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BioC 3.2: INSTALL report for preprocessCore on windows1.bioconductor.org

This page was generated on 2015-10-27 17:27:34 -0400 (Tue, 27 Oct 2015).

Package 795/1104HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
preprocessCore 1.32.0
Benjamin Milo Bolstad
Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/preprocessCore
Last Changed Rev: 109589 / Revision: 109947
Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015)
linux1.bioconductor.org Linux (Ubuntu 14.04.2 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
windows1.bioconductor.org Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 [ OK ] OK  OK  OK UNNEEDED, same version exists in internal repository
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: preprocessCore
Version: 1.32.0
Command: C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/preprocessCore_1.32.0.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch preprocessCore_1.32.0.tar.gz && rm preprocessCore_1.32.0.tar.gz
StartedAt: 2015-10-26 20:02:29 -0400 (Mon, 26 Oct 2015)
EndedAt: 2015-10-26 20:02:46 -0400 (Mon, 26 Oct 2015)
EllapsedTime: 17.0 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin64\bin\curl.exe -O http://linux1.bioconductor.org/BBS/3.2/bioc/src/contrib/preprocessCore_1.32.0.tar.gz && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch preprocessCore_1.32.0.tar.gz && rm preprocessCore_1.32.0.tar.gz
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  127k  100  127k    0     0  20.8M      0 --:--:-- --:--:-- --:--:-- 62.4M

install for i386

* installing to library 'C:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'preprocessCore' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_colSummarize.c -o R_colSummarize.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_plmd_interfaces.c -o R_plmd_interfaces.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_plmr_interfaces.c -o R_plmr_interfaces.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_rlm_interfaces.c -o R_rlm_interfaces.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_subColSummarize.c -o R_subColSummarize.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c R_subrcModel_interfaces.c -o R_subrcModel_interfaces.o
R_subrcModel_interfaces.c: In function 'R_sub_rcModelSummarize_medianpolish':
R_subrcModel_interfaces.c:190:11: warning: unused variable 'se' [-Wunused-variable]
R_subrcModel_interfaces.c:189:11: warning: unused variable 'weights' [-Wunused-variable]
R_subrcModel_interfaces.c:154:30: warning: unused variable 'buffer2' [-Wunused-variable]
R_subrcModel_interfaces.c:154:21: warning: unused variable 'buffer' [-Wunused-variable]
R_subrcModel_interfaces.c:154:11: warning: unused variable 'results' [-Wunused-variable]
R_subrcModel_interfaces.c: In function 'R_sub_rcModelSummarize_plm':
R_subrcModel_interfaces.c:510:10: warning: unused variable 'scale' [-Wunused-variable]
R_subrcModel_interfaces.c:469:30: warning: unused variable 'buffer2' [-Wunused-variable]
R_subrcModel_interfaces.c:469:21: warning: unused variable 'buffer' [-Wunused-variable]
R_subrcModel_interfaces.c:469:11: warning: unused variable 'results' [-Wunused-variable]
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c avg.c -o avg.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c avg_log.c -o avg_log.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c biweight.c -o biweight.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c init_package.c -o init_package.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c lm.c -o lm.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c log_avg.c -o log_avg.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c log_median.c -o log_median.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c matrix_functions.c -o matrix_functions.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c median.c -o median.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c median_log.c -o median_log.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c medianpolish.c -o medianpolish.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c plmd.c -o plmd.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c plmr.c -o plmr.o
plmr.c:82:13: warning: 'XTWY_R' defined but not used [-Wunused-function]
plmr.c:152:13: warning: 'XTWX_R' defined but not used [-Wunused-function]
plmr.c:279:13: warning: 'XTWX_R_inv' defined but not used [-Wunused-function]
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c psi_fns.c -o psi_fns.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c qnorm.c -o qnorm.o
qnorm.c: In function 'qnorm_c_determine_target_l':
qnorm.c:1887:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:1882:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'qnorm_c_determine_target_via_subset_l':
qnorm.c:2481:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:2476:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'using_target_via_subset_part1':
qnorm.c:2692:14: warning: variable 'ind' set but not used [-Wunused-but-set-variable]
qnorm.c: In function 'using_target_via_subset_part2':
qnorm.c:2791:11: warning: unused variable 'datvec' [-Wunused-variable]
qnorm.c:2790:11: warning: unused variable 'sample_percentiles' [-Wunused-variable]
qnorm.c: In function 'using_target_via_subset':
qnorm.c:2940:11: warning: unused variable 'datvec' [-Wunused-variable]
qnorm.c:2939:11: warning: unused variable 'sample_percentiles' [-Wunused-variable]
qnorm.c:2935:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:2934:7: warning: unused variable 'targetnon_na' [-Wunused-variable]
qnorm.c:2932:28: warning: unused variable 'target_ind_double_floor' [-Wunused-variable]
qnorm.c:2932:10: warning: unused variable 'target_ind_double' [-Wunused-variable]
qnorm.c:2931:10: warning: unused variable 'samplepercentile' [-Wunused-variable]
qnorm.c:2930:11: warning: unused variable 'ranks' [-Wunused-variable]
qnorm.c:2928:11: warning: unused variable 'row_mean' [-Wunused-variable]
qnorm.c:2926:14: warning: unused variable 'dimat' [-Wunused-variable]
qnorm.c:2924:18: warning: unused variable 'target_ind' [-Wunused-variable]
qnorm.c:2924:14: warning: unused variable 'ind' [-Wunused-variable]
qnorm.c:2924:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'R_qnorm_using_target':
qnorm.c:2087:25: warning: 'target_rows' may be used uninitialized in this function [-Wuninitialized]
qnorm.c: In function 'R_qnorm_using_target_via_subset':
qnorm.c:3205:36: warning: 'target_rows' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rlm.c -o rlm.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rlm_anova.c -o rlm_anova.o
rlm_anova.c: In function 'rlm_fit_anova_given_probe_effects_engine':
rlm_anova.c:1235:10: warning: unused variable 'endprobe' [-Wunused-variable]
rlm_anova.c: In function 'rlm_compute_se_anova_given_probe_effects':
rlm_anova.c:1426:19: warning: unused variable 'varderivpsi' [-Wunused-variable]
rlm_anova.c:1426:17: warning: unused variable 'm' [-Wunused-variable]
rlm_anova.c:1426:10: warning: unused variable 'vs' [-Wunused-variable]
rlm_anova.c:1419:10: warning: unused variable 'scale' [-Wunused-variable]
rlm_anova.c:1418:10: warning: unused variable 'Kappa' [-Wunused-variable]
rlm_anova.c:1417:10: warning: unused variable 'sumderivpsi' [-Wunused-variable]
rlm_anova.c:1415:10: warning: unused variable 'sumpsi2' [-Wunused-variable]
rlm_anova.c:1414:10: warning: unused variable 'k1' [-Wunused-variable]
rlm_anova.c: In function 'rlm_wfit_anova_given_probe_effects_engine':
rlm_anova.c:1505:10: warning: unused variable 'endprobe' [-Wunused-variable]
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rlm_se.c -o rlm_se.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rma_background4.c -o rma_background4.o
rma_background4.c: In function 'R_rma_bg_correct':
rma_background4.c:465:13: warning: 'PMcopy' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c rma_common.c -o rma_common.o
gcc -m32 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c weightedkerneldensity.c -o weightedkerneldensity.o
weightedkerneldensity.c: In function 'IQR':
weightedkerneldensity.c:750:14: warning: variable 'high_i' set but not used [-Wunused-but-set-variable]
weightedkerneldensity.c:750:7: warning: variable 'low_i' set but not used [-Wunused-but-set-variable]
gcc -m32 -shared -s -static-libgcc -o preprocessCore.dll tmp.def R_colSummarize.o R_plmd_interfaces.o R_plmr_interfaces.o R_rlm_interfaces.o R_subColSummarize.o R_subrcModel_interfaces.o avg.o avg_log.o biweight.o init_package.o lm.o log_avg.o log_median.o matrix_functions.o median.o median_log.o medianpolish.o plmd.o plmr.o psi_fns.o qnorm.o rlm.o rlm_anova.o rlm_se.o rma_background4.o rma_common.o weightedkerneldensity.o -LC:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lRlapack -LC:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lRblas -lgfortran -Ld:/RCompile/r-compiling/local/local320/lib/i386 -Ld:/RCompile/r-compiling/local/local320/lib -LC:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to C:/biocbld/bbs-3.2-bioc/R/library/preprocessCore/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing to library 'C:/biocbld/bbs-3.2-bioc/R/library'
* installing *source* package 'preprocessCore' ...

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_colSummarize.c -o R_colSummarize.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_plmd_interfaces.c -o R_plmd_interfaces.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_plmr_interfaces.c -o R_plmr_interfaces.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_rlm_interfaces.c -o R_rlm_interfaces.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_subColSummarize.c -o R_subColSummarize.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c R_subrcModel_interfaces.c -o R_subrcModel_interfaces.o
R_subrcModel_interfaces.c: In function 'R_sub_rcModelSummarize_medianpolish':
R_subrcModel_interfaces.c:190:11: warning: unused variable 'se' [-Wunused-variable]
R_subrcModel_interfaces.c:189:11: warning: unused variable 'weights' [-Wunused-variable]
R_subrcModel_interfaces.c:154:30: warning: unused variable 'buffer2' [-Wunused-variable]
R_subrcModel_interfaces.c:154:21: warning: unused variable 'buffer' [-Wunused-variable]
R_subrcModel_interfaces.c:154:11: warning: unused variable 'results' [-Wunused-variable]
R_subrcModel_interfaces.c: In function 'R_sub_rcModelSummarize_plm':
R_subrcModel_interfaces.c:510:10: warning: unused variable 'scale' [-Wunused-variable]
R_subrcModel_interfaces.c:469:30: warning: unused variable 'buffer2' [-Wunused-variable]
R_subrcModel_interfaces.c:469:21: warning: unused variable 'buffer' [-Wunused-variable]
R_subrcModel_interfaces.c:469:11: warning: unused variable 'results' [-Wunused-variable]
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c avg.c -o avg.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c avg_log.c -o avg_log.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c biweight.c -o biweight.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c init_package.c -o init_package.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c lm.c -o lm.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c log_avg.c -o log_avg.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c log_median.c -o log_median.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c matrix_functions.c -o matrix_functions.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c median.c -o median.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c median_log.c -o median_log.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c medianpolish.c -o medianpolish.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c plmd.c -o plmd.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c plmr.c -o plmr.o
plmr.c:82:13: warning: 'XTWY_R' defined but not used [-Wunused-function]
plmr.c:152:13: warning: 'XTWX_R' defined but not used [-Wunused-function]
plmr.c:279:13: warning: 'XTWX_R_inv' defined but not used [-Wunused-function]
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c psi_fns.c -o psi_fns.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c qnorm.c -o qnorm.o
qnorm.c: In function 'qnorm_c_determine_target_l':
qnorm.c:1887:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:1882:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'qnorm_c_determine_target_via_subset_l':
qnorm.c:2481:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:2476:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'using_target_via_subset_part1':
qnorm.c:2692:14: warning: variable 'ind' set but not used [-Wunused-but-set-variable]
qnorm.c: In function 'using_target_via_subset_part2':
qnorm.c:2791:11: warning: unused variable 'datvec' [-Wunused-variable]
qnorm.c:2790:11: warning: unused variable 'sample_percentiles' [-Wunused-variable]
qnorm.c: In function 'using_target_via_subset':
qnorm.c:2940:11: warning: unused variable 'datvec' [-Wunused-variable]
qnorm.c:2939:11: warning: unused variable 'sample_percentiles' [-Wunused-variable]
qnorm.c:2935:7: warning: unused variable 'non_na' [-Wunused-variable]
qnorm.c:2934:7: warning: unused variable 'targetnon_na' [-Wunused-variable]
qnorm.c:2932:28: warning: unused variable 'target_ind_double_floor' [-Wunused-variable]
qnorm.c:2932:10: warning: unused variable 'target_ind_double' [-Wunused-variable]
qnorm.c:2931:10: warning: unused variable 'samplepercentile' [-Wunused-variable]
qnorm.c:2930:11: warning: unused variable 'ranks' [-Wunused-variable]
qnorm.c:2928:11: warning: unused variable 'row_mean' [-Wunused-variable]
qnorm.c:2926:14: warning: unused variable 'dimat' [-Wunused-variable]
qnorm.c:2924:18: warning: unused variable 'target_ind' [-Wunused-variable]
qnorm.c:2924:14: warning: unused variable 'ind' [-Wunused-variable]
qnorm.c:2924:12: warning: unused variable 'j' [-Wunused-variable]
qnorm.c: In function 'R_qnorm_using_target':
qnorm.c:2087:25: warning: 'target_rows' may be used uninitialized in this function [-Wuninitialized]
qnorm.c: In function 'R_qnorm_using_target_via_subset':
qnorm.c:3205:36: warning: 'target_rows' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rlm.c -o rlm.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rlm_anova.c -o rlm_anova.o
rlm_anova.c: In function 'rlm_fit_anova_given_probe_effects_engine':
rlm_anova.c:1235:10: warning: unused variable 'endprobe' [-Wunused-variable]
rlm_anova.c: In function 'rlm_compute_se_anova_given_probe_effects':
rlm_anova.c:1426:19: warning: unused variable 'varderivpsi' [-Wunused-variable]
rlm_anova.c:1426:17: warning: unused variable 'm' [-Wunused-variable]
rlm_anova.c:1426:10: warning: unused variable 'vs' [-Wunused-variable]
rlm_anova.c:1419:10: warning: unused variable 'scale' [-Wunused-variable]
rlm_anova.c:1418:10: warning: unused variable 'Kappa' [-Wunused-variable]
rlm_anova.c:1417:10: warning: unused variable 'sumderivpsi' [-Wunused-variable]
rlm_anova.c:1415:10: warning: unused variable 'sumpsi2' [-Wunused-variable]
rlm_anova.c:1414:10: warning: unused variable 'k1' [-Wunused-variable]
rlm_anova.c: In function 'rlm_wfit_anova_given_probe_effects_engine':
rlm_anova.c:1505:10: warning: unused variable 'endprobe' [-Wunused-variable]
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rlm_se.c -o rlm_se.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rma_background4.c -o rma_background4.o
rma_background4.c: In function 'R_rma_bg_correct':
rma_background4.c:465:13: warning: 'PMcopy' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c rma_common.c -o rma_common.o
gcc -m64 -I"C:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG     -I"d:/RCompile/r-compiling/local/local320/include"     -O2 -Wall  -std=gnu99 -mtune=core2 -c weightedkerneldensity.c -o weightedkerneldensity.o
weightedkerneldensity.c: In function 'IQR':
weightedkerneldensity.c:750:14: warning: variable 'high_i' set but not used [-Wunused-but-set-variable]
weightedkerneldensity.c:750:7: warning: variable 'low_i' set but not used [-Wunused-but-set-variable]
gcc -m64 -shared -s -static-libgcc -o preprocessCore.dll tmp.def R_colSummarize.o R_plmd_interfaces.o R_plmr_interfaces.o R_rlm_interfaces.o R_subColSummarize.o R_subrcModel_interfaces.o avg.o avg_log.o biweight.o init_package.o lm.o log_avg.o log_median.o matrix_functions.o median.o median_log.o medianpolish.o plmd.o plmr.o psi_fns.o qnorm.o rlm.o rlm_anova.o rlm_se.o rma_background4.o rma_common.o weightedkerneldensity.o -LC:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lRlapack -LC:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lRblas -lgfortran -Ld:/RCompile/r-compiling/local/local320/lib/x64 -Ld:/RCompile/r-compiling/local/local320/lib -LC:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to C:/biocbld/bbs-3.2-bioc/R/library/preprocessCore/libs/x64
** testing if installed package can be loaded
* DONE (preprocessCore)