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Ticket Summary Owner Type Priority Milestone Component
#715 distcheck fails Peter defect trivial yat 0.8.2 build
#716 look for openblas in configure Peter request minor yat 0.11 build
#717 svndigest utilility functions Peter request major yat 0.10 utility
#718 remove convenience library Peter request minor yat 0.10 build
#719 configure silently accepts missing boost libs Peter defect major yat 0.9 build
#720 rng-mt failure Peter defect minor yat 0.9 random
#721 documentation does not get installed Peter defect major yat 0.9.1 build
#723 CommandLine accepts passed '--no-foo' Peter defect minor yat 0.9.1 utility
#724 regression in NeedlemanWunsch Peter defect critical yat 0.9.1 utility
#725 Functor that deletes objects Peter request major yat 0.10 utility
#726 inverse function creating map<T, size_t> Peter request major yat 0.10 utility
#727 mention how manipulate GSL error handler in Doxygen docs Peter request trivial documentation
#728 documentation displays full absolute include path Peter defect trivial yat 0.9.2 documentation
#729 samtools wrapper classes Peter request major yat 0.10 omic
#730 binomial random number Peter request major yat 0.10 random
#731 yat_revision_header fails with Automake 1.13 Peter defect minor yat 0.10 test
#733 build failure with static libbam Peter defect critical yat 0.10.1 build
#734 test yat.pc Peter request minor yat 0.11 test
#735 missing HAVE_SAMTOOLS_BAM_H in config_public.h.in Peter defect minor yat 0.10.1 build
#736 -lbam and -lz are not mentioned in yat.pc Peter defect trivial yat 0.10.1 build
#737 test [in configure] whether libs can be used to create shared libyat Peter enhancement major yat 0.11 build
#738 Functor to filter BamReads Peter request major yat 0.11 omic
#739 bam_parse_region with yat interface Peter request major yat 0.11 omic
#740 BamHeader::target_length(size_t) not implemented Peter defect major yat 0.10.1 omic
#741 MergeIterator Peter request major yat 0.11 utility
#742 add void constructors to compose functor Peter request major yat 0.11 utility
#743 BamRead::mtid is not implemented Peter defect minor yat 0.10.2 omic
#744 documentation claims BamReadIterators are not independent Peter defect minor documentation
#745 Symbol not found: _bam_nt16_rev_table Peter defect major yat 0.10.2 omic
#746 non-const access to data in BamRead Peter request major yat 0.11 omic
#747 doxygen complains about yat's doxygen config file Peter enhancement major yat 0.11 documentation
#748 SKIP yat_pc_test.sh when --without-samtools Peter enhancement trivial yat 0.11 test
#749 asserts are turned on (default) Peter defect minor yat 0.10.2 build
#750 update svndigest:ignore properties Peter request trivial yat 0.11 build
#751 OutBamFile::write() ignores return value from samwrite Peter request minor yat 0.11 omic
#752 avoid installing header files conditionally Peter enhancement minor yat 0.11 omic
#753 KolmogorovSmirnov::remove doesn't remove data Peter defect major yat 0.10.2 statistics
#754 Why is ROC::area not const? Peter request major yat 0.11 statistics
#755 tTest::score should be const Peter request major yat 0.11 statistics
#756 yat-pc-check is not working in parallel build Peter defect trivial yat 0.10.3 build
#757 m4 macro checking that -lyat has bam support Peter request minor yat 0.11 m4
#758 Symbol not found: _bam_nt16_rev_table Peter defect major build
#759 Create a macro that can test whether shared library is available Peter request major yat 0.11 m4
#760 Create a macro that can test whether static library is available Peter request major m4
#761 Create libs that can be used in tests for m4 macros Peter request major yat 0.11 test
#762 <boost/exception_ptr.hpp> in boost 1.41 problematic Peter request major yat 0.11 build
#763 YAT_LT_LINK_IFELSE does not respect late changes to variables Peter defect minor m4
#764 BamReadIterator with invalid region Peter request major yat 0.11 omic
#767 InBamFile::open should throw [not assert] when input is a wrong format Peter defect major yat 0.11 omic
#768 replace(string, string, string) is not implemented Peter defect major yat 0.10.3 utility
#769 class calculating likelihood ratio test for binomial models Peter request major yat 0.12 statistics
#770 ostream_iterator with no separator after last element Peter request major yat 0.12 utility
#771 test version number of libyat in shell tests that link against libyat Peter enhancement minor yat 0.12 test
#772 calculate mutual information Peter request minor yat 0.12 statistics
#775 uncompressed OutBamFile Peter request major yat 0.12 omic
#776 BamHeader::tid incorrect at first call Peter defect major yat 0.11.1 omic
#777 private namespace detail is included in doxygen output Peter defect trivial yat 0.11.2 documentation
#778 throw OutBamFile::error from OutBamFile::write(const BamRead& read) Peter request minor yat 0.12 omic
#779 Behaviour of BamHeader copy constructor Peter discussion major omic
#780 Aligner vertical and horizon gap Peter enhancement minor yat 0.12 documentation
#783 convert<double>("-nan") fails Peter discussion major yat 0.12 utility
#784 BamPairIterator Peter request major yat 0.12 omic
#785 CIGAR functionality Peter request major yat 0.12 omic
#787 configure doesn't find my ATLAS Peter defect major build
#788 yat-config --libs does not include -lgsl Peter defect major yat 0.11.2 build
#790 workaround for BamPairIterator::operator-> Peter request minor yat 0.12 omic
#792 BamRead::flag is not implemented Peter defect major yat 0.12 omic
#794 support for htslib Peter request critical yat 0.13 build
#795 write a test for macro YAT_HEADER_ASSERT Peter request minor yat 0.13 test
#796 benjamini hochberg on unsorted range Peter request major yat 0.13 statistics
#797 yat/omic/algorithm.h is missing include Peter defect major yat 0.12 omic
#798 output sorted bam buffer Peter request major yat 0.19 omic
#799 allow conversion in get(map, key) Peter enhancement major yat 0.13 utility
#800 Scheduler Peter specification major yat 0.13 utility
#802 AveragerWeighted::n(void) returns NaN for empty object Peter specification minor yat 0.13 statistics
#803 use new iterator concepts Peter request major yat 0.14 utility
#804 remove and rename are not implemented Peter defect major yat 0.12 utility
#806 bam pileup Peter request major yat 0.13 omic
#807 Yates' correction in Fisher Peter enhancement major yat 0.13 statistics
#808 prefer using .private variable (when possible) in yat.pc Peter enhancement trivial yat 0.13 build
#809 use zlib's pc file Peter enhancement trivial yat 0.13 build
#810 Bam::end() doesn't work when cigar contains BAM_CEQUAL and BAM_CDIFF Peter defect major yat 0.12.1 omic
#811 brokeln html link to trivial iterator Peter defect trivial yat 0.13 documentation
#813 add short description of IGP Peter enhancement trivial yat 0.13 documentation
#814 IGP: avoid calculating distance between every pair Peter enhancement minor yat 0.13 classifier
#815 QuantileNormalizer segfaults if input has more columns than rows Peter defect major yat 0.12.2 normalizer
#816 create CigarIterator from Aligner::Cigar Peter request major yat 0.13 utility
#817 access misc text in BamHeader Peter request major yat 0.13 omic
#818 SegmentSet::insert_merge(range) Peter request minor yat 0.13 utility
#819 SmithWaterman::operator()(4) Peter defect minor yat 0.12.2 documentation
#820 Unexpected CIGAR Peter defect major yat 0.12.2 utility
#821 union of a utility::Segment Peter request minor yat 0.15 utility
#822 static_test.sh fails when htslib installed outside runtime linker path Peter defect minor yat 0.13 test
#823 yat_m4_with_bam_test.sh fails Peter defect major test
#826 function and/or functor to compare bam query name Peter request minor yat 0.13 omic
#827 set unset and flip bits in BamRead::flag Peter discussion minor yat 0.16 omic
#828 try convert string to numeric type Peter request minor yat 0.15 utility
#830 calculate BAM's alignment score from cigar and reference Peter request major yat 0.13 omic
#831 PriorityQueue Peter request minor yat 0.13 utility
#832 Scheduler causes pthread_mutex_lock assertion Peter defect major yat 0.13 utility
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