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broadinstitute / hellbender / 160
65%
master: 81%

Build:
Build:
LAST BUILD BRANCH: dr_disentangle_spark_and_dataflow
DEFAULT BRANCH: master
Ran 15 Jan 2015 09:52PM UTC
Jobs 1
Files 77
Run time 34s
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Port most existing hellbender tools to ReadWalker interface

-CompareSAMs not ported because ReadWalker traversal is not suited
 for it

-SplitNCigarReads not ported because of the way it uses the reference
 (could be ported to ReadWalker with some refactoring, however)

There were a few engine changes as well to accomodate the new ReadWalker tools:

-Method to allow walkers to access the SAM header from the reads data source

-No longer require an index for BAM/SAM files when no intervals are
 provided and no queries are performed.

-onTraversalDone() now allows tools to return a value, which is printed
 out by the engine

Resolves #113

44 of 44 new or added lines in 10 files covered. (100.0%)

4996 of 7680 relevant lines covered (65.05%)

0.65 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
100.0
src/main/java/org/broadinstitute/hellbender/engine/GATKTool.java
1
100.0
src/main/java/org/broadinstitute/hellbender/engine/ReadWalker.java
1
100.0
src/main/java/org/broadinstitute/hellbender/tools/SplitReads.java
1
100.0
src/main/java/org/broadinstitute/hellbender/tools/examples/PrintReadsWithReference.java
2
100.0
src/main/java/org/broadinstitute/hellbender/Main.java

Uncovered Existing Lines

Lines Coverage ∆ File
1
100.0
src/main/java/org/broadinstitute/hellbender/engine/ReadWalker.java
4
100.0
src/main/java/org/broadinstitute/hellbender/engine/ReadsDataSource.java
5
100.0
src/main/java/org/broadinstitute/hellbender/tools/FlagStat.java
15
100.0
src/main/java/org/broadinstitute/hellbender/Main.java
Jobs
ID Job ID Ran Files Coverage
1 160.1 (TERM=dumb) 15 Jan 2015 09:52PM UTC 0
65.05
Travis Job 160.1
Source Files on build 160
Detailed source file information is not available for this build.
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