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Package 235/319HostnameOS / ArchBUILDCHECKBUILD BIN
preprocessCore 1.6.0
Benjamin Milo Bolstad
Bioconductor Changelog
Snapshot Date: 2009-10-20 11:27:33 -0700 (Tue, 20 Oct 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_4/madman/Rpacks/preprocessCore
Last Changed Rev: 39013 / Revision: 42512
Last Changed Date: 2009-04-20 16:24:12 -0700 (Mon, 20 Apr 2009)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK [ OK ]
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
Package: preprocessCore
Version: 1.6.0
Command: E:\biocbld\bbs-2.4-bioc\R\bin\R.exe CMD INSTALL --build --library=preprocessCore.buildbin-libdir preprocessCore_1.6.0.tar.gz
StartedAt: 2009-10-20 19:11:27 -0700 (Tue, 20 Oct 2009)
EndedAt: 2009-10-20 19:11:42 -0700 (Tue, 20 Oct 2009)
EllapsedTime: 15.4 seconds
RetCode: 0
Status: OK
PackageFile: preprocessCore_1.6.0.zip
PackageFileSize: 154.6 KiB

Command output

* Installing *source* package 'preprocessCore' ...

  Using auto-selected zip options ''


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


** libs
  making DLL ...
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c R_colSummarize.c -o R_colSummarize.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c R_plmd_interfaces.c -o R_plmd_interfaces.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c R_plmr_interfaces.c -o R_plmr_interfaces.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c R_rlm_interfaces.c -o R_rlm_interfaces.o
R_rlm_interfaces.c: In function 'R_medianpolish_rma_default_model':
R_rlm_interfaces.c:273: warning: unused variable 'se'
R_rlm_interfaces.c:272: warning: unused variable 'weights'
R_rlm_interfaces.c: In function 'R_rlm_rma_given_probe_effects':
R_rlm_interfaces.c:391: warning: unused variable 'i'
R_rlm_interfaces.c: In function 'R_wrlm_rma_given_probe_effects':
R_rlm_interfaces.c:475: warning: unused variable 'i'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c R_subColSummarize.c -o R_subColSummarize.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c avg.c -o avg.o
avg.c: In function 'colaverage_no_copy':
avg.c:90: warning: unused variable 'i'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c avg_log.c -o avg_log.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c biweight.c -o biweight.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c init_package.c -o init_package.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c lm.c -o lm.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c log_avg.c -o log_avg.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c log_median.c -o log_median.o
log_median.c: In function 'logmedian_no_copy':
log_median.c:138: warning: unused variable 'i'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c matrix_functions.c -o matrix_functions.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c median.c -o median.o
median.c: In function 'colmedian_no_copy':
median.c:146: warning: unused variable 'i'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c median_log.c -o median_log.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c medianpolish.c -o medianpolish.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c plmd.c -o plmd.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c plmr.c -o plmr.o
plmr.c:82: warning: 'XTWY_R' defined but not used
plmr.c:152: warning: 'XTWX_R' defined but not used
plmr.c:279: warning: 'XTWX_R_inv' defined but not used
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c psi_fns.c -o psi_fns.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c qnorm.c -o qnorm.o
qnorm.c: In function 'qnorm_c_determine_target':
qnorm.c:1813: warning: unused variable 'non_na'
qnorm.c:1808: warning: unused variable 'j'
qnorm.c: In function 'qnorm_c_determine_target_via_subset':
qnorm.c:2396: warning: unused variable 'non_na'
qnorm.c:2391: warning: unused variable 'j'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c rlm.c -o rlm.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c rlm_anova.c -o rlm_anova.o
rlm_anova.c: In function 'rlm_fit_anova_given_probe_effects':
rlm_anova.c:1205: warning: unused variable 'endprobe'
rlm_anova.c: In function 'rlm_compute_se_anova_given_probe_effects':
rlm_anova.c:1378: warning: unused variable 'varderivpsi'
rlm_anova.c:1378: warning: unused variable 'm'
rlm_anova.c:1378: warning: unused variable 'vs'
rlm_anova.c:1371: warning: unused variable 'scale'
rlm_anova.c:1370: warning: unused variable 'Kappa'
rlm_anova.c:1369: warning: unused variable 'sumderivpsi'
rlm_anova.c:1367: warning: unused variable 'sumpsi2'
rlm_anova.c:1366: warning: unused variable 'k1'
rlm_anova.c: In function 'rlm_wfit_anova_given_probe_effects':
rlm_anova.c:1457: warning: unused variable 'endprobe'
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c rlm_se.c -o rlm_se.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c rma_background4.c -o rma_background4.o
rma_background4.c: In function 'R_rma_bg_correct':
rma_background4.c:457: warning: unused variable 'j'
rma_background4.c:456: warning: 'PMcopy' may be used uninitialized in this function
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c rma_common.c -o rma_common.o
gcc -I"E:/biocbld/bbs-2.4-bioc/R/include"        -O3 -Wall  -std=gnu99 -c weightedkerneldensity.c -o weightedkerneldensity.o
gcc -shared -s -o preprocessCore.dll tmp.def R_colSummarize.o R_plmd_interfaces.o R_plmr_interfaces.o R_rlm_interfaces.o R_subColSummarize.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 -lgfortran -LE:/biocbld/bbs-2.4-bioc/R/bin -lRlapack -LE:/biocbld/bbs-2.4-bioc/R/bin -lRblas -LE:/biocbld/bbs-2.4-bioc/R/bin -lR
  ... done
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
 >>> Building/Updating help pages for package 'preprocessCore'
     Formats: text html latex example chm 
  colSummarize                      text    html    latex   example chm
  normalize.quantiles               text    html    latex           chm
  normalize.quantiles.in.blocks     text    html    latex   example chm
  normalize.quantiles.robust        text    html    latex           chm
  normalize.quantiles.target        text    html    latex           chm
Note: removing empty section \seealso in file 'rcModelPLMd.Rd'
Note: removing empty section \seealso in file 'rcModelPLMd.Rd'
  rcModelPLMd                       text    html    latex   example chm
Note: removing empty section \seealso in file 'rcModelPLMr.Rd'
Note: removing empty section \seealso in file 'rcModelPLMr.Rd'
  rcModelPLMr                       text    html    latex   example chm
Note: removing empty section \seealso in file 'rcModels.Rd'
Note: removing empty section \seealso in file 'rcModels.Rd'
  rcModels                          text    html    latex   example chm
  rma.background.correct            text    html    latex           chm
  subColSummarize                   text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.4-bioc\tmpdir\RtmpDxYtdN\R.INSTALL678418be\preprocessCore\chm\preprocessCore.chm





Compile time: 0 minutes, 0 seconds

11	Topics

50	Local links

6	Internet links

1	Graphic





Created e:\biocbld\bbs-2.4-bioc\tmpdir\RtmpDxYtdN\R.INSTALL678418be\preprocessCore\chm\preprocessCore.chm, 31,471 bytes

Compression decreased file by 23,695 bytes.

** building package indices ...
** MD5 sums
packaged installation of 'preprocessCore' as preprocessCore_1.6.0.zip
* DONE (preprocessCore)