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Rewrite of param handling. interPairEnd param moved to "paired" section. Add param for '-a' option. Remove basic parallelism tag, which does not work with multiple inputs (thanks Bjoern Gruening for the notice). Simplify Python code.
author crs4
date Fri, 21 Mar 2014 12:56:15 -0400
parents 6820983ba5d5
children
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0:6820983ba5d5 1:ebb02ba5987c
23 <tool_dependencies_dir>/bwa/0.7.7/crs4/bwa_mem/<hash_string>/env.sh 23 <tool_dependencies_dir>/bwa/0.7.7/crs4/bwa_mem/<hash_string>/env.sh
24 24
25 Version history 25 Version history
26 --------------- 26 ---------------
27 27
28 - Release 0: Initial release in the Tool Shed. This is a fork of http://toolshed.g2.bx.psu.edu/view/yufei-luo/bwa_0_7_5 repository with the following changes: Remove .loc file, only .loc.sample should be included. Fix bwa_index.loc.sample file to contain only comments. Add suppressHeader param as in bwa_wrappers. Use $GALAXY_SLOTS environment variable when available. Add <version_command> and <help>. Remove unused import. Fix spacing and typos. Use new recommended citation. Add tool_dependencies.xml . Rename to bwa_mem. Remove definitively colorspace support. Use optparse instead of argparse since Galaxy still supports Python 2.6 . 28 - Release 1 (bwa_mem 0.8.0): Rewrite of param handling. interPairEnd param moved to "paired" section. Add param for '-a' option. Remove basic parallelism tag, which does not work with multiple inputs (thanks Björn Grüning for the notice). Simplify Python code.
29 - Release 0 (bwa_mem 0.7.7): Initial release in the Tool Shed. This is a fork of http://toolshed.g2.bx.psu.edu/view/yufei-luo/bwa_0_7_5 repository with the following changes: Remove .loc file, only .loc.sample should be included. Fix bwa_index.loc.sample file to contain only comments. Add suppressHeader param as in bwa_wrappers. Use $GALAXY_SLOTS environment variable when available. Add <version_command> and <help>. Remove unused import. Fix spacing and typos. Use new recommended citation. Add tool_dependencies.xml . Rename to bwa_mem. Remove definitively colorspace support. Use optparse instead of argparse since Galaxy still supports Python 2.6 . Add COPYING and readme.rst files.
29 30
30 Development 31 Development
31 ----------- 32 -----------
32 33
33 Development is hosted at https://bitbucket.org/nsoranzo/bwa_mem . Contributions and bug reports are very welcome! 34 Development is hosted at https://bitbucket.org/crs4/orione-tools . Contributions and bug reports are very welcome!