broadinstitute / viral-ngs / 6881

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travis-ci

add fallback method for bioconda wrapper of gatk v3 (#902)

add install method for `gatk` executable as well as `gatk3` as provided by bioconda.  The current [recipe](https://github.com/bioconda/bioconda-recipes/blob/master/recipes/gatk/build.sh) uses gatk3, however a new install received a package build with the older `gatk` executable name (some bioconda packages are currently in build flux). This adds a fallback method so either executable supplied by bioconda will work.

2432 of 4082 branches covered (59.58%)

1 of 1 new or added line in 1 file covered. (100.0%)

7245 of 9682 relevant lines covered (74.83%)

0.96 hits per line