preprocessCore 1.1.9
Benjamin Milo Bolstad
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/preprocessCore | | Last Changed Rev: 30840 / Revision: 30951 | | Last Changed Date: 2008-04-03 20:50:09 -0700 (Thu, 03 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | [ OK ] | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | OK | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory '/home/biocbuild/bbs-2.2-bioc/meat/preprocessCore.Rcheck'
* using R version 2.7.0 beta (2008-04-07 r45159)
* using session charset: ISO8859-1
* checking for file 'preprocessCore/DESCRIPTION' ... OK
* this is package 'preprocessCore' version '1.1.9'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'preprocessCore' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating preprocessCore-Ex.R ... OK
* checking examples ... OK
* checking tests ...
make[1]: Entering directory `/home/biocbuild/bbs-2.2-bioc/meat/preprocessCore.Rcheck/tests'
Running 'PLMdtest.R'
make[1]: Leaving directory `/home/biocbuild/bbs-2.2-bioc/meat/preprocessCore.Rcheck/tests'
OK
* creating preprocessCore-manual.tex ... OK
* checking preprocessCore-manual.tex using pdflatex ... OK
* Installing *source* package 'preprocessCore' ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for pthread_create in -lpthread... yes
checking if we can use pthreads... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c avg.c -o avg.o
avg.c: In function 'colaverage_no_copy':
avg.c:90: warning: unused variable 'i'
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c avg_log.c -o avg_log.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c biweight.c -o biweight.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c init_package.c -o init_package.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c lm.c -o lm.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c log_avg.c -o log_avg.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -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 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c matrix_functions.c -o matrix_functions.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c median.c -o median.o
median.c: In function 'colmedian_no_copy':
median.c:146: warning: unused variable 'i'
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c median_log.c -o median_log.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c medianpolish.c -o medianpolish.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c plmd.c -o plmd.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -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 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c psi_fns.c -o psi_fns.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c qnorm.c -o qnorm.o
qnorm.c: In function 'qnorm_c_determine_target':
qnorm.c:1801: warning: unused variable 'non_na'
qnorm.c:1796: warning: unused variable 'j'
qnorm.c: In function 'determine_target_group':
qnorm.c:1787: warning: control reaches end of non-void function
qnorm.c: In function 'using_target_group':
qnorm.c:1511: warning: control reaches end of non-void function
qnorm.c: In function 'distribute_group':
qnorm.c:451: warning: control reaches end of non-void function
qnorm.c: In function 'normalize_group':
qnorm.c:446: warning: control reaches end of non-void function
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c R_colSummarize.c -o R_colSummarize.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -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 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c rlm.c -o rlm.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c rlm_se.c -o rlm_se.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c rma_background4.c -o rma_background4.o
rma_background4.c: In function 'rma_bg_correct':
rma_background4.c:337: warning: unused variable 'param'
rma_background4.c:336: warning: unused variable 'j'
rma_background4.c: In function 'R_rma_bg_correct':
rma_background4.c:455: warning: unused variable 'j'
rma_background4.c: In function 'rma_bg_correct_group':
rma_background4.c:318: warning: control reaches end of non-void function
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c rma_common.c -o rma_common.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c R_plmd_interfaces.c -o R_plmd_interfaces.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c R_plmr_interfaces.c -o R_plmr_interfaces.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -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 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c R_subColSummarize.c -o R_subColSummarize.o
R_subColSummarize.c: In function 'R_subColSummarize_avg_log':
R_subColSummarize.c:102: warning: unused variable 'j'
R_subColSummarize.c:100: warning: unused variable 'ncur_rows'
R_subColSummarize.c:96: warning: unused variable 'cur_rows'
R_subColSummarize.c:94: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_log_avg':
R_subColSummarize.c:265: warning: unused variable 'j'
R_subColSummarize.c:263: warning: unused variable 'ncur_rows'
R_subColSummarize.c:259: warning: unused variable 'cur_rows'
R_subColSummarize.c:257: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_avg':
R_subColSummarize.c:430: warning: unused variable 'j'
R_subColSummarize.c:428: warning: unused variable 'ncur_rows'
R_subColSummarize.c:424: warning: unused variable 'cur_rows'
R_subColSummarize.c:422: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_biweight_log':
R_subColSummarize.c:596: warning: unused variable 'j'
R_subColSummarize.c:594: warning: unused variable 'ncur_rows'
R_subColSummarize.c:590: warning: unused variable 'cur_rows'
R_subColSummarize.c:588: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_biweight':
R_subColSummarize.c:762: warning: unused variable 'j'
R_subColSummarize.c:760: warning: unused variable 'ncur_rows'
R_subColSummarize.c:756: warning: unused variable 'cur_rows'
R_subColSummarize.c:754: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_median_log':
R_subColSummarize.c:928: warning: unused variable 'j'
R_subColSummarize.c:926: warning: unused variable 'ncur_rows'
R_subColSummarize.c:922: warning: unused variable 'cur_rows'
R_subColSummarize.c:920: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_log_median':
R_subColSummarize.c:1092: warning: unused variable 'j'
R_subColSummarize.c:1090: warning: unused variable 'ncur_rows'
R_subColSummarize.c:1086: warning: unused variable 'cur_rows'
R_subColSummarize.c:1084: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_median':
R_subColSummarize.c:1255: warning: unused variable 'j'
R_subColSummarize.c:1253: warning: unused variable 'ncur_rows'
R_subColSummarize.c:1249: warning: unused variable 'cur_rows'
R_subColSummarize.c:1247: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'R_subColSummarize_medianpolish_log':
R_subColSummarize.c:1422: warning: unused variable 'j'
R_subColSummarize.c:1420: warning: unused variable 'ncur_rows'
R_subColSummarize.c:1416: warning: unused variable 'cur_rows'
R_subColSummarize.c: In function 'R_subColSummarize_medianpolish':
R_subColSummarize.c:1590: warning: unused variable 'j'
R_subColSummarize.c:1588: warning: unused variable 'ncur_rows'
R_subColSummarize.c:1584: warning: unused variable 'cur_rows'
R_subColSummarize.c:1582: warning: unused variable 'buffer2'
R_subColSummarize.c:1582: warning: unused variable 'buffer'
R_subColSummarize.c: In function 'subColSummarize_median_group':
R_subColSummarize.c:1237: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_medianpolish_log_group':
R_subColSummarize.c:1403: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_log_median_group':
R_subColSummarize.c:1073: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_median_log_group':
R_subColSummarize.c:908: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_biweight_group':
R_subColSummarize.c:743: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_biweight_log_group':
R_subColSummarize.c:576: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_avg_group':
R_subColSummarize.c:412: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_log_avg_group':
R_subColSummarize.c:247: warning: control reaches end of non-void function
R_subColSummarize.c: In function 'subColSummarize_avg_log_group':
R_subColSummarize.c:81: warning: control reaches end of non-void function
R_subColSummarize.c: At top level:
R_subColSummarize.c:1547: warning: 'subColSummarize_medianpolish_group' defined but not used
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include -I/usr/local/include -g -O2 -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -fpic -g -O2 -Wall -c weightedkerneldensity.c -o weightedkerneldensity.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o preprocessCore.so 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 R_colSummarize.o rlm_anova.o rlm.o rlm_se.o rma_background4.o rma_common.o R_plmd_interfaces.o R_plmr_interfaces.o R_rlm_interfaces.o R_subColSummarize.o weightedkerneldensity.o -lpthread -lpthread -lgfortran -lm -L/home/biocbuild/bbs-2.2-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-2.2-bioc/R/lib -lRblas -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
** help
Note: removing empty section \seealso
Note: removing empty section \seealso
Note: removing empty section \seealso
>>> Building/Updating help pages for package 'preprocessCore'
Formats: text html latex example
colSummarize text html latex example
normalize.quantiles text html latex
normalize.quantiles.in.blocks text html latex example
normalize.quantiles.robust text html latex
normalize.quantiles.target text html latex
rcModelPLMd text html latex example
rcModelPLMr text html latex example
rcModels text html latex example
rma.background.correct text html latex
subColSummarize text html latex example
** building package indices ...
* DONE (preprocessCore)