracyWidom/print_tracyWidom.o
C:/Rtools/mingw_64/bin/gcc  -I"E:/biocbld/BBS-3˜1.3-B/R/include" -DNDEBUG -I.    -I"c:/local323/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c tracyWidom/tracyWidom.c -o tracyWidom/tracyWidom.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o LEA.dll tmp.def R_LFMM.o R_crossEntropy.o R_createDataSet.o R_sNMF.o R_ancestrymap2geno.o R_ancestrymap2lfmm.o R_geno2lfmm.o R_lfmm2geno.o R_pca.o R_ped2geno.o R_ped2lfmm.o R_vcf2geno.o R_tracyWidom.o R_init_LEA.o bituint/bituint.o bituint/calc_bituint.o bituint/io_geno_bituint.o bituint/slice_bituint.o bituint/thread_bituint.o convert/ancestrymap.o convert/geno.o convert/ped.o convert/vcf2geno.o convert/geno2lfmm.o convert/lfmm2geno.o convert/register_convert.o createDataSet/createDataSet.o createDataSet/error_cds.o createDataSet/print_cds.o createDataSet/register_cds.o crossEntropy/crossEntropy.o crossEntropy/error_ce.o crossEntropy/print_ce.o crossEntropy/register_ce.o io/io_data_double.o io/io_data_float.o io/io_data_int.o io/io_error.o io/io_tools.o io/print_bar.o LFMM/beta.o LFMM/error_lfmm.o LFMM/lfmm_k0.o LFMM/slice_lfmm.o LFMM/U.o LFMM/beta_k0.o LFMM/lfmm_algo.o LFMM/print_lfmm.o LFMM/thread_lfmm.o LFMM/V.o LFMM/data_lfmm.o LFMM/LFMM.o LFMM/register_lfmm.o LFMM/thread_var.o matrix/cholesky.o matrix/error_matrix.o matrix/normalize.o matrix/slice_matrix.o matrix/data.o matrix/inverse.o matrix/rand.o matrix/sylvester.o matrix/diagonalize.o matrix/matrix.o matrix/random_projection.o matrix/thread_matrix.o nnlsm/blockpivot.o nnlsm/nnlsm.o nnlsm/solvenormaleqcomb.o nnlsm/sort.o pca/calc_cov.o pca/error_pca.o pca/pca.o pca/print_pca.o pca/register_pca.o sNMF/als.o sNMF/als_k1.o sNMF/criteria.o sNMF/print_snmf.o sNMF/sNMF.o sNMF/thread_Q.o sNMF/als_F.o sNMF/als_Q.o sNMF/error_snmf.o sNMF/register_snmf.o sNMF/thread_F.o sNMF/thread_snmf.o stats/beta_distribution.o stats/gamma_density.o stats/ln_beta_function.o stats/beta_function.o stats/gamma_distribution.o stats/ln_gamma_function.o stats/entire_incomplete_gamma_function.o stats/gamma_dist_tables.o stats/student_t_distribution.o stats/factorial.o stats/gamma_function.o tracyWidom/error_tracyWidom.o tracyWidom/register_tracyWidom.o tracyWidom/print_tracyWidom.o tracyWidom/tracyWidom.o -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lRlapack -LE:/biocbld/BBS-3˜1.3-B/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -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/LEA.buildbin-libdir/LEA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'LEA' as LEA_1.4.0.zip
* DONE (LEA)

LEA.Rcheck/examples_i386/LEA-Ex.timings:

nameusersystemelapsed
G0.290.010.53
Q0.250.020.29
adjusted_pvalues18.95 0.0019.04
ancestrymap2geno000
ancestrymap2lfmm0.000.010.02
crossEntropy0.190.000.19
geno2lfmm0.040.000.04
lfmm2geno0.070.000.07
main_LFMM128.95 0.07129.80
main_createDataSet0.040.000.05
main_crossEntropyEstimation0.110.000.14
main_pca0.090.030.20
main_sNMF23.29 5.2164.07
main_tracyWidom0.080.000.08
mlog10pvalues18.66 0.0018.69
ped2geno0.000.010.02
ped2lfmm000
pvalues18.81 0.0218.83
readEnv000
readGeno0.050.000.05
readLfmm0.090.000.10
readZscore 9.91 0.0210.34
vcf2geno0.020.000.92
vcf2lfmm000
writeEnv0.000.000.06
writeGeno0.030.020.05
writeLFMM0.060.010.08
zscores18.77 0.0019.45

LEA.Rcheck/examples_x64/LEA-Ex.timings:

nameusersystemelapsed
G0.250.030.54
Q0.140.040.19
adjusted_pvalues16.86 0.0218.01
ancestrymap2geno000
ancestrymap2lfmm0.000.020.01
crossEntropy0.190.010.21
geno2lfmm0.030.020.04
lfmm2geno0.040.010.06
main_LFMM117.55 0.06118.18
main_createDataSet0.050.000.04
main_crossEntropyEstimation0.130.000.53
main_pca0.170.000.29
main_sNMF22.17 6.1259.63
main_tracyWidom0.040.020.06
mlog10pvalues20.46 0.0320.62
ped2geno0.000.010.02
ped2lfmm0.010.000.01
pvalues20.19 0.0020.19
readEnv000
readGeno0.040.000.05
readLfmm0.080.000.08
readZscore10.12 0.0010.83
vcf2geno000
vcf2lfmm0.020.000.01
writeEnv000
writeGeno0.060.000.07
writeLFMM0.080.000.07
zscores18.17 0.0218.19