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bamtools.git
2014-04-03 Don Armstrongadd debian files debian commit | commitdiff | tree | snapshot
2014-04-03 Don Armstrongupdate cmake fixup commit | commitdiff | tree | snapshot
2014-04-03 Don Armstrongmerge master 2.3.0 commit | commitdiff | tree | snapshot
2014-04-03 Don Armstrongadd cmake_fixup commit | commitdiff | tree | snapshot
2012-11-12 Derek BarnettFixed: regression in convert tool - SAM tags contained... commit | commitdiff | tree | snapshot
2012-10-18 Derek BarnettMerge branch 'master' of https://github.com/pezmaster31... commit | commitdiff | tree | snapshot
2012-10-18 Derek BarnettVersion 2.2 commit | commitdiff | tree | snapshot
2012-09-25 derekFixed: convert tool - improper unsigned char handling... commit | commitdiff | tree | snapshot
2012-07-27 derekFixed: improper mode check in local I/O device commit | commitdiff | tree | snapshot
2012-05-26 derekBug fix: error in index file creation when sorted BAM... commit | commitdiff | tree | snapshot
2012-04-04 derekBrought Doxyfile's version number up to date commit | commitdiff | tree | snapshot
2012-04-04 derekMerge branch 'master' of github.com:pezmaster31/bamtools commit | commitdiff | tree | snapshot
2012-04-04 derekAdded proper handling for empty or ignored ("*") alignm... commit | commitdiff | tree | snapshot
2012-04-04 Derek BarnettMerge pull request #41 from tobiasmarschall/master commit | commitdiff | tree | snapshot
2012-04-04 derekFixed: invalidated by-name sort order in some cases commit | commitdiff | tree | snapshot
2012-03-27 Tobias MarschallInclude header sys/filio.h for SunOS. Otherwise TcpSock... commit | commitdiff | tree | snapshot
2012-03-27 derekFixed: sorting order lost during merge step of sort... commit | commitdiff | tree | snapshot
2012-03-26 Derek BarnettMerge pull request #40 from tobiasmarschall/master commit | commitdiff | tree | snapshot
2012-03-26 Derek BarnettMerge pull request #39 from leecbaker/master commit | commitdiff | tree | snapshot
2012-03-23 Tobias MarschallFix uninitialized buffer in BamReaderPrivate::LoadNextA... commit | commitdiff | tree | snapshot
2012-03-18 Lee BakerFix: Comment lines in header get lost when copying... commit | commitdiff | tree | snapshot
2012-03-09 derekFASTA reader - performance improvement for single-base... commit | commitdiff | tree | snapshot
2012-03-09 derekPileupEngine performance improvement for high coverage commit | commitdiff | tree | snapshot
2012-03-09 derekPileupEngine bugfix commit | commitdiff | tree | snapshot
2012-02-23 derekProvided initialization values for previously unspecifi... commit | commitdiff | tree | snapshot
2012-02-13 derekFixed: error in BamWriter metadata output on big-endian... commit | commitdiff | tree | snapshot
2012-01-17 derekFixed regression: missing EOF empty block on BgzfStream... commit | commitdiff | tree | snapshot
2012-01-14 derekFixed: const-related typo in last commit commit | commitdiff | tree | snapshot
2012-01-13 derekRemoved use of std::map::at() in HttpHeader, not a... commit | commitdiff | tree | snapshot
2012-01-05 derekFixed: bad_alloc in socket buffer on some machines commit | commitdiff | tree | snapshot
2011-12-08 derekNonstandard, user-defined tags now allowed in SAM heade... commit | commitdiff | tree | snapshot
2011-12-08 derekAdded support for custom reference prefix in split... commit | commitdiff | tree | snapshot
2011-12-08 derekFixed: split tool crash when trying to split unmapped... commit | commitdiff | tree | snapshot
2011-12-08 derekFixed: premature EOF issues & updated Windows implement... commit | commitdiff | tree | snapshot
2011-12-08 derekRolled back test suite code from master until it's... commit | commitdiff | tree | snapshot
2011-12-08 derekFixed EOF issues on *nix platforms commit | commitdiff | tree | snapshot
2011-11-29 derekReorganized test suite source tree commit | commitdiff | tree | snapshot
2011-11-29 derekPost-merge cleanup commit | commitdiff | tree | snapshot
2011-11-28 derekmerge with remoteio branch commit | commitdiff | tree | snapshot
2011-11-28 derekUpdated CMakeLists.txt files commit | commitdiff | tree | snapshot
2011-11-28 derekInitial test suite commit commit | commitdiff | tree | snapshot
2011-11-17 derekBasic Windows implementation commit | commitdiff | tree | snapshot
2011-11-15 derekRemoved spurious assert commit | commitdiff | tree | snapshot
2011-11-10 derekUpdated file headers (filename, license, description... commit | commitdiff | tree | snapshot
2011-11-10 derekAdded generic I/O device to BamIndex side of things commit | commitdiff | tree | snapshot
2011-11-09 derekAdded FTP support (text-tested, not BAM) commit | commitdiff | tree | snapshot
2011-11-07 derekImplemented basic TCP support layer commit | commitdiff | tree | snapshot
2011-10-25 derekOrganized api/internal into subdirs commit | commitdiff | tree | snapshot
2011-10-17 derekRemoved some debugging 'error string' messages that... commit | commitdiff | tree | snapshot
2011-10-17 derekRegression fixed: error in BamAlignment tag access... commit | commitdiff | tree | snapshot
2011-10-16 derekRemoved data duplication in last update to Sam*Dictionaries commit | commitdiff | tree | snapshot
2011-10-14 derekFixed regression: improper @SQ line ordering in SamHead... commit | commitdiff | tree | snapshot
2011-10-14 derekRegression fixed: wasn't properly merging from multiple... commit | commitdiff | tree | snapshot
2011-10-14 derekMinor cleanup in FilterTool commit | commitdiff | tree | snapshot
2011-10-13 derekAdded GetSoftClips() method to BamAlignment commit | commitdiff | tree | snapshot
2011-10-12 derekMajor speedup in SamSequenceDictionary & SamReadGroupDi... commit | commitdiff | tree | snapshot
2011-10-11 derekCleanup in SortTool commit | commitdiff | tree | snapshot
2011-10-11 derekBug fix in BgzfStream I/O commit | commitdiff | tree | snapshot
2011-10-11 derekFixed typo commit | commitdiff | tree | snapshot
2011-10-11 derekCleanup missed by earlier "includes cleanup" commit commit | commitdiff | tree | snapshot
2011-10-11 derekUpdated Doxyfile to reflect version 2.0.0 commit | commitdiff | tree | snapshot
2011-10-11 derekRemoved index cache mode commit | commitdiff | tree | snapshot
2011-10-10 derekCleaned up intra-API includes & moved version numbers... commit | commitdiff | tree | snapshot
2011-10-10 derekUpdated Doxygen comments commit | commitdiff | tree | snapshot
2011-10-09 derekConverted intervals from 0-based, CLOSED to 0-based... commit | commitdiff | tree | snapshot
2011-10-07 derekCleaned up output/exception/asserts, etc after last... commit | commitdiff | tree | snapshot
2011-10-07 derekMerge with earlier IODevice work commit | commitdiff | tree | snapshot
2011-10-07 derekRemoved STDERR pollution by API commit | commitdiff | tree | snapshot
2011-10-04 derekFirst stab at templated tag access in BamAlignment commit | commitdiff | tree | snapshot
2011-10-04 derekRemoved duplicated method that snuck past a prior merge... commit | commitdiff | tree | snapshot
2011-10-03 derekmerge conflict commit | commitdiff | tree | snapshot
2011-10-03 derekMultiReader (&MultiMerger) now using Algorithms::Sort... commit | commitdiff | tree | snapshot
2011-09-30 derekInitial test run of new BamAlgorithms commit | commitdiff | tree | snapshot
2011-09-28 derekFix: unmapped reads now pushed to end of coordinate... commit | commitdiff | tree | snapshot
2011-09-27 derekFixed typo in error messages commit | commitdiff | tree | snapshot
2011-09-27 Derek BarnettMerge pull request #16 from gabeiscoding/patch-2 commit | commitdiff | tree | snapshot
2011-09-23 gabeiscodingIn standard indexed BAM files with with sparce coverage... commit | commitdiff | tree | snapshot
2011-09-10 derekMerge branches 'master' and 'iodevice' into iodevice commit | commitdiff | tree | snapshot
2011-09-10 derekMinor cleanup commit | commitdiff | tree | snapshot
2011-09-09 derekRemoved unnecessary peek-and-rewind behavior in BamMult... commit | commitdiff | tree | snapshot
2011-09-09 derekRemoved 'core mode' concept from BamMultiReader internals commit | commitdiff | tree | snapshot
2011-09-09 derekRefactored shared pipe/file behavior into ILocalIODevice commit | commitdiff | tree | snapshot
2011-09-09 derekMerge branches 'master' and 'iodevice' into iodevice commit | commitdiff | tree | snapshot
2011-09-09 derekBasic internal implementation of BamFile & BamPipe commit | commitdiff | tree | snapshot
2011-09-08 Derek BarnettMerge pull request #15 from gabeiscoding/patch-1 commit | commitdiff | tree | snapshot
2011-09-08 gabeiscodingBug discovered. The chunkStop was not being read from... commit | commitdiff | tree | snapshot
2011-09-07 derekAdded empty IBamIODevice.h commit | commitdiff | tree | snapshot
2011-09-02 derekAdded support for "-" as indicator for stdin/stdout commit | commitdiff | tree | snapshot
2011-09-02 derekAdded "isSingleton" property to filter tool commit | commitdiff | tree | snapshot
2011-07-27 derekImplemented binary search through bins in BAI commit | commitdiff | tree | snapshot
2011-07-06 derekAdded a -minMQ (minimum map quality) option to ResolveTool commit | commitdiff | tree | snapshot
2011-06-28 Derek BarnettMerge pull request #13 from alecchap/master commit | commitdiff | tree | snapshot
2011-06-28 derekAdded unique-alignment checks for ResolveTool commit | commitdiff | tree | snapshot
2011-06-28 Alec ChapmanFix Visual Studio compiler errors. commit | commitdiff | tree | snapshot
2011-06-23 derekFixed -fPIC issue for CentOS users. commit | commitdiff | tree | snapshot
2011-06-17 derekRemoved pessimistic warnings when jumping to regions... commit | commitdiff | tree | snapshot
2011-06-17 derekAdded re-calculation of BamAlignment's BinID during commit | commitdiff | tree | snapshot
2011-06-14 derekImplemented better coupling of unmapped reads with... commit | commitdiff | tree | snapshot
2011-06-14 derekFurther fixes for ISIZE-handling in ResolveTool commit | commitdiff | tree | snapshot
2011-06-13 derekFixed some signed/unsigned InsertSize bugs in ResolveTool commit | commitdiff | tree | snapshot
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Branch of bamtools which has rudimentary Debian packaging