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Package 10/234 | Hostname | OS | Arch | BUILD | CHECK | BUILD BIN |
affyio 1.6.0 Benjamin Milo Bolstad Last Changed Date: 2007-10-02 17:41:09 -0700 Last Changed Rev: 27709 | lamb1 | Linux (SUSE 10.1) | x86_64 | OK | OK | |
wellington | Linux (SUSE 9.2) | i686 | OK | [ OK ] | ||
liverpool | Windows Server 2003 R2 (32-bit) | x64 | OK | OK | OK | |
pitt | Mac OS X (10.4.10) | i386 | OK | OK | OK |
Package: affyio |
Version: 1.6.0 |
Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD check affyio_1.6.0.tar.gz |
RetCode: 0 |
Time: 58.1 seconds |
Status: OK |
CheckDir: affyio.Rcheck |
Warnings: 0 |
* checking for working latex ... OK * using log directory '/extra/loc/biocbuild/bbs-2.1-bioc/meat/affyio.Rcheck' * using R version 2.6.0 (2007-10-03) * checking for file 'affyio/DESCRIPTION' ... OK * this is package 'affyio' version '1.6.0' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'affyio' 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 whether the name space 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 affyio-Ex.R ... OK * checking examples ... OK * creating affyio-manual.tex ... OK * checking affyio-manual.tex ... OK
affyio.Rcheck/00install.out:
* Installing *source* package 'affyio' ... creating cache ./config.cache checking how to run the C preprocessor... cc -E checking for main in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes updating cache ./config.cache creating ./config.status creating src/Makevars ** libs gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c fread_functions.c -o fread_functions.o fread_functions.c:301: warning: `swap_uint_32' defined but not used gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_abatch.c -o read_abatch.o gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_bpmap.c -o read_bpmap.o read_bpmap.c: In function `ReadBPMAPHeader': read_bpmap.c:76: warning: unused variable `version_number_int' gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_cdffile2.c -o read_cdffile2.o read_cdffile2.c: In function `ReadtextCDFFileIntoRList': read_cdffile2.c:1039: warning: `QCUNITSProbeInfoX' might be used uninitialized in this function read_cdffile2.c:1040: warning: `QCUNITSProbeInfoY' might be used uninitialized in this function read_cdffile2.c:1041: warning: `QCUNITSProbeInfoPROBE' might be used uninitialized in this function read_cdffile2.c:1042: warning: `QCUNITSProbeInfoPL' might be used uninitialized in this function read_cdffile2.c:1043: warning: `QCUNITSProbeInfoATOM' might be used uninitialized in this function read_cdffile2.c:1044: warning: `QCUNITSProbeInfoINDEX' might be used uninitialized in this function read_cdffile2.c:1045: warning: `QCUNITSProbeInfoPMFLAG' might be used uninitialized in this function read_cdffile2.c:1046: warning: `QCUNITSProbeInfoBGFLAG' might be used uninitialized in this function read_cdffile2.c: At top level: read_cdffile2.c:363: warning: `token_ends_with' defined but not used gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_cdf_xda.c -o read_cdf_xda.o read_cdf_xda.c: In function `isPM': read_cdf_xda.c:614: warning: implicit declaration of function `toupper' gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_celfile_generic.c -o read_celfile_generic.o read_celfile_generic.c: In function `read_genericcel_file_intensities': read_celfile_generic.c:588: warning: unused variable `j' read_celfile_generic.c:589: warning: unused variable `cur_index' read_celfile_generic.c:591: warning: unused variable `fread_err' read_celfile_generic.c: In function `read_genericcel_file_stddev': read_celfile_generic.c:638: warning: unused variable `j' read_celfile_generic.c:639: warning: unused variable `cur_index' read_celfile_generic.c:641: warning: unused variable `fread_err' read_celfile_generic.c: In function `read_genericcel_file_npixels': read_celfile_generic.c:692: warning: unused variable `j' read_celfile_generic.c:693: warning: unused variable `cur_index' read_celfile_generic.c:695: warning: unused variable `fread_err' read_celfile_generic.c: In function `generic_get_masks_outliers': read_celfile_generic.c:754: warning: unused variable `j' read_celfile_generic.c:755: warning: unused variable `cur_index' read_celfile_generic.c:757: warning: unused variable `fread_err' read_celfile_generic.c: In function `generic_apply_masks': read_celfile_generic.c:843: warning: unused variable `j' read_celfile_generic.c:849: warning: unused variable `fread_err' read_celfile_generic.c: In function `gzread_genericcel_file_intensities': read_celfile_generic.c:1485: warning: unused variable `j' read_celfile_generic.c:1486: warning: unused variable `cur_index' read_celfile_generic.c:1488: warning: unused variable `fread_err' read_celfile_generic.c: In function `gzread_genericcel_file_stddev': read_celfile_generic.c:1536: warning: unused variable `j' read_celfile_generic.c:1537: warning: unused variable `cur_index' read_celfile_generic.c:1539: warning: unused variable `fread_err' read_celfile_generic.c: In function `gzread_genericcel_file_npixels': read_celfile_generic.c:1590: warning: unused variable `j' read_celfile_generic.c:1591: warning: unused variable `cur_index' read_celfile_generic.c:1593: warning: unused variable `fread_err' read_celfile_generic.c: In function `gzgeneric_get_masks_outliers': read_celfile_generic.c:1655: warning: unused variable `j' read_celfile_generic.c:1656: warning: unused variable `cur_index' read_celfile_generic.c:1658: warning: unused variable `fread_err' read_celfile_generic.c: In function `gzgeneric_apply_masks': read_celfile_generic.c:1744: warning: unused variable `j' read_celfile_generic.c:1750: warning: unused variable `fread_err' gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -DHAVE_ZLIB=1 -I/usr/local/include -fpic -g -O2 -Wall -c read_generic.c -o read_generic.o read_generic.c: In function `determine_MIMETYPE': read_generic.c:389: warning: control reaches end of non-void function gcc -std=gnu99 -shared -L/usr/local/lib -o affyio.so fread_functions.o read_abatch.o read_bpmap.o read_cdffile2.o read_cdf_xda.o read_celfile_generic.o read_generic.o -lz -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR ** R ** preparing package for lazy loading ** help >>> Building/Updating help pages for package 'affyio' Formats: text html latex example check.cdf.type text html latex read.cdffile.list text html latex read.celfile text html latex read.celfile.header text html latex read.celfile.probeintensity.matri text html latex ** building package indices ... * DONE (affyio)