David Roazen 2eac97a76c Remove auto-creation of fai/dict files for fasta references ... -A UserException is now thrown if either the fai or dict file for the reference does not exist, with pointers to instructions for creating these files. -Gets rid of problematic file locking that was causing intermittent errors on our farm. -Integration tests to verify that correct exceptions are thrown in the case of a missing fai / dict file. GSA-866 #resolve		2013-04-02 18:34:08 -04:00
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net/sf	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
org/broadinstitute/sting	Remove auto-creation of fai/dict files for fasta references	2013-04-02 18:34:08 -04:00