Branch: refs/heads/dev Home: https://github.com/galaxyproject/galaxy Commit: 953ee3259999f774887e97d5e72bccb1102540f5 https://github.com/galaxyproject/galaxy/commit/953ee3259999f774887e97d5e72bc... Author: Ignacio ignacio.eguinoa@gmail.com Date: 2016-11-16 (Wed, 16 Nov 2016)

Changed paths: M lib/galaxy/datatypes/converters/sam_to_bam.py

Log Message: ----------- change parameters to samtools sort command (new samtools vers)

Commit: 5bb86a3b687732913dee746732060f973b622cff https://github.com/galaxyproject/galaxy/commit/5bb86a3b687732913dee746732060... Author: Ignacio ignacio.eguinoa@gmail.com Date: 2016-11-16 (Wed, 16 Nov 2016)

Changed paths: M lib/galaxy/datatypes/converters/sam_to_bam.py

Log Message: ----------- correct indentation

Commit: efde00d80a916afc20869608a7a1922249581a62 https://github.com/galaxyproject/galaxy/commit/efde00d80a916afc20869608a7a19... Author: mvdbeek m.vandenbeek@gmail.com Date: 2016-11-16 (Wed, 16 Nov 2016)

Changed paths: M lib/galaxy/datatypes/converters/sam_to_bam.py

Log Message: ----------- Handle samtools 0.x

Commit: 592f15c7b5da3f962dda9f98cb978e5c5c6b4a1d https://github.com/galaxyproject/galaxy/commit/592f15c7b5da3f962dda9f98cb978... Author: mvdbeek m.vandenbeek@gmail.com Date: 2016-11-16 (Wed, 16 Nov 2016)

Changed paths: A test-data/bam_from_sam.bam A test-data/sam_with_header.sam A test/functional/tools/sam_to_bam.xml

Log Message: ----------- Add sam-to-bam conversion test tool

Commit: 8ace021c0af79e5d325d6a590f525bce881715f8 https://github.com/galaxyproject/galaxy/commit/8ace021c0af79e5d325d6a590f525... Author: mvdbeek m.vandenbeek@gmail.com Date: 2016-11-17 (Thu, 17 Nov 2016)

Changed paths: M lib/galaxy/datatypes/converters/sam_to_bam.py

Log Message: ----------- Single quote variables in sam-to-bam conversion

Commit: d8c75e2dffbfa754eda4fae4c6d3365d42278a4c https://github.com/galaxyproject/galaxy/commit/d8c75e2dffbfa754eda4fae4c6d33... Author: Dannon Baker dannon.baker@gmail.com Date: 2016-11-17 (Thu, 17 Nov 2016)

Changed paths: M lib/galaxy/datatypes/converters/sam_to_bam.py A test-data/bam_from_sam.bam A test-data/sam_with_header.sam A test/functional/tools/sam_to_bam.xml

Log Message: ----------- Merge pull request #3187 from mvdbeek/samtools_1_3_fix

Make sam to bam converter tool compatible with samtools >= 1.3

Compare: https://github.com/galaxyproject/galaxy/compare/164a0ad20cbb...d8c75e2dffbf