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CRAMFileReader SAMRecordIterator implementations don't implement/honor assertSorted #547

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cmnbroad opened this Issue Apr 1, 2016 · 0 comments

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cmnbroad commented Apr 1, 2016

the assertSorted methods for IntervalIterator and MultiIntervalIterator just return null. The SamReaderSortTests should be updated to include CRAM tests when this is implemented.

cmnbroad added the cram label Apr 1, 2016

@SilinPavel SilinPavel added a commit to EpamLifeSciencesTeam/htsjdk that referenced this issue Oct 27, 2016

@SilinPavel SilinPavel issue #547: CRAMFileReader SAMRecordIterator implementations now impl… 
…ement assertSorted
 888a156

@ekazachkova ekazachkova added a commit to EpamLifeSciencesTeam/htsjdk that referenced this issue Oct 28, 2016

@SilinPavel @ekazachkova SilinPavel + ekazachkova issue #547: CRAMFileReader SAMRecordIterator implementations now impl… 
…ement assertSorted
 ecdc2fa

@ekazachkova ekazachkova added a commit to EpamLifeSciencesTeam/htsjdk that referenced this issue Oct 28, 2016

@SilinPavel @ekazachkova SilinPavel + ekazachkova issue #547 9d813d2

ekazachkova referenced this issue Oct 28, 2016

Merged

Fix for issue #547 #736

3 of 3 tasks complete

@ekazachkova ekazachkova added a commit to EpamLifeSciencesTeam/htsjdk that referenced this issue Jan 31, 2017

@ekazachkova ekazachkova fixes for issue #547 d123e17

@ekazachkova ekazachkova added a commit to EpamLifeSciencesTeam/htsjdk that referenced this issue Jan 31, 2017

@ekazachkova ekazachkova fixes for issue #547 1259ac5

@vadimzalunin vadimzalunin added a commit that referenced this issue Mar 7, 2017

@vadimzalunin vadimzalunin Merge pull request #736 from EpamLifeSciencesTeam/epam-ls_CRAMFileRea… 
…der_impl_assert_sorted

Fix for issue #547
 cbcd718

@magicDGS magicDGS added a commit to magicDGS/htsjdk that referenced this issue Mar 8, 2017

@ekazachkova @magicDGS ekazachkova + magicDGS fixes for issue #547 3fb23ac
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