3
81%
master: 81%

Ran 07 Oct 2015 04:34PM UTC

Files 537

Run time 17s

Badge

Embed ▾

Committed 07 Oct 2015 03:40PM UTC coverage: 78.906% (+0.04%) from 78.871%

Job # CLOUD=false

Build Type

Pull #955

travis-ci

Committed by

droazen

Commit Message

GATKSparkTool: first step towards unifying handling of standard tool inputs in Spark

-Created a new base class for Spark tools, GATKSparkTool, that centrally manages
 and validates standard tool inputs (reads, reference, and intervals). This allows
 us to enforce consistency across tools, delete duplicated boilerplate code from tools
 to load inputs, and perform standard kinds of validation (eg., sequence dictionary
 validation) in one place.

-Tools that don't fit into the pattern established by GATKSparkTool can still extend
 SparkCommandLineProgram directly.

-This is just a first step -- there is still much work to be done to unify our data source
 classes and transparently handle inputs from different sources (GCS, hdfs, files), but
 having inputs centrally managed should make the remaining tasks much easier.

Pull Request Pull Request #955: GATKSparkTool: first step towards unifying handling of standard tool inputs in Spark

Run Details

21748 of 27562 relevant lines covered (78.91%)

0.79 hits per line

broadinstitute / hellbender / 2861 / 3
81%
master: 81%

README BADGES
x

Markdown

Textile

RDoc

HTML

Rst

Source Files on job 2861.3 (CLOUD=false)

broadinstitute / hellbender / 2861 / 3 81% master: 81%

README BADGES x

Markdown

Textile

RDoc

HTML

Rst

Source Files on job 2861.3 (CLOUD=false)

broadinstitute / hellbender / 2861 / 3
81%
master: 81%

README BADGES
x