preprocessCore 1.4.0
Benjamin Milo Bolstad
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/preprocessCore | | Last Changed Rev: 34811 / Revision: 38965 | | Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008) |
| wilson2 | 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 (10.5.6) / i386 | OK | OK | OK |
installing R.css in E:/biocbld/bbs-2.3-bioc/meat/preprocessCore.buildbin-libdir
Using auto-selected zip options ''
---------- Making package preprocessCore ------------
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making R_colSummarize.d from R_colSummarize.c
making R_plmd_interfaces.d from R_plmd_interfaces.c
making R_plmr_interfaces.d from R_plmr_interfaces.c
making R_rlm_interfaces.d from R_rlm_interfaces.c
making R_subColSummarize.d from R_subColSummarize.c
making avg.d from avg.c
making avg_log.d from avg_log.c
making biweight.d from biweight.c
making init_package.d from init_package.c
making lm.d from lm.c
making log_avg.d from log_avg.c
making log_median.d from log_median.c
making matrix_functions.d from matrix_functions.c
making median.d from median.c
making median_log.d from median_log.c
making medianpolish.d from medianpolish.c
making plmd.d from plmd.c
making plmr.d from plmr.c
making psi_fns.d from psi_fns.c
making qnorm.d from qnorm.c
making rlm.d from rlm.c
making rlm_anova.d from rlm_anova.c
making rlm_se.d from rlm_se.c
making rma_background4.d from rma_background4.c
making rma_common.d from rma_common.c
making weightedkerneldensity.d from weightedkerneldensity.c
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c R_colSummarize.c -o R_colSummarize.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c R_plmd_interfaces.c -o R_plmd_interfaces.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c R_plmr_interfaces.c -o R_plmr_interfaces.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -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:274: warning: unused variable 'se'
R_rlm_interfaces.c:273: warning: unused variable 'weights'
R_rlm_interfaces.c: In function 'R_rlm_rma_given_probe_effects':
R_rlm_interfaces.c:392: warning: unused variable 'i'
R_rlm_interfaces.c: In function 'R_wrlm_rma_given_probe_effects':
R_rlm_interfaces.c:476: warning: unused variable 'i'
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c R_subColSummarize.c -o R_subColSummarize.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c avg.c -o avg.o
avg.c: In function 'colaverage_no_copy':
avg.c:90: warning: unused variable 'i'
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c avg_log.c -o avg_log.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c biweight.c -o biweight.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c init_package.c -o init_package.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c lm.c -o lm.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c log_avg.c -o log_avg.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -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 -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c matrix_functions.c -o matrix_functions.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c median.c -o median.o
median.c: In function 'colmedian_no_copy':
median.c:146: warning: unused variable 'i'
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c median_log.c -o median_log.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c medianpolish.c -o medianpolish.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c plmd.c -o plmd.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -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 -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c psi_fns.c -o psi_fns.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c qnorm.c -o qnorm.o
qnorm.c: In function 'qnorm_c_determine_target':
qnorm.c:1810: warning: unused variable 'non_na'
qnorm.c:1805: warning: unused variable 'j'
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c rlm.c -o rlm.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c rlm_anova.c -o rlm_anova.o
rlm_anova.c: In function 'rlm_fit_anova_given_probe_effects':
rlm_anova.c:1198: warning: unused variable 'endprobe'
rlm_anova.c: In function 'rlm_compute_se_anova_given_probe_effects':
rlm_anova.c:1371: warning: unused variable 'varderivpsi'
rlm_anova.c:1371: warning: unused variable 'm'
rlm_anova.c:1371: warning: unused variable 'vs'
rlm_anova.c:1364: warning: unused variable 'scale'
rlm_anova.c:1363: warning: unused variable 'Kappa'
rlm_anova.c:1362: warning: unused variable 'sumderivpsi'
rlm_anova.c:1360: warning: unused variable 'sumpsi2'
rlm_anova.c:1359: warning: unused variable 'k1'
rlm_anova.c: In function 'rlm_wfit_anova_given_probe_effects':
rlm_anova.c:1450: warning: unused variable 'endprobe'
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c rlm_se.c -o rlm_se.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -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 -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c rma_common.c -o rma_common.o
gcc -std=gnu99 -IE:/biocbld/bbs-2.3-bioc/R/include -O3 -Wall -c weightedkerneldensity.c -o weightedkerneldensity.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I E:/biocbld/bbs-2.3-bioc/R/include -i preprocessCore_res.rc -o preprocessCore_res.o
gcc -std=gnu99 -shared -s -o preprocessCore.dll preprocessCore.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 preprocessCore_res.o -LE:/biocbld/bbs-2.3-bioc/R/bin -lgfortran -LE:/biocbld/bbs-2.3-bioc/R/bin -lRlapack -LE:/biocbld/bbs-2.3-bioc/R/bin -lRblas -lR
... DLL made
installing DLL
installing R files
installing inst files
preparing package preprocessCore for lazy loading
installing man source files
installing indices
installing help
>>> 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-2.3-bioc\meat\R.INSTALL.1944\preprocessCore\chm\preprocessCore.chm
Compile time: 0 minutes, 0 seconds
11 Topics
50 Local links
6 Internet links
1 Graphic
Created e:\biocbld\bbs-2.3-bioc\meat\R.INSTALL.1944\preprocessCore\chm\preprocessCore.chm, 31,373 bytes
Compression decreased file by 23,598 bytes.
adding MD5 sums
packaged installation of package 'preprocessCore' as preprocessCore_1.4.0.zip
* DONE (preprocessCore)