ArrayExpressHTS 1.1.2
Angela Goncalves , Andrew Tikhonov
| Snapshot Date: 2011-04-20 07:21:46 -0700 (Wed, 20 Apr 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ArrayExpressHTS | | Last Changed Rev: 54917 / Revision: 54983 | | Last Changed Date: 2011-04-18 10:50:22 -0700 (Mon, 18 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | [ ERROR ] | skipped | skipped |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | ERROR | skipped | skipped |
* checking for file 'ArrayExpressHTS/DESCRIPTION' ... OK
* preparing 'ArrayExpressHTS':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
-----------------------------------
* installing *source* package 'ArrayExpressHTS' ...
** libs
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c addXS.c -o addXS.o
addXS.c: In function 'addXS':
addXS.c:53:13: warning: implicit declaration of function 'strtok_r'
addXS.c:53:13: warning: passing argument 3 of 'pastefield' makes pointer from integer without a cast
addXS.c:13:6: note: expected 'char *' but argument is of type 'int'
addXS.c:55:17: warning: assignment makes pointer from integer without a cast
addXS.c:62:17: warning: passing argument 3 of 'pastefield' makes pointer from integer without a cast
addXS.c:13:6: note: expected 'char *' but argument is of type 'int'
addXS.c:65:25: warning: assignment makes pointer from integer without a cast
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c fltbam.c -o fltbam.o
fltbam.c: In function 'equalkeys':
fltbam.c:40:5: warning: pointer targets in passing argument 1 of 'strcmp' differ in signedness
c:\rtools213\mingw\bin\../lib/gcc/mingw32/4.5.0/../../../../include/string.h:43:37: note: expected 'const char *' but argument is of type 'unsigned char *'
fltbam.c:40:5: warning: pointer targets in passing argument 2 of 'strcmp' differ in signedness
c:\rtools213\mingw\bin\../lib/gcc/mingw32/4.5.0/../../../../include/string.h:43:37: note: expected 'const char *' but argument is of type 'unsigned char *'
fltbam.c: In function 'fltbam':
fltbam.c:125:17: warning: pointer targets in passing argument 1 of 'strcpy' differ in signedness
c:\rtools213\mingw\bin\../lib/gcc/mingw32/4.5.0/../../../../include/string.h:45:39: note: expected 'char *' but argument is of type 'unsigned char *'
fltbam.c:126:17: warning: pointer targets in passing argument 1 of 'strlen' differ in signedness
c:\rtools213\mingw\bin\../lib/gcc/mingw32/4.5.0/../../../../include/string.h:49:40: note: expected 'const char *' but argument is of type 'unsigned char *'
fltbam.c: At top level:
hashtable_itr.h:46:1: warning: inline function 'hashtable_iterator_value' declared but never defined
hashtable_itr.h:32:1: warning: inline function 'hashtable_iterator_key' declared but never defined
hashtable_itr.h:46:1: warning: inline function 'hashtable_iterator_value' declared but never defined
hashtable_itr.h:32:1: warning: inline function 'hashtable_iterator_key' declared but never defined
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c functions.c -o functions.o
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c hashtable.c -o hashtable.o
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c hashtable_itr.c -o hashtable_itr.o
gcc -I"E:/biocbld/BBS-2˜1.9-B/R/include" -D_USE_KNETFILE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"E:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/include" -O3 -Wall -std=gnu99 -c hashtable_utility.c -o hashtable_utility.o
gcc -shared -s -static-libgcc -o ArrayExpressHTS.dll tmp.def addXS.o fltbam.o functions.o hashtable.o hashtable_itr.o hashtable_utility.o -LE:/biocbld/bbs-2.9-bioc/R/library/Rsamtools/usrlib/i386 -lbam -lbcf -ltabix -lz -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
c:/rtools213/mingw/bin/../lib/gcc/mingw32/4.5.0/../../../../mingw32/bin/ld.exe: cannot find -lz
collect2: ld returned 1 exit status
ERROR: compilation failed for package 'ArrayExpressHTS'
* removing 'E:/biocbld/bbs-2.9-bioc/tmpdir/RtmpBgQPKU/Rinst576d6ed0/ArrayExpressHTS'
-----------------------------------
ERROR: package installation failed