152
65%
master: 81%

Ran 15 Jan 2015 06:25PM UTC

Jobs 1

Files 77

Run time 35s

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Build # 152

Build Type

push

travis-pro

Committed by

droazen

Commit Message

Engine support for read and reference traversals/queries, and initial ReadWalker interface

ReadWalker: initial walker interface with support for iteration over reads with optional reference
            contextual information

            PrintReadsWithReference is provided as an example ReadWalker

ReadsDataSource: full support for iteration and queries over multiple SAM/BAM files, optionally
                 bounded by intervals

ReferenceDataSource: support for targeted queries by interval (full iteration over the reference not
                     yet supported)

Comprehensive unit tests

Run Details

167 of 167 new or added lines in 8 files covered. (100.0%)

4991 of 7697 relevant lines covered (64.84%)

0.65 hits per line

New Missed Lines in Diff

Lines	Coverage	File
1	100.0	src/main/java/org/broadinstitute/hellbender/utils/iterators/ByteArrayIterator.java
3	100.0	src/main/java/org/broadinstitute/hellbender/engine/ReferenceDataSource.java
4	100.0	src/main/java/org/broadinstitute/hellbender/engine/ReadsDataSource.java
7	100.0	src/main/java/org/broadinstitute/hellbender/engine/GATKTool.java
16	100.0	src/main/java/org/broadinstitute/hellbender/tools/examples/PrintReadsWithReference.java
19	100.0	src/main/java/org/broadinstitute/hellbender/engine/ReadWalker.java

Jobs

ID	Job ID	Ran	Files	Coverage
1	152.1 (TERM=dumb)	15 Jan 2015 06:25PM UTC	0	64.84	Travis Job 152.1

Source Files on build 152

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