gatk-3.8

History

Mark DePristo 7d95176539 Bugfix to compareTo and equals in GenomeLoc -- Yes, GenomeLoc.compareTo was broken. The compareTo function only considered the contig and start position, but not the stop, when comparing genome locs. -- Updated GenomeLoc.compareTo function to account for stop. Updated GATK code where necessary to fix resulting problems that depended on this. -- Added unit tests to ensure that hashcode, equals, and compareTo are all correct for GenomeLocs	2012-08-30 19:41:49 -04:00
..
net/sf	Fixing bug in fasta .fai generation: trim the contig names to the first whitespace if one appears. We now generate indexes identical to samtools.	2012-08-29 22:36:27 -04:00
org/broadinstitute/sting	Bugfix to compareTo and equals in GenomeLoc	2012-08-30 19:41:49 -04:00

Mark DePristo 7d95176539 Bugfix to compareTo and equals in GenomeLoc

-- Yes, GenomeLoc.compareTo was broken.  The compareTo function only considered the contig and start position, but not the stop, when comparing genome locs.
-- Updated GenomeLoc.compareTo function to account for stop.  Updated GATK code where necessary to fix resulting problems that depended on this.
-- Added unit tests to ensure that hashcode, equals, and compareTo are all correct for GenomeLocs

2012-08-30 19:41:49 -04:00

net/sf

Fixing bug in fasta .fai generation: trim the contig names to the first whitespace if one appears. We now generate indexes identical to samtools.

2012-08-29 22:36:27 -04:00

org/broadinstitute/sting

Bugfix to compareTo and equals in GenomeLoc

2012-08-30 19:41:49 -04:00