Wolfgang Maier
41c547999b
Bump tool wrapper version
2020-08-26 15:59:44 +02:00
Nicola Soranzo
f865e8359f
Deprecate size attribute of <param/> and remove it from tools
...
Also:
- dos2unix test/functional/tools/for_workflows/head.xml
- Single-quote text and data params in `<command/>`
- Remove deprecated `interpreter` attribute of `<command />`
2018-09-10 11:34:37 +01:00
mvdbeek
00e8d4ee76
Quote Filter1 input and output
2018-08-13 16:16:55 +02:00
Anthony Bretaudeau
dadb4fcda7
change back version
2018-04-20 09:45:06 +02:00
Anthony Bretaudeau
dc4902353f
add test case for fixed bug
2018-04-20 09:44:27 +02:00
Anthony Bretaudeau
0b191abaf1
pass the condition by a json file instead of arg
2018-04-19 15:24:29 +02:00
Anthony Bretaudeau
bb9963dddc
fix quote escaping
2018-04-10 14:20:53 +02:00
Anthony Bretaudeau
16f9e58af5
quotes
2018-04-10 12:02:18 +02:00
Anthony Bretaudeau
de5ac42fa9
more tolerant sanitizing
2018-04-10 11:36:08 +02:00
Marius van den Beek
c3ecd1eb72
Annotate tools with edam_operations
...
to demonstrate usage of edam_operations in tool xml.
2016-05-19 17:27:04 +02:00
Nicola Soranzo
22d4a1d8c3
dos2unix of tools/ directory. Some whitespace and PEP-8 fixes.
2015-05-15 12:40:52 +01:00
Jeremy Goecks
ea8d337316
Add parameter to filtering tool to optionally skip header lines. Add test for new parameter usage as well.
2013-01-29 10:37:16 -05:00
Kanwei Li
34155271b3
[Peter Cock] Filtering tool: Only cast used columns. Fix valid lines and skipped info lines. [Kanwei] Add new testcases to test this behavior. Fixes #537 . Fixes #535
2011-05-27 10:47:17 +02:00
Dannon Baker
349d3a07bb
First pass standardizing to 'dataaset' from 'query'.
2011-01-27 13:46:20 -05:00
Jeremy Goecks
ccf07c72aa
Enable filter tool to operate correctly on files with a variable number of columns (such as SAM files). Tool prepares and processes only columns up to and including the right-most column (i.e. column with the largest index) in the filtering condition, and subsequent columns are ignored. New functional test added for this functionality as well.
2010-11-04 16:30:34 -04:00
Greg Von Kuster
a14492c491
Added from __future__ import division to the Filter tool and increased the version, and fixed the URL in the new bx_browser tool config.
2010-01-14 11:26:08 -05:00
Kanwei Li
a947686b77
fix some typos for tools in folders N-Z
2009-09-25 02:06:03 -04:00
Greg Von Kuster
bfabec75a0
Fixes for column_maker and filtering tool to use new approach for handling metadata in the tool params - functional tests should now pass.
2008-07-23 17:12:01 -04:00
Greg Von Kuster
9f46fd2098
Fixes for column maker, columns and column_types tabular metadata elements are now used, no more memory errors. Also corrected some syntax / examples text for filtering tool.
2008-06-09 20:10:14 +00:00
Greg Von Kuster
bb4b6c63b1
Improved information in filtering tool.
2008-05-15 12:38:30 +00:00
Greg Von Kuster
bb3cd06be1
Extensive fixes for filtering tool, now uses column_types metadata, no more MemoryErrors!
2008-05-09 14:57:19 +00:00
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
69a20f0fa7
Corrected old directions on several tools.
2008-03-13 20:46:43 +00:00
Greg Von Kuster
135c9a0377
Removed the remainder of the tool version subdirectories.
2008-03-03 18:38:57 +00:00
Greg Von Kuster
78b2d4b78e
Added tool version directories for stats tools directory.
2008-02-22 20:26:57 +00:00
Greg Von Kuster
aa0dcc81d5
More functional test cleanup, eliminated redundant tests, unused test data, and renamed some test data files.
2007-10-04 14:14:15 +00:00
Greg Von Kuster
b3aa4efa6f
Cleaned up functional tests, eliminating some redundant tests and unused test data files. Next step, add many missing tests.
2007-10-03 14:17:41 +00:00
Greg Von Kuster
65aeb6ec40
Better behavior in filter tool if filtering condition includes improper syntax (like commas).
2007-07-13 13:08:36 +00:00
Greg Von Kuster
e7b15fa019
Fixes for BioMart and Subtract Query and another example for Filter.
2007-06-18 20:23:50 +00:00
Greg Von Kuster
c2d1d0189f
Some corrections for tracking referrals. Eliminated the referer column from the event table as it is not needed.
2007-04-10 16:07:53 +00:00
Greg Von Kuster
e34fff8ff8
Added a corner-case fix for auto-detect file formats. Updated info displayed to user on upload and filter tools and added more valid words to filter tool.
2007-03-23 17:46:06 +00:00
Greg Von Kuster
0191564e9b
Added another example since I noticed several jobs where the user was confused about the "==" requirement.
2007-02-26 20:43:31 +00:00
Greg Von Kuster
67e1bb8846
Enhanced the Filter tool to handle invalid data and to display more useful, informative messages to the user.
2007-02-21 18:41:58 +00:00
James Taylor
f788a34fca
Moving james-wsgi branch to new trunk.
2006-11-15 16:28:21 +00:00
Wolfgang Maier