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9 Commits
Author SHA1 Message Date
Nicola Soranzo 22d4a1d8c3 dos2unix of tools/ directory. Some whitespace and PEP-8 fixes. 2015-05-15 12:40:52 +01:00
John Chilton 4ddab82e9e Add annotated citations for MAF tools. 
Add macro file to centralize this and in help citation description as well.
 2014-08-06 09:41:38 -04:00
Daniel Blankenberg 430b953cda Minor tool help updates. 2011-08-25 10:00:09 -04:00
Daniel Blankenberg 7cd1c6dfd0 Add a MAF to Interval converter that produces a set of intervals with sequence data. 2009-09-17 11:47:37 -04:00
Daniel Blankenberg 377c2427a7 Allow workflows that contain tools that had parameters added to them after the workflow was created to be edited. Workflows containing tools with added parameters can still not be run until after they are edited and saved. Default values are provided in the workflow building mode. 
Allow most MAF tools to allow limiting of output species. MAF tools which do not allow species limiting include Extract Pairwise MAF blocks, MAF Coverage stats, and Filter MAF blocks by Size.

The functionality of Filter MAF blocks by Species and Filter MAF blocks by Size is now available in Filter MAF by specified attributes. Unfortunately tests are still not able to be written for the Filter MAF by specified attributes tool.
 2009-02-04 14:55:45 -05:00
Greg Von Kuster af3b0669aa Eliminated all Python2.4 references, added necessary assert statements to ensure minimum version of Python 2.4. 2008-03-28 15:24:50 +00:00
Greg Von Kuster 4dd1f044e1 Removed tool version directiories for some of the tools...the rest soon. 2008-03-03 16:14:06 +00:00
Greg Von Kuster a2f475b55a Added tool version directories for maf tool directory. 2008-02-22 18:35:01 +00:00
Daniel Blankenberg 5b1552ffa8 Fix memory issues when dealing with MAF tools. 
Add new bx-python eggs.

Reorganize all MAF tools into a unified directory, and update tool_conf.

Remember to update tool_conf.xml from one of the samples (tool_conf.xml.sample or tool_conf.xml.main).
 2008-01-16 18:01:09 +00:00