M Bernt
2ea05e81f8
grouping: redecided for the less intrusive rstrip
2019-11-11 11:17:20 +01:00
mvdbeek
0c1334fea0
Fix grouping1 with modern sort, fix test data
...
This tool currently fails with `sort: multi-character tab '$\\\\t'\n`
(https://jenkins.galaxyproject.org/view/All/job/docker-main-tools/lastCompletedBuild/testReport/test.functional/test_toolbox_pytest/test_tool_Grouping1_test_1_/ ).
This also removes test data that should be included in
galaxy-test-data instead (xref
https://github.com/galaxyproject/galaxy-test-data/pull/5 ),
and adds a test file that was missing from
https://github.com/galaxyproject/galaxy/pull/7205 .
2019-04-29 17:38:10 +02:00
bernt@informatik.uni-leipzig.de
bc86e37d85
groupby: reenabled tests and added some, more bugfix
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- make script exit with code 1 in case of error
- removed one more strip
- adapted tool syntax to best practices
2019-01-12 16:13:23 +01:00
M Bernt
7b027d8a1f
improved grouping
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- replaces non 'floatable' values to a user supplied default value
- do not strip lines because this removes empty cells at the ends
- added some comments to python code
2018-09-10 12:05:15 +01:00
Daniel Blankenberg
34900f87f5
Fix grouping tool broken in 7347d75a4a / fd85979a86, and enhance performance when removing lines.
2016-04-14 12:00:11 -04:00
Clayton Turner
fd85979a86
Fixed XML versioning and inputfile name
2014-02-14 12:25:20 -05:00
Clayton Turner
7347d75a4a
Added ignore lines starting with specific characters to group tool
2014-02-10 16:00:30 -05:00
Kanwei Li
2f911c47ce
Improve docs for Grouping tool. Closes #576
2011-06-06 15:30:02 -04:00
Kanwei Li
a8ff1a91b3
Grouping tool:
...
- Converted to use numpy, which is included with Galaxy, instead of rpy, which is not.
- Don't simply skip lines if a numeric parameter encounters non-numeric data, return descriptive error with line contents instead
- General refactoring
- Added new comprehensive test, disabled until test framework supports multiple repeat inputs
2011-06-03 16:08:26 -04:00
Kanwei Li
82dde6e37e
Refactor Grouping tool and fix bug where data after a blank value in the group_by column returns the wrong data.
2011-03-22 17:49:09 -04:00
Guruprasad Anada
7c798f719a
Fixed ValueError being thrown by randint() function in group tool.
2011-01-28 10:42:08 -05:00
Dannon Baker
349d3a07bb
First pass standardizing to 'dataaset' from 'query'.
2011-01-27 13:46:20 -05:00
Daniel Blankenberg
de36aa38a7
Add Standard deviation operation to grouping tool.
2010-12-09 11:43:54 -05:00
Guruprasad Anada
d40c580de6
Modified Group tool by adding Mode function to the list of aggregate operations.
2010-07-29 12:21:09 -04:00
Guruprasad Anada
862fb51959
Added 'Median' operation to grouping tool
2009-10-08 10:37:26 -04:00
Guruprasad Anada
c5ee982295
Adding an option to Group tool to ignore case while grouping.
2009-09-25 14:50:34 -04:00
Guruprasad Anada
167ce59b29
Bug fixes for histogram liftover and grouping tools.
2009-05-29 11:07:18 -04:00
Guruprasad Anada
54667b80e6
Bug fixed in linear regression tool, and new option added to grouping tool.
2009-04-21 10:53:34 -04:00
Guruprasad Anada
1f62ffbb01
Adding modified hyphy functional test output files, which have changed as the new version of HYPHY is installed on Galaxy. Also changing version numbers for all the affected tools.
2009-01-27 16:17:22 -05:00
Anton Nekrutenko
076398c821
Changed grouping output to tabular
2009-01-22 12:46:37 -05:00
Guruprasad Anada
50b46e60e3
Removed an option from grouping tool, which is now part of the LCA tool under Taxonomy.
2009-01-16 13:30:01 -05:00
Guruprasad Anada
cc80d63745
Added a new option to the grouping tool to facilitate picking of random entries from columns not chosen for either grouping or aggregate operations.
2009-01-06 11:11:24 -05:00
Guruprasad Anada
8c7c765480
Modified sort options in grouping tool to work correctly on older and newer versions of unix sort. Also included functional tests.
2008-12-22 12:15:02 -05:00
Greg Von Kuster
f83ff13b78
Increase the version in the grouping tool due to previously changed output, change the output and increase the version of the gsummary tool.
2008-12-05 09:01:22 -05:00
Greg Von Kuster
5331dee076
Add functioal test baseline support for the repeat construct, more work needed ( e.g., multiple repeat elements, refresh_on_change when the input to be refreshed is within a repeat construct ). Added functional tests for some tools that use this construct.
2008-11-10 14:22:01 -05:00
Guruprasad Anada
255fee9ba8
Added new option to Grouping tool to randomly pick an entry from a chosen column.
...
Also corrected a typo in concatenate tool.
2008-07-03 17:48:28 +00:00
Greg Von Kuster
2b4df13a23
Grouping tool version updateed due to tool behvioral change. Also do not read entire fatsa / fastq dataset twice to create blurb.
2008-06-12 12:20:41 +00:00
Greg Von Kuster
04e0834500
Revert 2715.
2008-06-04 13:02:15 +00:00
Greg Von Kuster
dedc7278a1
Requires config change, temporary files are now created in a configurable location - affects many tools.
2008-06-03 20:29:54 +00:00
Nate Coraor
f53cb1d7f1
Added tool dependencies to xml.
2008-04-25 19:40:16 +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
Guruprasad Anada
d5e95f9ece
Modified 'Group' tool - Added new options: Count and Count distinct. Also added an option to round the result.
...
Improved error handling and added better error messages.
2008-02-05 16:57:29 +00:00
Greg Von Kuster
fb569d3c43
More ColumnListParameter cleanup. Eliminated dynamic options from some tools by using ColumnListParameter.
2007-10-18 17:29:47 +00:00
Greg Von Kuster
4f8eb6578b
Various tool fixes, eliminated now unnecessary "refresh_on_change", eliminated old aggregation tool, fixed db conditional in mapping.
2007-10-12 13:11:17 +00:00
Greg Von Kuster
0f9cff922c
Miscellaneous tool bug fixes.
2007-10-09 18:51:50 +00:00
Greg Von Kuster
f27c590190
Enhanced grouping tool to use columnlist tool parameter.
2007-09-18 20:31:09 +00:00
Greg Von Kuster
a3e9cb73dd
Fixes and cleanup to summary statistics tool and commented out tests for grouping tool since they require mouse clicks (not handled by twill).
2007-08-20 20:33:15 +00:00
Greg Von Kuster
6d72d59f09
Fixes for the grouping tool.
2007-08-17 14:23:42 +00:00
Guruprasad Anada
73ec7a95c4
Adding new tool which provides SQL "Group by" functionality.
2007-07-05 16:26:41 +00:00
M Bernt