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Package 20/467HostnameOS / ArchBUILDCHECKBUILD BIN
affyio 1.20.0
Benjamin Milo Bolstad
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/affyio
Last Changed Rev: 54800 / Revision: 59457
Last Changed Date: 2011-04-13 15:27:35 -0700 (Wed, 13 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK [ OK ]
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: affyio
Version: 1.20.0
Command: rm -rf affyio.buildbin-libdir && mkdir affyio.buildbin-libdir && E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD INSTALL --build --no-multiarch --library=affyio.buildbin-libdir affyio_1.20.0.tar.gz
StartedAt: 2011-10-20 17:38:13 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 17:38:24 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 11.1 seconds
RetCode: 0
Status:  OK  
PackageFile: affyio_1.20.0.zip
PackageFileSize: 93.36 KiB

Command output

* installing *source* package 'affyio' ...

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


** libs
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c fread_functions.c -o fread_functions.o
fread_functions.c:300:13: warning: 'swap_uint_32' defined but not used
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_abatch.c -o read_abatch.o
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_bpmap.c -o read_bpmap.o
read_bpmap.c: In function 'ReadBPMAPHeader':
read_bpmap.c:78:7: warning: unused variable 'version_number_int'
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_cdf_xda.c -o read_cdf_xda.o
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_cdffile2.c -o read_cdffile2.o
read_cdffile2.c:364:12: warning: 'token_ends_with' defined but not used
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_celfile_generic.c -o read_celfile_generic.o
read_celfile_generic.c: In function 'read_genericcel_file_intensities':
read_celfile_generic.c:710:7: warning: unused variable 'fread_err'
read_celfile_generic.c:708:7: warning: unused variable 'cur_index'
read_celfile_generic.c:707:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'read_genericcel_file_stddev':
read_celfile_generic.c:760:7: warning: unused variable 'fread_err'
read_celfile_generic.c:758:7: warning: unused variable 'cur_index'
read_celfile_generic.c:757:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'read_genericcel_file_npixels':
read_celfile_generic.c:814:7: warning: unused variable 'fread_err'
read_celfile_generic.c:812:7: warning: unused variable 'cur_index'
read_celfile_generic.c:811:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'generic_get_masks_outliers':
read_celfile_generic.c:876:7: warning: unused variable 'fread_err'
read_celfile_generic.c:874:7: warning: unused variable 'cur_index'
read_celfile_generic.c:873:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'generic_apply_masks':
read_celfile_generic.c:968:7: warning: unused variable 'fread_err'
read_celfile_generic.c:962:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_intensities':
read_celfile_generic.c:1714:7: warning: unused variable 'fread_err'
read_celfile_generic.c:1712:7: warning: unused variable 'cur_index'
read_celfile_generic.c:1711:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_stddev':
read_celfile_generic.c:1765:7: warning: unused variable 'fread_err'
read_celfile_generic.c:1763:7: warning: unused variable 'cur_index'
read_celfile_generic.c:1762:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_npixels':
read_celfile_generic.c:1819:7: warning: unused variable 'fread_err'
read_celfile_generic.c:1817:7: warning: unused variable 'cur_index'
read_celfile_generic.c:1816:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzgeneric_get_masks_outliers':
read_celfile_generic.c:1884:7: warning: unused variable 'fread_err'
read_celfile_generic.c:1882:7: warning: unused variable 'cur_index'
read_celfile_generic.c:1881:12: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzgeneric_apply_masks':
read_celfile_generic.c:1976:7: warning: unused variable 'fread_err'
read_celfile_generic.c:1970:12: warning: unused variable 'j'
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_clf.c -o read_clf.o
read_clf.c: In function 'read_clf_header':
read_clf.c:557:7: warning: unused variable 'i'
read_clf.c: At top level:
read_clf.c:292:12: warning: 'token_ends_with' defined but not used
read_clf.c:389:12: warning: 'IsCommentLine' defined but not used
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_generic.c -o read_generic.o
read_generic.c: In function 'decode_nvt_triplet':
read_generic.c:1594:1: warning: control reaches end of non-void function
read_generic.c: In function 'determine_MIMETYPE':
read_generic.c:411:1: warning: control reaches end of non-void function
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_multichannel_celfile_generic.c -o read_multichannel_celfile_generic.o
read_multichannel_celfile_generic.c: In function 'multichannel_determine_number_channels':
read_multichannel_celfile_generic.c:109:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:106:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:105:17: warning: unused variable 'k'
read_multichannel_celfile_generic.c:105:7: warning: unused variable 'i'
read_multichannel_celfile_generic.c: In function 'multichannel_determine_channel_name':
read_multichannel_celfile_generic.c:173:20: warning: unused variable 'my_data_set'
read_multichannel_celfile_generic.c:165:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:162:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:161:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c:161:7: warning: unused variable 'i'
read_multichannel_celfile_generic.c: In function 'read_genericcel_file_intensities_multichannel':
read_multichannel_celfile_generic.c:223:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:221:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:220:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'read_genericcel_file_stddev_multichannel':
read_multichannel_celfile_generic.c:280:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:278:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:277:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'read_genericcel_file_npixels_multichannel':
read_multichannel_celfile_generic.c:344:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:342:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:341:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'generic_get_masks_outliers_multichannel':
read_multichannel_celfile_generic.c:418:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:416:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:415:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'generic_apply_masks_multichannel':
read_multichannel_celfile_generic.c:522:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:516:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'gzmultichannel_determine_number_channels':
read_multichannel_celfile_generic.c:664:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:661:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:660:17: warning: unused variable 'k'
read_multichannel_celfile_generic.c:660:7: warning: unused variable 'i'
read_multichannel_celfile_generic.c: In function 'gzmultichannel_determine_channel_name':
read_multichannel_celfile_generic.c:725:20: warning: unused variable 'my_data_set'
read_multichannel_celfile_generic.c:717:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:714:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:713:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c:713:7: warning: unused variable 'i'
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_intensities_multichannel':
read_multichannel_celfile_generic.c:766:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:764:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:763:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_stddev_multichannel':
read_multichannel_celfile_generic.c:822:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:820:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:819:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'gzread_genericcel_file_npixels_multichannel':
read_multichannel_celfile_generic.c:884:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:882:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:881:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'gzgeneric_get_masks_outliers_multichannel':
read_multichannel_celfile_generic.c:953:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:951:7: warning: unused variable 'cur_index'
read_multichannel_celfile_generic.c:950:12: warning: unused variable 'j'
read_multichannel_celfile_generic.c: In function 'gzgeneric_apply_masks_multichannel':
read_multichannel_celfile_generic.c:1055:7: warning: unused variable 'fread_err'
read_multichannel_celfile_generic.c:1049:12: warning: unused variable 'j'
gcc -I"E:/biocbld/bbs-2.8-bioc/R/include" -DHAVE_ZLIB         -O3 -Wall  -std=gnu99 -c read_pgf.c -o read_pgf.o
read_pgf.c: In function 'read_pgf_header':
read_pgf.c:901:7: warning: unused variable 'i'
read_pgf.c: In function 'insert_level0':
read_pgf.c:1167:23: warning: unused variable 'temp_ptr'
read_pgf.c: In function 'pgf_count_probeset_types':
read_pgf.c:1265:28: warning: assignment from incompatible pointer type
read_pgf.c: At top level:
read_pgf.c:363:12: warning: 'token_ends_with' defined but not used
gcc -shared -s -static-libgcc -o affyio.dll tmp.def fread_functions.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_clf.o read_generic.o read_multichannel_celfile_generic.o read_pgf.o -lRzlib -LE:/biocbld/bbs-2.8-bioc/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.8-bioc/meat/affyio.buildbin-libdir/affyio/libs/i386
** R
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'affyio' as affyio_1.20.0.zip

* DONE (affyio)