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Package 10/233HostnameOS / ArchBUILDCHECKBUILD BIN
affyio 1.6.1
Benjamin Milo Bolstad
Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/affyio
Last Changed Rev: 27950 / Revision: 30966
Last Changed Date: 2007-10-11 19:26:19 -0700 (Thu, 11 Oct 2007)
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 
lemming Windows Server 2003 (32-bit) / x64  OK  OK [ OK ]
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
Package: affyio
Version: 1.6.1
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD INSTALL --build --library=affyio.buildbin-libdir affyio_1.6.1.tar.gz
StartedAt: 2008-04-09 22:44:15 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 22:45:13 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 58.1 seconds
RetCode: 0
Status: OK
PackageFile: affyio_1.6.1.zip
PackageFileSize: 122.3 KiB

Command output

installing R.css in D:/biocbld/bbs-2.1-bioc/meat/affyio.buildbin-libdir

Using auto-selected zip options ''

---------- Making package affyio ------------

   **********************************************
   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 fread_functions.d from fread_functions.c
making read_abatch.d from read_abatch.c
making read_bpmap.d from read_bpmap.c
making read_cdf_xda.d from read_cdf_xda.c
making read_cdffile2.d from read_cdffile2.c
making read_celfile_generic.d from read_celfile_generic.c
making read_generic.d from read_generic.c
gcc-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c fread_functions.c -o fread_functions.o
fread_functions.c:301: warning: 'swap_uint_32' defined but not used
gcc-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c read_abatch.c -o read_abatch.o
gcc-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -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-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -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-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -Wall  -c read_cdffile2.c -o read_cdffile2.o
read_cdffile2.c:363: warning: 'token_ends_with' defined but not used
gcc-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -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:599: warning: unused variable 'fread_err'
read_celfile_generic.c:597: warning: unused variable 'cur_index'
read_celfile_generic.c:596: warning: unused variable 'j'
read_celfile_generic.c: In function 'read_genericcel_file_stddev':
read_celfile_generic.c:649: warning: unused variable 'fread_err'
read_celfile_generic.c:647: warning: unused variable 'cur_index'
read_celfile_generic.c:646: warning: unused variable 'j'
read_celfile_generic.c: In function 'read_genericcel_file_npixels':
read_celfile_generic.c:703: warning: unused variable 'fread_err'
read_celfile_generic.c:701: warning: unused variable 'cur_index'
read_celfile_generic.c:700: warning: unused variable 'j'
read_celfile_generic.c: In function 'generic_get_masks_outliers':
read_celfile_generic.c:765: warning: unused variable 'fread_err'
read_celfile_generic.c:763: warning: unused variable 'cur_index'
read_celfile_generic.c:762: warning: unused variable 'j'
read_celfile_generic.c: In function 'generic_apply_masks':
read_celfile_generic.c:857: warning: unused variable 'fread_err'
read_celfile_generic.c:851: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_intensities':
read_celfile_generic.c:1496: warning: unused variable 'fread_err'
read_celfile_generic.c:1494: warning: unused variable 'cur_index'
read_celfile_generic.c:1493: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_stddev':
read_celfile_generic.c:1547: warning: unused variable 'fread_err'
read_celfile_generic.c:1545: warning: unused variable 'cur_index'
read_celfile_generic.c:1544: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzread_genericcel_file_npixels':
read_celfile_generic.c:1601: warning: unused variable 'fread_err'
read_celfile_generic.c:1599: warning: unused variable 'cur_index'
read_celfile_generic.c:1598: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzgeneric_get_masks_outliers':
read_celfile_generic.c:1666: warning: unused variable 'fread_err'
read_celfile_generic.c:1664: warning: unused variable 'cur_index'
read_celfile_generic.c:1663: warning: unused variable 'j'
read_celfile_generic.c: In function 'gzgeneric_apply_masks':
read_celfile_generic.c:1758: warning: unused variable 'fread_err'
read_celfile_generic.c:1752: warning: unused variable 'j'
gcc-sjlj  -std=gnu99 -ID:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -DHAVE_ZLIB -ID:/biocbld/bbs-2.1-bioc/R/include     -O3 -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
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I D:/biocbld/bbs-2.1-bioc/R/include  -i affyio_res.rc -o affyio_res.o
gcc-sjlj  -std=gnu99  -shared -s  -o affyio.dll affyio.def fread_functions.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_generic.o affyio_res.o  -LD:/biocbld/bbs-2.1-bioc/R/bin -LD:/biocbld/bbs-2.1-bioc/R/src/extra/zlib -lz   -lR
  ... DLL made
  installing DLL
  installing R files
  preparing package affyio for lazy loading
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'affyio'
     Formats: text html latex example chm 
  check.cdf.type                    text    html    latex           chm
  read.cdffile.list                 text    html    latex           chm
  read.celfile                      text    html    latex           chm
  read.celfile.header               text    html    latex           chm
  read.celfile.probeintensity.matri text    html    latex           chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.

HHC4016: Warning: Cannot open "metrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".

Microsoft HTML Help Compiler 4.74.8702



Compiling d:\biocbld\bbs-2.1-bioc\meat\R.INSTALL.2248\affyio\chm\affyio.chm



HHC4016: Warning: Cannot open "metrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".





The following files were not compiled:

  adding MD5 sums

packaged installation of package 'affyio' as affyio_1.6.1.zip
* DONE (affyio)