IRanges 2.0.1
Bioconductor Package Maintainer
| Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/IRanges | | Last Changed Rev: 97568 / Revision: 102249 | | Last Changed Date: 2014-12-11 11:40:54 -0800 (Thu, 11 Dec 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | WARNINGS | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | [ OK ] | OK | WARNINGS | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | 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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### C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.0/bioc/src/contrib/IRanges_2.0.1.tar.gz && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch IRanges_2.0.1.tar.gz && rm IRanges_2.0.1.tar.gz
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 307k 100 307k 0 0 23.7M 0 --:--:-- --:--:-- --:--:-- 60.1M
install for i386
* installing to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'IRanges' ...
** libs
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c CompressedList_class.c -o CompressedList_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c DataFrame_class.c -o DataFrame_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c GappedRanges_class.c -o GappedRanges_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Grouping_class.c -o Grouping_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c IRanges_class.c -o IRanges_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c IRanges_constructor.c -o IRanges_constructor.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c IntervalTree.c -o IntervalTree.o
IntervalTree.c: In function '_IntegerIntervalTree_overlap_first':
IntervalTree.c:502:20: warning: variable 'nhits' set but not used [-Wunused-but-set-variable]
IntervalTree.c: In function '_IntegerIntervalTree_overlap_last':
IntervalTree.c:576:20: warning: variable 'nhits' set but not used [-Wunused-but-set-variable]
IntervalTree.c: In function '_IntegerIntervalTree_overlap':
IntervalTree.c:367:3: warning: 'result_inds' may be used uninitialized in this function [-Wuninitialized]
IntervalTree.c: In function '_IntegerIntervalForest_overlap':
IntervalTree.c:395:17: warning: 'result_inds' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c NCList.c -o NCList.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c R_init_IRanges.c -o R_init_IRanges.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c RangedData_class.c -o RangedData_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Ranges_class.c -o Ranges_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c Ranges_comparison.c -o Ranges_comparison.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c RleViews_utils.c -o RleViews_utils.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c SimpleRangesList_class.c -o SimpleRangesList_class.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c common.c -o common.o
common.c: In function 'mustWrite':
common.c:1605:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:1605:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
common.c:1605:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'mustRead':
common.c:1614:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:1614:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
common.c:1614:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safecpy':
common.c:2007:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2007:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2007:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safencpy':
common.c:2016:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2016:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2016:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safecat':
common.c:2030:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2030:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2030:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safencat':
common.c:2039:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2039:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2039:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c coverage_methods.c -o coverage_methods.o
coverage_methods.c: In function 'compute_coverage_from_IRanges_holder':
coverage_methods.c:503:37: warning: 'x_end' may be used uninitialized in this function [-Wuninitialized]
coverage_methods.c:419:21: note: 'x_end' was declared here
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c dlist.c -o dlist.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c errabort.c -o errabort.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c inter_range_methods.c -o inter_range_methods.o
inter_range_methods.c: In function 'reduce_ranges':
inter_range_methods.c:168:11: warning: 'gapwidth' may be used uninitialized in this function [-Wuninitialized]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c localmem.c -o localmem.o
localmem.c: In function 'newBlock':
localmem.c:39:5: warning: unknown conversion type character 'l' in format [-Wformat]
localmem.c:39:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c memalloc.c -o memalloc.o
memalloc.c: In function 'needLargeMem':
memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:91:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:94:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:94:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
memalloc.c:94:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needLargeMemResize':
memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:114:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:117:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:117:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
memalloc.c:117:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needHugeMem':
memalloc.c:139:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:139:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
memalloc.c:139:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needHugeMemResize':
memalloc.c:161:2: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:161:2: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
memalloc.c:161:2: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needMem':
memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:187:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:190:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:190:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long long unsigned int' [-Wformat]
memalloc.c:190:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'carefulAlloc':
memalloc.c:291:2: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:291:2: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
memalloc.c: In function 'carefulFree':
memalloc.c:316:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:316:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:320:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:320:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'carefulCheckHeap':
memalloc.c:358:18: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:358:18: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:362:18: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:362:18: warning: too many arguments for format [-Wformat-extra-args]
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c rbTree.c -o rbTree.o
gcc -m32 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O3 -Wall -std=gnu99 -mtune=core2 -c ucsc_handlers.c -o ucsc_handlers.o
gcc -m32 -shared -s -static-libgcc -o IRanges.dll tmp.def CompressedIRangesList_class.o CompressedList_class.o DataFrame_class.o GappedRanges_class.o Grouping_class.o IRanges_class.o IRanges_constructor.o IntervalTree.o NCList.o R_init_IRanges.o RangedData_class.o Ranges_class.o Ranges_comparison.o RleViews_utils.o S4Vectors_stubs.o SimpleRangesList_class.o common.o coverage_methods.o dlist.o errabort.o inter_range_methods.o localmem.o memalloc.o rbTree.o ucsc_handlers.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/IRanges/libs/i386
** R
** inst
** preparing package for lazy loading
Warning: undefined slot classes in definition of "RangesNSBS": subscript(class "Ranges")
in method for 'NSBS' with signature '"Ranges"': no definition for class "Ranges"
in method for 'extractROWS' with signature '"vectorORfactor","Ranges"': no definition for class "Ranges"
in method for 'extractROWS' with signature '"matrix","Ranges"': no definition for class "Ranges"
Creating a generic function for 'head' from package 'utils' in package 'IRanges'
Creating a generic function for 'tail' from package 'utils' in package 'IRanges'
Creating a generic function for 'window' from package 'stats' in package 'IRanges'
Creating a generic function for 'window<-' from package 'stats' in package 'IRanges'
Creating a generic function for 'rev' from package 'base' in package 'IRanges'
Creating a generic function for 'with' from package 'base' in package 'IRanges'
in method for 'coerce' with signature '"Hits","IntegerList"': no definition for class "IntegerList"
Creating a generic function for 'stack' from package 'utils' in package 'IRanges'
in method for '!' with signature '"CompressedList"': no definition for class "CompressedList"
in method for 'match' with signature '"CompressedList","list"': no definition for class "CompressedList"
in method for 'match' with signature '"CompressedList","vector"': no definition for class "CompressedList"
in method for 'duplicated' with signature '"CompressedList"': no definition for class "CompressedList"
in method for 'unique' with signature '"CompressedList"': no definition for class "CompressedList"
in method for 'is.na' with signature '"CompressedList"': no definition for class "CompressedList"
Creating a generic function for 'mean' from package 'base' in package 'IRanges'
Creating a generic function for 'which.max' from package 'base' in package 'IRanges'
Creating a generic function for 'which.min' from package 'base' in package 'IRanges'
Creating a generic function for 'split' from package 'base' in package 'IRanges'
Creating a generic function for 'split<-' from package 'base' in package 'IRanges'
Creating a generic function for 'drop' from package 'base' in package 'IRanges'
Creating a generic function for 'which' from package 'base' in package 'IRanges'
Creating a generic function for 'diff' from package 'base' in package 'IRanges'
Creating a generic function for 'var' from package 'stats' in package 'IRanges'
Creating a generic function for 'cov' from package 'stats' in package 'IRanges'
Creating a generic function for 'cor' from package 'stats' in package 'IRanges'
Creating a generic function for 'sd' from package 'stats' in package 'IRanges'
Creating a generic function for 'median' from package 'stats' in package 'IRanges'
Creating a generic function for 'quantile' from package 'stats' in package 'IRanges'
Creating a generic function for 'mad' from package 'stats' in package 'IRanges'
Creating a generic function for 'IQR' from package 'stats' in package 'IRanges'
Creating a generic function for 'smoothEnds' from package 'stats' in package 'IRanges'
Creating a generic function for 'runmed' from package 'stats' in package 'IRanges'
Creating a generic function for 'nchar' from package 'base' in package 'IRanges'
Creating a generic function for 'chartr' from package 'base' in package 'IRanges'
Creating a generic function for 'tolower' from package 'base' in package 'IRanges'
Creating a generic function for 'toupper' from package 'base' in package 'IRanges'
Creating a generic function for 'sub' from package 'base' in package 'IRanges'
Creating a generic function for 'gsub' from package 'base' in package 'IRanges'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing to library 'D:/biocbld/bbs-3.0-bioc/R/library'
* installing *source* package 'IRanges' ...
** libs
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c CompressedList_class.c -o CompressedList_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c DataFrame_class.c -o DataFrame_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c GappedRanges_class.c -o GappedRanges_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Grouping_class.c -o Grouping_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c IRanges_class.c -o IRanges_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c IRanges_constructor.c -o IRanges_constructor.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c IntervalTree.c -o IntervalTree.o
IntervalTree.c: In function '_IntegerIntervalTree_overlap_first':
IntervalTree.c:502:20: warning: variable 'nhits' set but not used [-Wunused-but-set-variable]
IntervalTree.c: In function '_IntegerIntervalTree_overlap_last':
IntervalTree.c:576:20: warning: variable 'nhits' set but not used [-Wunused-but-set-variable]
IntervalTree.c: In function '_IntegerIntervalTree_overlap':
IntervalTree.c:367:3: warning: 'result_inds' may be used uninitialized in this function [-Wuninitialized]
IntervalTree.c: In function '_IntegerIntervalForest_overlap':
IntervalTree.c:395:17: warning: 'result_inds' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c NCList.c -o NCList.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c R_init_IRanges.c -o R_init_IRanges.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c RangedData_class.c -o RangedData_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Ranges_class.c -o Ranges_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c Ranges_comparison.c -o Ranges_comparison.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c RleViews_utils.c -o RleViews_utils.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c SimpleRangesList_class.c -o SimpleRangesList_class.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c common.c -o common.o
common.c: In function 'mustWrite':
common.c:1605:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:1605:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
common.c:1605:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'mustRead':
common.c:1614:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:1614:5: warning: format '%s' expects argument of type 'char *', but argument 2 has type 'long long int' [-Wformat]
common.c:1614:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safecpy':
common.c:2007:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2007:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2007:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safencpy':
common.c:2016:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2016:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2016:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safecat':
common.c:2030:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2030:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2030:5: warning: too many arguments for format [-Wformat-extra-args]
common.c: In function 'safencat':
common.c:2039:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2039:5: warning: unknown conversion type character 'l' in format [-Wformat]
common.c:2039:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c coverage_methods.c -o coverage_methods.o
coverage_methods.c: In function 'compute_coverage_from_IRanges_holder':
coverage_methods.c:503:37: warning: 'x_end' may be used uninitialized in this function [-Wuninitialized]
coverage_methods.c:419:21: note: 'x_end' was declared here
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c dlist.c -o dlist.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c errabort.c -o errabort.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c inter_range_methods.c -o inter_range_methods.o
inter_range_methods.c: In function 'reduce_ranges':
inter_range_methods.c:179:20: warning: 'revmap_elt' may be used uninitialized in this function [-Wuninitialized]
inter_range_methods.c:185:35: warning: 'delta' may be used uninitialized in this function [-Wuninitialized]
inter_range_methods.c:168:11: warning: 'gapwidth' may be used uninitialized in this function [-Wuninitialized]
inter_range_methods.c:170:14: warning: 'max_end' may be used uninitialized in this function [-Wuninitialized]
inter_range_methods.c:145:6: warning: 'append_or_drop' may be used uninitialized in this function [-Wuninitialized]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c localmem.c -o localmem.o
localmem.c: In function 'newBlock':
localmem.c:39:5: warning: unknown conversion type character 'l' in format [-Wformat]
localmem.c:39:5: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c memalloc.c -o memalloc.o
memalloc.c: In function 'needLargeMem':
memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:91:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:91:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:94:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:94:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:94:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needLargeMemResize':
memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:114:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:114:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:117:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:117:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:117:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needHugeMem':
memalloc.c:139:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:139:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:139:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needHugeMemResize':
memalloc.c:161:2: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:161:2: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:161:2: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'needMem':
memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:187:10: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:187:10: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:190:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:190:14: warning: format '%d' expects argument of type 'int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:190:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'carefulAlloc':
memalloc.c:291:2: warning: format '%ld' expects argument of type 'long int', but argument 2 has type 'size_t' [-Wformat]
memalloc.c:291:2: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
memalloc.c: In function 'carefulFree':
memalloc.c:316:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:316:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:320:14: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:320:14: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c: In function 'carefulCheckHeap':
memalloc.c:358:18: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:358:18: warning: too many arguments for format [-Wformat-extra-args]
memalloc.c:362:18: warning: unknown conversion type character 'l' in format [-Wformat]
memalloc.c:362:18: warning: too many arguments for format [-Wformat-extra-args]
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c rbTree.c -o rbTree.o
gcc -m64 -I"D:/biocbld/BBS-3˜1.0-B/R/include" -DNDEBUG -I"D:/biocbld/bbs-3.0-bioc/R/library/S4Vectors/include" -I"d:/RCompile/CRANpkg/extralibs64/local/include" -O2 -Wall -std=gnu99 -mtune=core2 -c ucsc_handlers.c -o ucsc_handlers.o
gcc -m64 -shared -s -static-libgcc -o IRanges.dll tmp.def CompressedIRangesList_class.o CompressedList_class.o DataFrame_class.o GappedRanges_class.o Grouping_class.o IRanges_class.o IRanges_constructor.o IntervalTree.o NCList.o R_init_IRanges.o RangedData_class.o Ranges_class.o Ranges_comparison.o RleViews_utils.o S4Vectors_stubs.o SimpleRangesList_class.o common.o coverage_methods.o dlist.o errabort.o inter_range_methods.o localmem.o memalloc.o rbTree.o ucsc_handlers.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/x64 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LD:/biocbld/BBS-3˜1.0-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.0-bioc/R/library/IRanges/libs/x64
** testing if installed package can be loaded
* DONE (IRanges)