 Greg Von Kuster
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b7c0bbc280
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merging from central
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2009-01-07 12:19:58 -05:00 |
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Greg Von Kuster
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86c7a80c31
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Add support for NCBI Blast XML data format.
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2009-01-07 12:20:35 -05:00 |
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Guruprasad Anada
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8a7392aa7a
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Pushing changes to security from central.
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2009-01-06 11:12:53 -05:00 |
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Guruprasad Anada
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cc80d63745
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Added a new option to the grouping tool to facilitate picking of random entries from columns not chosen for either grouping or aggregate operations.
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2009-01-06 11:11:24 -05:00 |
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Nate Coraor
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d337613eeb
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megablast fix from Anton
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2009-01-05 15:26:17 -05:00 |
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Nate Coraor
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6040c7b18a
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merge
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2009-01-05 15:25:17 -05:00 |
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Guruprasad Anada
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10d6090e81
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Pushing changes from central to Security.
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2008-12-22 12:16:14 -05:00 |
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Guruprasad Anada
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8c7c765480
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Modified sort options in grouping tool to work correctly on older and newer versions of unix sort. Also included functional tests.
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2008-12-22 12:15:02 -05:00 |
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Wen-Yu Chung
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05513833f5
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fix for short read score distribution tool. restore test data. passed functional tests in scofield
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2008-12-19 14:28:09 -05:00 |
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Wen-Yu Chung
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b31191d4bd
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fix for short read score distribution tool. restore test data.
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2008-12-19 14:25:43 -05:00 |
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Wen-Yu Chung
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1da324ffb5
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fixed for short read build distribution tool. remove unused arrays.
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2008-12-19 12:28:02 -05:00 |
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Wen-Yu Chung
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170f9d2d77
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fixed for short read build distribution tool. remove unused arrays. also update test data output.
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2008-12-19 12:25:52 -05:00 |
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Nate Coraor
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b6d561fb42
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Allow users to download a selection of datasets directly from the library in an archive format of their choosing.
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2008-12-15 16:37:54 -05:00 |
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Greg Von Kuster
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dfd5e9827f
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Rename gbrowse_elegans to wormbase_test, add a config for the wormbase production server.
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2008-12-15 10:37:39 -05:00 |
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Greg Von Kuster
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d3b2a27cee
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merging from central
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2008-12-15 10:37:16 -05:00 |
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Greg Von Kuster
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7a5203fd65
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Attempting to merge conflicts.
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2008-12-15 08:58:33 -05:00 |
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Greg Von Kuster
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b432fd166d
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merging heads
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2008-12-15 08:55:16 -05:00 |
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Greg Von Kuster
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0b85700945
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merging from central
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2008-12-13 23:36:47 -05:00 |
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Greg Von Kuster
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2647f72e4a
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Add ability for data_source tools to append parameters passed in the initial response to the value of URL prior to Galaxy's post to the URL. This is a cleaner method for Biomart and also gets GBrowse to wrok.
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2008-12-13 23:35:29 -05:00 |
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Guruprasad Anada
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7d48102b82
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merging heads
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2008-12-12 12:16:41 -05:00 |
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Guruprasad Anada
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9a0953f1f1
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Added more test-cases to GOPS JOIN to include cases with different cut-offs for overlap.
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2008-12-12 12:12:59 -05:00 |
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Greg Von Kuster
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f83ff13b78
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Increase the version in the grouping tool due to previously changed output, change the output and increase the version of the gsummary tool.
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2008-12-05 09:01:22 -05:00 |
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Greg Von Kuster
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b998baa2f4
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merging from central
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2008-12-05 09:01:00 -05:00 |
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Daniel Blankenberg
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561645665d
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Merging Heads
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2008-12-04 15:21:06 -05:00 |
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Daniel Blankenberg
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18f4037ba2
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Update GMAJ help.
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2008-12-04 15:09:57 -05:00 |
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Guruprasad Anada
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8da17294a8
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Bug fixes to compare, group and filter tools.
: Enter commit message. Lines beginning with 'HG:' are
removed.
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2008-12-02 11:54:13 -05:00 |
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Guruprasad Anada
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b88df9bdc3
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Bug fixes for compare, Group and filter tools.
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2008-12-02 11:41:25 -05:00 |
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Greg Von Kuster
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c3e009142a
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merging from central
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2008-12-02 10:55:17 -05:00 |
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Greg Von Kuster
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ffa719a9ab
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Call set_size() before set_peek() on datasets, changes to set_peek() to not read entire files for some datatypes.
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2008-12-02 10:50:54 -05:00 |
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Daniel Blankenberg
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52e1d4686d
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Merging heads
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2008-11-24 11:20:18 -05:00 |
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Daniel Blankenberg
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7e0479473c
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Update GMAJ to latest beta.
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2008-11-24 11:19:48 -05:00 |
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Greg Von Kuster
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eeeab78b32
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Fixes for accessing libraries from the analysis view.
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2008-11-21 09:21:39 -05:00 |
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Wen-Yu Chung
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29f1495a2c
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Fix fasta tools bugs. The tool is able to handle lines with tabs only.
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2008-11-18 11:31:46 -05:00 |
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Wen-Yu Chung
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2ee04d24af
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(no commit message)
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2008-11-18 11:23:09 -05:00 |
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Wen-Yu Chung
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8733106b28
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Update poisson test tool for R warnings.
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2008-11-14 13:22:04 -05:00 |
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Wen-Yu Chung
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87a68ea595
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update poisson test tool for R warnings.
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2008-11-14 13:21:02 -05:00 |
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Greg Von Kuster
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32b4b77f74
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Missed translating the primaryTable data type from UCSC in my last commit.
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2008-11-13 15:17:42 -05:00 |
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Greg Von Kuster
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edf88dd149
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merging from central
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2008-11-13 15:17:39 -05:00 |
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Greg Von Kuster
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f6c9b706a2
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merging from central
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2008-11-13 15:02:30 -05:00 |
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Greg Von Kuster
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c454370ff7
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Add a new <data_type_translation> tag set to data_source tools that enable the translation of an unsupported data type to a supported one in Galaxy ( currently only used in UCSC ). Also some tweaks to the jobs reports.
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2008-11-13 14:56:33 -05:00 |
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Greg Von Kuster
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124a811f4b
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merging from central
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2008-11-10 14:23:38 -05:00 |
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Greg Von Kuster
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5331dee076
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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.
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2008-11-10 14:22:01 -05:00 |
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Daniel Blankenberg
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374936f7aa
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Merging heads
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2008-10-31 14:53:20 -04:00 |
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Daniel Blankenberg
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ad21aee2a0
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Small typo in one of the encode import tools.
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2008-10-31 14:52:41 -04:00 |
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Daniel Blankenberg
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ec188a33cb
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Resolve a bunch of merge conflicts.
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2008-10-31 11:28:09 -04:00 |
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Daniel Blankenberg
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35168f40a5
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Fixes for dealing with UnvalidatedValues (i.e. when running workflows) and also when passing None trans to dynamic options.
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2008-10-31 11:00:50 -04:00 |
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Greg Von Kuster
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5be8fefaf5
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Migrate central repo to alchemy 4.
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2008-10-30 16:17:46 -04:00 |
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Guruprasad Anada
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e35fa87fbd
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Added new functional tests to all gops tools using BitsetSafeReaderWrapper. These tests check cases where datasets have the chr,start and end values in non-standard columns.
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2008-10-30 16:03:11 -04:00 |
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Daniel Blankenberg
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1de07ed5c1
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Merging heads
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2008-10-30 14:48:01 -04:00 |
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Daniel Blankenberg
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aeaf3c8978
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Annotation profiler: Better handling of the case where regions extend beyond known chromosome boundaries.
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2008-10-30 14:46:57 -04:00 |
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