rtracklayer 1.14.4
Michael Lawrence
| Snapshot Date: 2012-01-08 18:22:44 -0800 (Sun, 08 Jan 2012) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/rtracklayer | | Last Changed Rev: 60820 / Revision: 61898 | | Last Changed Date: 2011-11-23 08:02:43 -0800 (Wed, 23 Nov 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 SP1 (64-bit) / x64 | OK | OK | [ OK ] |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* installing *source* package 'rtracklayer' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c bigWig.c -o bigWig.o
bigWig.c: In function 'BWGFile_query':
bigWig.c:222:32: warning: 'ans_score' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c chain_io.c -o chain_io.o
chain_io.c: In function 'read_chain_file':
chain_io.c:34:7: warning: 'tstart' may be used uninitialized in this function
chain_io.c:34:15: warning: 'qstart' may be used uninitialized in this function
chain_io.c:35:48: warning: 'trc' may be used uninitialized in this function
chain_io.c:35:53: warning: 'qrc' may be used uninitialized in this function
chain_io.c:36:15: warning: 'block' may be used uninitialized in this function
chain_io.c:39:24: warning: 'header_line' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c twoBit.c -o twoBit.o
twoBit.c: In function 'TwoBitFile_read':
twoBit.c:110:35: warning: pointer targets in passing argument 3 of 'Ocopy_bytes_to_i1i2_with_lkup' differ in signedness
D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include/IRanges_interface.h:342:6: note: expected 'char *' but argument is of type 'Rbyte *'
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c handlers.c -o handlers.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o
ucsc/bbiRead.c: In function 'bbiFileCheckSigs':
ucsc/bbiRead.c:59:1: warning: overflow in implicit constant conversion
ucsc/bbiRead.c: In function 'bbiSummaryArrayExtended':
ucsc/bbiRead.c:590:1: warning: implicit declaration of function 'bzero'
ucsc/bbiRead.c:590:1: warning: incompatible implicit declaration of built-in function 'bzero'
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/cirTree.c -o ucsc/cirTree.o
ucsc/cirTree.c: In function 'rTreeFromChromRangeArray':
ucsc/cirTree.c:234:1: warning: unknown conversion type character 'l' in format
ucsc/cirTree.c:234:1: warning: too many arguments for format
ucsc/cirTree.c: In function 'writeTreeToOpenFile':
ucsc/cirTree.c:315:5: warning: unknown conversion type character 'l' in format
ucsc/cirTree.c:315:5: warning: too many arguments for format
ucsc/cirTree.c:330:9: warning: unknown conversion type character 'l' in format
ucsc/cirTree.c:330:9: warning: unknown conversion type character 'l' in format
ucsc/cirTree.c:330:9: warning: format '%d' expects type 'int', but argument 2 has type 'long long unsigned int'
ucsc/cirTree.c:330:9: warning: format '%s' expects type 'char *', but argument 3 has type 'long long unsigned int'
ucsc/cirTree.c:330:9: warning: too many arguments for format
ucsc/cirTree.c: At top level:
ucsc/cirTree.c:454:8: warning: return type defaults to 'int'
ucsc/cirTree.c: In function 'rFindOverlappingBlocks':
ucsc/cirTree.c:497:1: warning: unknown conversion type character 'l' in format
ucsc/cirTree.c:497:1: warning: format '%u' expects type 'unsigned int', but argument 3 has type 'long long unsigned int'
ucsc/cirTree.c:497:1: warning: too many arguments for format
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/common.c -o ucsc/common.o
ucsc/common.c: In function 'mustWrite':
ucsc/common.c:2370:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:2370:5: warning: format '%s' expects type 'char *', but argument 2 has type 'long long int'
ucsc/common.c:2370:5: warning: too many arguments for format
ucsc/common.c: In function 'mustRead':
ucsc/common.c:2381:2: warning: unknown conversion type character 'l' in format
ucsc/common.c:2381:2: warning: format '%s' expects type 'char *', but argument 2 has type 'long long int'
ucsc/common.c:2381:2: warning: too many arguments for format
ucsc/common.c:2383:2: warning: unknown conversion type character 'l' in format
ucsc/common.c:2383:2: warning: too many arguments for format
ucsc/common.c: In function 'mustReadFd':
ucsc/common.c:2521:2: warning: unknown conversion type character 'l' in format
ucsc/common.c:2521:2: warning: too many arguments for format
ucsc/common.c:2523:2: warning: unknown conversion type character 'l' in format
ucsc/common.c:2523:2: warning: unknown conversion type character 'l' in format
ucsc/common.c:2523:2: warning: too many arguments for format
ucsc/common.c: In function 'mustLseek':
ucsc/common.c:2543:3: warning: unknown conversion type character 'l' in format
ucsc/common.c:2543:3: warning: format '%s' expects type 'char *', but argument 3 has type 'long long int'
ucsc/common.c:2543:3: warning: format '%d' expects type 'int', but argument 4 has type 'char *'
ucsc/common.c:2543:3: warning: too many arguments for format
ucsc/common.c: In function 'fileOffsetSizeMerge':
ucsc/common.c:2668:9: warning: unknown conversion type character 'l' in format
ucsc/common.c:2668:9: warning: unknown conversion type character 'l' in format
ucsc/common.c:2668:9: warning: too many arguments for format
ucsc/common.c: In function 'safecpy':
ucsc/common.c:3134:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3134:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3134:5: warning: too many arguments for format
ucsc/common.c: In function 'safencpy':
ucsc/common.c:3143:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3143:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3143:5: warning: too many arguments for format
ucsc/common.c: In function 'safecat':
ucsc/common.c:3157:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3157:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3157:5: warning: too many arguments for format
ucsc/common.c: In function 'safencat':
ucsc/common.c:3166:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3166:5: warning: unknown conversion type character 'l' in format
ucsc/common.c:3166:5: warning: too many arguments for format
ucsc/common.c: In function 'byteSwap64':
ucsc/common.c:2765:21: warning: array subscript is above array bounds
ucsc/common.c:2766:21: warning: array subscript is above array bounds
ucsc/common.c:2767:21: warning: array subscript is above array bounds
ucsc/common.c:2768:21: warning: array subscript is above array bounds
ucsc/common.c:2769:8: warning: array subscript is above array bounds
ucsc/common.c:2770:8: warning: array subscript is above array bounds
ucsc/common.c:2771:8: warning: array subscript is above array bounds
ucsc/common.c:2772:8: warning: array subscript is above array bounds
ucsc/common.c: In function 'byteSwapDouble':
ucsc/common.c:2899:21: warning: array subscript is above array bounds
ucsc/common.c:2900:21: warning: array subscript is above array bounds
ucsc/common.c:2901:21: warning: array subscript is above array bounds
ucsc/common.c:2902:21: warning: array subscript is above array bounds
ucsc/common.c:2903:8: warning: array subscript is above array bounds
ucsc/common.c:2904:8: warning: array subscript is above array bounds
ucsc/common.c:2905:8: warning: array subscript is above array bounds
ucsc/common.c:2906:8: warning: array subscript is above array bounds
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnautil.c -o ucsc/dnautil.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/errabort.c -o ucsc/errabort.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/hash.c -o ucsc/hash.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/linefile.c -o ucsc/linefile.o
ucsc/linefile.c:32:15: warning: 'getDecompressor' defined but not used
ucsc/linefile.c:100:15: warning: 'headerBytes' defined but not used
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/localmem.c -o ucsc/localmem.o
ucsc/localmem.c: In function 'newBlock':
ucsc/localmem.c:39:5: warning: unknown conversion type character 'l' in format
ucsc/localmem.c:39:5: warning: too many arguments for format
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/zlibFace.c -o ucsc/zlibFace.o
ucsc/zlibFace.c: In function 'zCompress':
ucsc/zlibFace.c:49:6: warning: unknown conversion type character 'l' in format
ucsc/zlibFace.c:49:6: warning: format '%s' expects type 'char *', but argument 2 has type 'long long int'
ucsc/zlibFace.c:49:6: warning: too many arguments for format
ucsc/zlibFace.c: In function 'zUncompress':
ucsc/zlibFace.c:70:6: warning: unknown conversion type character 'l' in format
ucsc/zlibFace.c:70:6: warning: format '%s' expects type 'char *', but argument 2 has type 'long long int'
ucsc/zlibFace.c:70:6: warning: too many arguments for format
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dystring.c -o ucsc/dystring.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/obscure.c -o ucsc/obscure.o
ucsc/obscure.c: In function 'sprintLongWithCommas':
ucsc/obscure.c:545:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:545:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:545:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:545:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:545:5: warning: too many arguments for format
ucsc/obscure.c:553:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:553:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:553:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:553:5: warning: too many arguments for format
ucsc/obscure.c:559:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:559:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:559:5: warning: too many arguments for format
ucsc/obscure.c:562:5: warning: unknown conversion type character 'l' in format
ucsc/obscure.c:562:5: warning: too many arguments for format
ucsc/obscure.c: In function 'printVmPeak':
ucsc/obscure.c:704:6: warning: format '%d' expects type 'int', but argument 3 has type 'pid_t'
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/pipeline.c -o ucsc/pipeline.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/rbTree.c -o ucsc/rbTree.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/memalloc.c -o ucsc/memalloc.o
ucsc/memalloc.c: In function 'needLargeMem':
ucsc/memalloc.c:91:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:91:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:91:10: warning: too many arguments for format
ucsc/memalloc.c:94:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:94:14: warning: format '%d' expects type 'int', but argument 2 has type 'size_t'
ucsc/memalloc.c:94:14: warning: too many arguments for format
ucsc/memalloc.c: In function 'needLargeMemResize':
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:114:10: warning: too many arguments for format
ucsc/memalloc.c:117:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:117:14: warning: format '%d' expects type 'int', but argument 2 has type 'size_t'
ucsc/memalloc.c:117:14: warning: too many arguments for format
ucsc/memalloc.c: In function 'needHugeMem':
ucsc/memalloc.c:139:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:139:14: warning: format '%d' expects type 'int', but argument 2 has type 'size_t'
ucsc/memalloc.c:139:14: warning: too many arguments for format
ucsc/memalloc.c: In function 'needHugeMemResize':
ucsc/memalloc.c:161:2: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:161:2: warning: format '%d' expects type 'int', but argument 2 has type 'size_t'
ucsc/memalloc.c:161:2: warning: too many arguments for format
ucsc/memalloc.c: In function 'needMem':
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:187:10: warning: too many arguments for format
ucsc/memalloc.c:190:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:190:14: warning: format '%d' expects type 'int', but argument 2 has type 'size_t'
ucsc/memalloc.c:190:14: warning: too many arguments for format
ucsc/memalloc.c: In function 'carefulFree':
ucsc/memalloc.c:318:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:318:14: warning: too many arguments for format
ucsc/memalloc.c:322:14: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:322:14: warning: too many arguments for format
ucsc/memalloc.c: In function 'carefulCheckHeap':
ucsc/memalloc.c:360:18: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:360:18: warning: too many arguments for format
ucsc/memalloc.c:364:18: warning: unknown conversion type character 'l' in format
ucsc/memalloc.c:364:18: warning: too many arguments for format
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dlist.c -o ucsc/dlist.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/udc.c -o ucsc/udc.o
ucsc/udc.c: In function 'readAndIgnore':
ucsc/udc.c:133:2: warning: unknown conversion type character 'l' in format
ucsc/udc.c:133:2: warning: too many arguments for format
ucsc/udc.c:138:5: warning: unknown conversion type character 'l' in format
ucsc/udc.c:138:5: warning: unknown conversion type character 'l' in format
ucsc/udc.c:138:5: warning: too many arguments for format
ucsc/udc.c: In function 'udcDataViaLocal':
ucsc/udc.c:229:1: warning: unknown conversion type character 'l' in format
ucsc/udc.c:229:1: warning: format '%s' expects type 'char *', but argument 4 has type 'long long unsigned int'
ucsc/udc.c:229:1: warning: too many arguments for format
ucsc/udc.c:236:5: warning: unknown conversion type character 'l' in format
ucsc/udc.c:236:5: warning: too many arguments for format
ucsc/udc.c: In function 'udcDataViaSlow':
ucsc/udc.c:285:1: warning: unknown conversion type character 'l' in format
ucsc/udc.c:285:1: warning: format '%s' expects type 'char *', but argument 4 has type 'long long unsigned int'
ucsc/udc.c:285:1: warning: too many arguments for format
ucsc/udc.c:303:2: warning: unknown conversion type character 'l' in format
ucsc/udc.c:303:2: warning: too many arguments for format
ucsc/udc.c: In function 'udcNewCreateBitmapAndSparse':
ucsc/udc.c:495:7: warning: unknown conversion type character 'l' in format
ucsc/udc.c:495:7: warning: format '%d' expects type 'int', but argument 4 has type 'long long int'
ucsc/udc.c:495:7: warning: too many arguments for format
ucsc/udc.c: In function 'setInitialCachedDataBounds':
ucsc/udc.c:644:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:644:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:644:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:644:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:644:3: warning: format '%s' expects type 'char *', but argument 3 has type 'long long unsigned int'
ucsc/udc.c:644:3: warning: format '%d' expects type 'int', but argument 4 has type 'time_t'
ucsc/udc.c:644:3: warning: too many arguments for format
ucsc/udc.c: In function 'udcCheckCacheBits':
ucsc/udc.c:1085:3: warning: cast from pointer to integer of different size
ucsc/udc.c:1086:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1086:3: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1086:3: warning: too many arguments for format
ucsc/udc.c: In function 'fetchMissingBlocks':
ucsc/udc.c:1110:4: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1110:4: warning: format '%s' expects type 'char *', but argument 2 has type 'long long unsigned int'
ucsc/udc.c:1110:4: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1110:4: warning: format '%d' expects type 'int', but argument 3 has type 'char *'
ucsc/udc.c:1110:4: warning: too many arguments for format
ucsc/udc.c: In function 'udcFileReadAll':
ucsc/udc.c:1436:6: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1436:6: warning: unknown conversion type character 'l' in format
ucsc/udc.c:1436:6: warning: too many arguments for format
ucsc/udc.c: At top level:
ucsc/udc.c:121:13: warning: 'readAndIgnore' defined but not used
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/net.c -o ucsc/net.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bits.c -o ucsc/bits.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/twoBit.c -o ucsc/twoBit.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/internet.c -o ucsc/internet.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/https.c -o ucsc/https.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/base64.c -o ucsc/base64.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/verbose.c -o ucsc/verbose.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/os.c -o ucsc/os.o
In file included from ucsc/os.c:4:0:
ucsc/oswin9x.c: In function 'listDir':
ucsc/oswin9x.c:100:7: warning: 'currentDir' may be used uninitialized in this function
ucsc/oswin9x.c: In function 'listDirX':
ucsc/oswin9x.c:155:9: warning: 'currentDir' may be used uninitialized in this function
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o
x86_64-w64-mingw32-gcc -I"D:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"D:/biocbld/bbs-2.9-bioc/R/include" -I"D:/biocbld/bbs-2.9-bioc/R/library/IRanges/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o rtracklayer.dll tmp.def IRanges_stubs.o R_init_rtracklayer.o bigWig.o chain_io.o twoBit.o handlers.o ucsc/bPlusTree.o ucsc/bbiRead.o ucsc/bbiWrite.o ucsc/bwgCreate.o ucsc/bwgQuery.o ucsc/cirTree.o ucsc/common.o ucsc/dnaseq.o ucsc/dnautil.o ucsc/errabort.o ucsc/hash.o ucsc/linefile.o ucsc/localmem.o ucsc/sqlNum.o ucsc/zlibFace.o ucsc/dystring.o ucsc/hmmstats.o ucsc/obscure.o ucsc/pipeline.o ucsc/rangeTree.o ucsc/rbTree.o ucsc/memalloc.o ucsc/dlist.o ucsc/udc.o ucsc/net.o ucsc/bits.o ucsc/twoBit.o ucsc/_cheapcgi.o ucsc/internet.o ucsc/https.o ucsc/base64.o ucsc/verbose.o ucsc/os.o ucsc/wildcmp.o ucsc/_portimpl.o -LD:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -lws2_32 -LD:/biocbld/bbs-2.9-bioc/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/rtracklayer.buildbin-libdir/rtracklayer/libs/x64
** R
** data
** demo
** inst
** preparing package for lazy loading
Creating a generic function for 'offset' from package 'stats' in package 'rtracklayer'
Creating a generic function from function 'uri' in package 'rtracklayer'
Creating a generic function for 'toString' from package 'base' in package 'rtracklayer'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'rtracklayer.Rnw'
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rtracklayer' as rtracklayer_1.14.4.zip
* DONE (rtracklayer)