Large commit.
A. Fixed massive bug in parseBedLine that disallowed BED features with start = 0. Bad news. 1. Moved ToString to lineFileUtilities 2. Added tabFile class. Works with gzip as well. 3. Changed groupBy to use the new TabFile class. 4. Added new collapse feature to groupBy.
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- Makefile 1 addition, 1 deletionMakefile
- src/bamToBed/Makefile 1 addition, 1 deletionsrc/bamToBed/Makefile
- src/bedToBam/bedToBam.cpp 0 additions, 3 deletionssrc/bedToBam/bedToBam.cpp
- src/groupBy/Makefile 3 additions, 3 deletionssrc/groupBy/Makefile
- src/groupBy/groupBy.cpp 66 additions, 46 deletionssrc/groupBy/groupBy.cpp
- src/utils/BamTools/BamAncillary.h 1 addition, 0 deletionssrc/utils/BamTools/BamAncillary.h
- src/utils/bedFile/bedFile.h 10 additions, 21 deletionssrc/utils/bedFile/bedFile.h
- src/utils/lineFileUtilities/lineFileUtilities.cpp 31 additions, 40 deletionssrc/utils/lineFileUtilities/lineFileUtilities.cpp
- src/utils/lineFileUtilities/lineFileUtilities.h 46 additions, 3 deletionssrc/utils/lineFileUtilities/lineFileUtilities.h
- src/utils/tabFile/tabFile.cpp 99 additions, 0 deletionssrc/utils/tabFile/tabFile.cpp
- src/utils/tabFile/tabFile.h 87 additions, 0 deletionssrc/utils/tabFile/tabFile.h
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