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Commits

Commits on Jul 25, 2019

Commits on Jul 24, 2019

Fixed a bug causing rare seg-faults with for --peOverlap* options and chimeric detection.
alexdobin
committed

Commits on Nov 5, 2018

Fixed the problem causing BAM sorting error with large number of threads and small ulimit -n.
alexdobin
committed

Commits on Oct 30, 2018

Fixed the bug causing inconsistent output for mate1/2 in the Unmapped files.
alexdobin
committed

Commits on Oct 17, 2018

Commits on Oct 3, 2018

Changed back internal binary encoding for N in the genome to 4.
alexdobin
committed

Commits on Oct 1, 2018

Enforced the consistent choice of supplementary chimeric alignments for overlapping mates.
alexdobin
committed

Commits on Sep 6, 2018

Commits on Aug 27, 2018

Fixed a problem with --outSAMfilter KeepOnlyAddedReferences option. Fixed a problem with output of an empty sorted BAM.
alexdobin
committed

Commits on Aug 18, 2018

fix spelling issues
satta
committed

Commits on Aug 13, 2018

Implemented --chimOutJunctionFormat 1 option to output some metadata (command lines and basic mapping statistics) at the end of Chimeric.out.junction file. Fixed a bug in merging mates (--peOverlap…
alexdobin
committed

Commits on Aug 12, 2018

Fixed the problem with control characters (ASCII<32) in genome and input read sequences. They used to be converted to N, now they are removed. Fixed the GtstrandBit problem. Another attempt to fix …
alexdobin
committed

Commits on Aug 9, 2018

Fixed a bug with multiple RG lines when inputting reads in SAM format. Fixed a bug causing seg-faults with sharead memory and --outStd options.
alexdobin
committed

Commits on Jul 20, 2018

Fixed another problem with alignment scoring with peOverlap option which may cause seg-faults in rare cases.
alexdobin
committed

Commits on Jul 13, 2018

Fixed the problem with alignment scoring with peOverlap option which may cause seg-faults in rare cases.
alexdobin
committed

Commits on Jun 14, 2018

Commits on May 10, 2018

Commits on May 8, 2018

Close code brackets under "Download the latest"
admish
authored

Commits on May 7, 2018

Fixed the problem with Ns in the overlap region for the peOverlap algorithm.
alexdobin
committed

Commits on May 3, 2018

Fixed another bug in the peOverlap algorithm.
alexdobin
committed