broadinstitute / viral-ngs / 6881 / 6

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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.

418 of 2743 branches covered (15.24%)

2088 of 6648 relevant lines covered (31.41%)

0.31 hits per line