rtracklayer 1.30.4
Michael Lawrence
| Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/rtracklayer | | Last Changed Rev: 115329 / Revision: 116712 | | Last Changed Date: 2016-03-28 14:02:54 -0700 (Mon, 28 Mar 2016) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | [ OK ] | OK | WARNINGS | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | WARNINGS | OK | |
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### Running command:
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### rm -rf rtracklayer.buildbin-libdir && mkdir rtracklayer.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.2/bioc/src/contrib/rtracklayer_1.30.4.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --library=rtracklayer.buildbin-libdir --merge-multiarch rtracklayer_1.30.4.tar.gz && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL rtracklayer_1.30.4.zip && rm rtracklayer_1.30.4.tar.gz rtracklayer_1.30.4.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 1034k 100 1034k 0 0 39.1M 0 --:--:-- --:--:-- --:--:-- 48.1M
install for i386
* installing *source* package 'rtracklayer' ...
** libs
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c readGFF.c -o readGFF.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c bigWig.c -o bigWig.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c chain_io.c -o chain_io.o
chain_io.c: In function 'read_chain_file':
chain_io.c:116:24: warning: 'header_line' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:101:22: warning: 'block' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:110:12: warning: 'qrc' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:106:12: warning: 'trc' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:98:14: warning: 'qstart' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:97:14: warning: 'tstart' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c twoBit.c -o twoBit.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c handlers.c -o handlers.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c utils.c -o utils.o
utils.c: In function '_STRSXP_collapse':
utils.c:4:8: warning: unused variable 'ans' [-Wunused-variable]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o
ucsc/bPlusTree.c: In function 'bptDataStart':
ucsc/bPlusTree.c:286:12: warning: variable 'childCount' set but not used [-Wunused-but-set-variable]
ucsc/bPlusTree.c: In function 'bptDataOffset':
ucsc/bPlusTree.c:310:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/bPlusTree.c:310:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/bPlusTree.c:310:2: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/bPlusTree.c:310:2: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o
ucsc/bbiRead.c: In function 'bbiSummaryArrayExtended':
ucsc/bbiRead.c:635:1: warning: implicit declaration of function 'bzero' [-Wimplicit-function-declaration]
ucsc/bbiRead.c:635:1: warning: incompatible implicit declaration of built-in function 'bzero' [enabled by default]
ucsc/bbiRead.c: In function 'bbiTotalSummary':
ucsc/bbiRead.c:748:34: warning: variable 'chromEnd' set but not used [-Wunused-but-set-variable]
ucsc/bbiRead.c:748:22: warning: variable 'chromStart' set but not used [-Wunused-but-set-variable]
ucsc/bbiRead.c:748:13: warning: variable 'chromId' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o
ucsc/bwgQuery.c: In function 'bigWigIntervalQuery':
ucsc/bwgQuery.c:187:18: warning: variable 'blockEnd' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/cirTree.c -o ucsc/cirTree.o
ucsc/cirTree.c: In function 'rTreeFromChromRangeArray':
ucsc/cirTree.c:238:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:238:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'writeTreeToOpenFile':
ucsc/cirTree.c:319:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:319:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c:334:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:334:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:334:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:334:9: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:334:9: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'rFindOverlappingBlocks':
ucsc/cirTree.c:505:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:505:1: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:505:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'rEnumerateBlocks':
ucsc/cirTree.c:585:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:585:1: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:585:1: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/common.c -o ucsc/common.o
ucsc/common.c: In function 'mustWrite':
ucsc/common.c:2476:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2476:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/common.c:2476:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustRead':
ucsc/common.c:2487:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2487:2: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/common.c:2487:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c:2489:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2489:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustReadFd':
ucsc/common.c:2630:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2630:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c:2632:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2632:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2632:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustWriteFd':
ucsc/common.c:2648:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2648:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2648:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustLseek':
ucsc/common.c:2660:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2660:3: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'off_t' [-Wformat]
ucsc/common.c:2660:3: warning: format '%d' expects argument of type 'int', but argument 4 has type 'char *' [-Wformat]
ucsc/common.c:2660:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'fileOffsetSizeMerge':
ucsc/common.c:2785:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2785:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2785:9: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safecpy':
ucsc/common.c:3251:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3251:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3251:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safencpy':
ucsc/common.c:3260:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3260:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3260:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safecat':
ucsc/common.c:3276:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3276:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3276:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safencat':
ucsc/common.c:3285:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3285:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3285:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnautil.c -o ucsc/dnautil.o
ucsc/dnautil.c: In function 'reverseComplementSlashSeparated':
ucsc/dnautil.c:496:5: warning: implicit declaration of function 'isAllNt' [-Wimplicit-function-declaration]
ucsc/dnautil.c: In function 'findHeadPolyTMaybeMask':
ucsc/dnautil.c:977:5: warning: variable 'pastPoly' set but not used [-Wunused-but-set-variable]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/errAbort.c -o ucsc/errAbort.o
ucsc/errAbort.c: In function 'getThreadVars':
ucsc/errAbort.c:356:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/errAbort.c:356:1: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/hash.c -o ucsc/hash.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/linefile.c -o ucsc/linefile.o
ucsc/linefile.c: In function 'lineFileCheckAllIntsNoAbort':
ucsc/linefile.c:1083:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/linefile.c:1083:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/linefile.c: At top level:
ucsc/linefile.c:35:15: warning: 'getDecompressor' defined but not used [-Wunused-function]
ucsc/linefile.c:112:15: warning: 'headerBytes' defined but not used [-Wunused-function]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/localmem.c -o ucsc/localmem.o
ucsc/localmem.c: In function 'newBlock':
ucsc/localmem.c:38:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/localmem.c:38:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/zlibFace.c -o ucsc/zlibFace.o
ucsc/zlibFace.c: In function 'zCompress':
ucsc/zlibFace.c:52:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/zlibFace.c:52:6: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/zlibFace.c:52:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/zlibFace.c: In function 'zUncompress':
ucsc/zlibFace.c:73:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/zlibFace.c:73:6: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/zlibFace.c:73:6: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/dystring.c -o ucsc/dystring.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/obscure.c -o ucsc/obscure.o
ucsc/obscure.c: In function 'sprintLongWithCommas':
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:571:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:571:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:571:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:574:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:574:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c: In function 'stringToSlNames':
ucsc/obscure.c:473:8: warning: 'e' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/pipeline.c -o ucsc/pipeline.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/rbTree.c -o ucsc/rbTree.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -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 [-Wformat]
ucsc/memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:91:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:94:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:94:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/memalloc.c:94:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needLargeMemResize':
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:114:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:117:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:117:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/memalloc.c:117:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needHugeMem':
ucsc/memalloc.c:139:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:139:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/memalloc.c:139:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needHugeMemResize':
ucsc/memalloc.c:161:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:161:2: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/memalloc.c:161:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needMem':
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:187:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:190:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:190:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/memalloc.c:190:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'carefulFree':
ucsc/memalloc.c:326:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:326:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:333:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:333:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'carefulCheckHeap':
ucsc/memalloc.c:377:18: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:377:18: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:385:18: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:385:18: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/dlist.c -o ucsc/dlist.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/udc.c -o ucsc/udc.o
ucsc/udc.c: In function 'readAndIgnore':
ucsc/udc.c:138:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:138:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:143:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:143:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:143:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcDataViaLocal':
ucsc/udc.c:234:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:234:1: warning: format '%s' expects argument of type 'char *', but argument 4 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:234:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:241:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:241:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcDataViaSlow':
ucsc/udc.c:290:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:290:1: warning: format '%s' expects argument of type 'char *', but argument 4 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:290:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:308:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:308:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcNewCreateBitmapAndSparse':
ucsc/udc.c:516:7: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:516:7: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long long int' [-Wformat]
ucsc/udc.c:516:7: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcBitmapOpen':
ucsc/udc.c:570:8: warning: variable 'reserved64' set but not used [-Wunused-but-set-variable]
ucsc/udc.c:569:8: warning: variable 'reserved32' set but not used [-Wunused-but-set-variable]
ucsc/udc.c: In function 'setInitialCachedDataBounds':
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:670:3: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long long int' [-Wformat]
ucsc/udc.c:670:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcCheckCacheBits':
ucsc/udc.c:1114:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1114:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1114:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'fetchMissingBlocks':
ucsc/udc.c:1138:4: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1138:4: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:1138:4: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1138:4: warning: format '%d' expects argument of type 'int', but argument 3 has type 'char *' [-Wformat]
ucsc/udc.c:1138:4: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcMustRead':
ucsc/udc.c:1363:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1363:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:1363:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1363:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcFileReadAll':
ucsc/udc.c:1499:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1499:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1499:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: At top level:
ucsc/udc.c:126:13: warning: 'readAndIgnore' defined but not used [-Wunused-function]
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/net.c -o ucsc/net.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/bits.c -o ucsc/bits.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/twoBit.c -o ucsc/twoBit.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/internet.c -o ucsc/internet.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/https.c -o ucsc/https.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/base64.c -o ucsc/base64.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/verbose.c -o ucsc/verbose.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/os.c -o ucsc/os.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o
gcc -m32 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o
gcc -m32 -shared -s -static-libgcc -o rtracklayer.dll tmp.def S4Vectors_stubs.o IRanges_stubs.o XVector_stubs.o R_init_rtracklayer.o readGFF.o bigWig.o chain_io.o twoBit.o handlers.o utils.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-3.2-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -lws2_32 -pthread -Ld:/RCompile/r-compiling/local/local323/lib/i386 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/rtracklayer.buildbin-libdir/rtracklayer/libs/i386
** 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'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'rtracklayer' ...
** libs
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c IRanges_stubs.c -o IRanges_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c XVector_stubs.c -o XVector_stubs.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c readGFF.c -o readGFF.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c bigWig.c -o bigWig.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:116:24: warning: 'header_line' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:101:22: warning: 'block' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:110:12: warning: 'qrc' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:106:12: warning: 'trc' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:98:14: warning: 'qstart' may be used uninitialized in this function [-Wuninitialized]
chain_io.c:97:14: warning: 'tstart' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c twoBit.c -o twoBit.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c handlers.c -o handlers.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c utils.c -o utils.o
utils.c: In function '_STRSXP_collapse':
utils.c:4:8: warning: unused variable 'ans' [-Wunused-variable]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o
ucsc/bPlusTree.c: In function 'bptDataStart':
ucsc/bPlusTree.c:286:12: warning: variable 'childCount' set but not used [-Wunused-but-set-variable]
ucsc/bPlusTree.c: In function 'bptDataOffset':
ucsc/bPlusTree.c:310:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/bPlusTree.c:310:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/bPlusTree.c:310:2: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/bPlusTree.c:310:2: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o
ucsc/bbiRead.c: In function 'bbiSummaryArrayExtended':
ucsc/bbiRead.c:635:1: warning: implicit declaration of function 'bzero' [-Wimplicit-function-declaration]
ucsc/bbiRead.c:635:1: warning: incompatible implicit declaration of built-in function 'bzero' [enabled by default]
ucsc/bbiRead.c: In function 'bbiTotalSummary':
ucsc/bbiRead.c:748:34: warning: variable 'chromEnd' set but not used [-Wunused-but-set-variable]
ucsc/bbiRead.c:748:22: warning: variable 'chromStart' set but not used [-Wunused-but-set-variable]
ucsc/bbiRead.c:748:13: warning: variable 'chromId' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o
ucsc/bwgQuery.c: In function 'bigWigIntervalQuery':
ucsc/bwgQuery.c:187:18: warning: variable 'blockEnd' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:238:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:238:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'writeTreeToOpenFile':
ucsc/cirTree.c:319:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:319:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c:334:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:334:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:334:9: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:334:9: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:334:9: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'rFindOverlappingBlocks':
ucsc/cirTree.c:505:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:505:1: warning: format '%u' expects argument of type 'unsigned int', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:505:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/cirTree.c: In function 'rEnumerateBlocks':
ucsc/cirTree.c:585:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/cirTree.c:585:1: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/cirTree.c:585:1: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:2476:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2476:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/common.c:2476:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustRead':
ucsc/common.c:2487:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2487:2: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/common.c:2487:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c:2489:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2489:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustReadFd':
ucsc/common.c:2630:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2630:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c:2632:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2632:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2632:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustWriteFd':
ucsc/common.c:2648:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2648:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2648:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'mustLseek':
ucsc/common.c:2660:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2660:3: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'off_t' [-Wformat]
ucsc/common.c:2660:3: warning: format '%d' expects argument of type 'int', but argument 4 has type 'char *' [-Wformat]
ucsc/common.c:2660:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'fileOffsetSizeMerge':
ucsc/common.c:2785:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2785:9: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:2785:9: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safecpy':
ucsc/common.c:3251:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3251:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3251:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safencpy':
ucsc/common.c:3260:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3260:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3260:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safecat':
ucsc/common.c:3276:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3276:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3276:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/common.c: In function 'safencat':
ucsc/common.c:3285:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3285:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/common.c:3285:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dnautil.c -o ucsc/dnautil.o
ucsc/dnautil.c: In function 'reverseComplementSlashSeparated':
ucsc/dnautil.c:496:5: warning: implicit declaration of function 'isAllNt' [-Wimplicit-function-declaration]
ucsc/dnautil.c: In function 'findHeadPolyTMaybeMask':
ucsc/dnautil.c:977:5: warning: variable 'pastPoly' set but not used [-Wunused-but-set-variable]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/errAbort.c -o ucsc/errAbort.o
ucsc/errAbort.c: In function 'getThreadVars':
ucsc/errAbort.c:356:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/errAbort.c:356:1: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/hash.c -o ucsc/hash.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/linefile.c -o ucsc/linefile.o
ucsc/linefile.c: In function 'lineFileCheckAllIntsNoAbort':
ucsc/linefile.c:1083:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/linefile.c:1083:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/linefile.c: At top level:
ucsc/linefile.c:35:15: warning: 'getDecompressor' defined but not used [-Wunused-function]
ucsc/linefile.c:112:15: warning: 'headerBytes' defined but not used [-Wunused-function]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:38:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/localmem.c:38:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:52:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/zlibFace.c:52:6: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/zlibFace.c:52:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/zlibFace.c: In function 'zUncompress':
ucsc/zlibFace.c:73:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/zlibFace.c:73:6: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
ucsc/zlibFace.c:73:6: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dystring.c -o ucsc/dystring.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:547:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:557:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:565:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:571:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:571:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:571:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c:574:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/obscure.c:574:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/obscure.c: In function 'printVmPeak':
ucsc/obscure.c:789:6: warning: format '%d' expects argument of type 'int', but argument 3 has type 'pid_t' [-Wformat]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/pipeline.c -o ucsc/pipeline.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/rbTree.c -o ucsc/rbTree.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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 [-Wformat]
ucsc/memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:91:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:94:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:94:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
ucsc/memalloc.c:94:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needLargeMemResize':
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:114:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:117:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:117:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
ucsc/memalloc.c:117:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needHugeMem':
ucsc/memalloc.c:139:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:139:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
ucsc/memalloc.c:139:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needHugeMemResize':
ucsc/memalloc.c:161:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:161:2: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
ucsc/memalloc.c:161:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'needMem':
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:187:10: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:190:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:190:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
ucsc/memalloc.c:190:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'carefulFree':
ucsc/memalloc.c:326:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:326:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:333:14: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:333:14: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c: In function 'carefulCheckHeap':
ucsc/memalloc.c:377:18: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:377:18: warning: too many arguments for format [-Wformat-extra-args]
ucsc/memalloc.c:385:18: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/memalloc.c:385:18: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/dlist.c -o ucsc/dlist.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/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:138:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:138:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:143:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:143:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:143:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcDataViaLocal':
ucsc/udc.c:234:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:234:1: warning: format '%s' expects argument of type 'char *', but argument 4 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:234:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:241:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:241:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcDataViaSlow':
ucsc/udc.c:290:1: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:290:1: warning: format '%s' expects argument of type 'char *', but argument 4 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:290:1: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c:308:2: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:308:2: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcNewCreateBitmapAndSparse':
ucsc/udc.c:516:7: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:516:7: warning: format '%d' expects argument of type 'int', but argument 4 has type 'long long int' [-Wformat]
ucsc/udc.c:516:7: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcBitmapOpen':
ucsc/udc.c:570:8: warning: variable 'reserved64' set but not used [-Wunused-but-set-variable]
ucsc/udc.c:569:8: warning: variable 'reserved32' set but not used [-Wunused-but-set-variable]
ucsc/udc.c: In function 'setInitialCachedDataBounds':
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:670:3: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:670:3: warning: format '%d' expects argument of type 'int', but argument 4 has type 'time_t' [-Wformat]
ucsc/udc.c:670:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcCheckCacheBits':
ucsc/udc.c:1113:3: warning: cast from pointer to integer of different size [-Wpointer-to-int-cast]
ucsc/udc.c:1114:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1114:3: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1114:3: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'fetchMissingBlocks':
ucsc/udc.c:1138:4: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1138:4: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:1138:4: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1138:4: warning: format '%d' expects argument of type 'int', but argument 3 has type 'char *' [-Wformat]
ucsc/udc.c:1138:4: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcMustRead':
ucsc/udc.c:1363:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1363:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long unsigned int' [-Wformat]
ucsc/udc.c:1363:5: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1363:5: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: In function 'udcFileReadAll':
ucsc/udc.c:1499:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1499:6: warning: unknown conversion type character 'l' in format [-Wformat]
ucsc/udc.c:1499:6: warning: too many arguments for format [-Wformat-extra-args]
ucsc/udc.c: At top level:
ucsc/udc.c:126:13: warning: 'readAndIgnore' defined but not used [-Wunused-function]
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/net.c -o ucsc/net.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/bits.c -o ucsc/bits.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/twoBit.c -o ucsc/twoBit.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/internet.c -o ucsc/internet.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/https.c -o ucsc/https.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/base64.c -o ucsc/base64.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/verbose.c -o ucsc/verbose.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/os.c -o ucsc/os.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o
gcc -m64 -I"D:/biocbld/bbs-3.2-bioc/R/library/zlibbioc/include" -I"D:/biocbld/BBS-3˜1.2-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.2-bioc/R/library/S4Vectors/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/IRanges/include" -I"D:/biocbld/bbs-3.2-bioc/R/library/XVector/include" -I"d:/RCompile/r-compiling/local/local323/include" -g -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o
gcc -m64 -shared -s -static-libgcc -o rtracklayer.dll tmp.def S4Vectors_stubs.o IRanges_stubs.o XVector_stubs.o R_init_rtracklayer.o readGFF.o bigWig.o chain_io.o twoBit.o handlers.o utils.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-3.2-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -lws2_32 -pthread -Ld:/RCompile/r-compiling/local/local323/lib/x64 -Ld:/RCompile/r-compiling/local/local323/lib -LD:/biocbld/BBS-3˜1.2-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.2-bioc/meat/rtracklayer.buildbin-libdir/rtracklayer/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rtracklayer' as rtracklayer_1.30.4.zip
* DONE (rtracklayer)
* installing to library 'D:/biocbld/bbs-3.2-bioc/R/library'
package 'rtracklayer' successfully unpacked and MD5 sums checked