gatk-3.8/public/java/test/org/broadinstitute/sting
Roger Zurawicki 0e9c2cefa2 testHardClipSoftClippedBases works with Matches and Deletions
Insertions are a problem so cigar cases with "I" are commented out.
The test works with multiple deletions and matches.

This is still not a complete test. A lot of cigar test cases are commented out.

Added insertions to ReadClipperUnitTest

ReadClipper now tests for all indels.

Signed-off-by: Mauricio Carneiro <carneiro@broadinstitute.org>
2011-12-09 11:43:37 -05:00
..
alignment Reinitialize random seed in the bwa bindings from the fixed seed stored in the 2011-07-22 13:41:53 -04:00
commandline Added ability to specify arguments in files via -args/--arg_file 2011-10-24 15:58:34 -04:00
gatk Prints 0.0 TiTv not NaN when there are no variants 2011-12-07 12:07:54 -05:00
jna Fixed an integration test which crashed on the out of date LSF DRMAA library when run against the obsolete LSF dotkit instead of .combined_LSF_SGE 2011-09-23 21:03:22 -04:00
utils testHardClipSoftClippedBases works with Matches and Deletions 2011-12-09 11:43:37 -05:00
BaseTest.java Merge branch 'master' of ssh://gsa1/humgen/gsa-scr1/gsa-engineering/git/unstable 2011-12-07 09:03:17 -05:00
MD5DB.java Merged bug fix from Stable into Unstable 2011-10-13 18:02:06 -04:00
StingTextReporter.java Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
WalkerTest.java All MD5 mismatches for test are shown 2011-10-04 15:53:52 -07:00