 Nicola Soranzo
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9b4de72ca6
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Fix all E722 errors and ignore E741
Introduced in flake8 3.5.0
Fix import order.
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2017-10-24 11:29:09 +01:00 |
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Nicola Soranzo
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21b44bf348
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Fix all E201 and E202 style errors
using the following command:
```
autopep8 -i -r --exclude $(sed -e 's|^|./|' -e 's|/$||' .ci/flake8_blacklist.txt | paste -sd,) --select E201,E202 .
```
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2017-08-17 11:35:39 +01:00 |
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Nicola Soranzo
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03a807e374
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Lint some tools
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2017-01-23 21:11:43 +00:00 |
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Nicola Soranzo
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1d17a29c79
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Fixes for pycodestyle 2.2.0
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2016-11-15 16:56:50 +00:00 |
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Nicola Soranzo
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11b4f3a60c
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Fix import order and Python3 compatibility for tools/
xref #1715
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2016-09-29 19:26:22 +01:00 |
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Nicola Soranzo
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8a43b2b492
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Python 3: use "as" instead of comma in except clause
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2016-05-17 23:53:16 +01:00 |
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Nicola Soranzo
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69cda48690
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Remove remaining references to galaxy.eggs . flake8 some files in tools/ .
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2015-10-26 19:29:13 +00:00 |
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Nicola Soranzo
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1830adfb30
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Fixes for @jmchilton and @dannon.
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2015-06-17 19:37:45 +01:00 |
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Nicola Soranzo
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3c40f32fa2
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PEP-8 and pylint fixes.
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2015-06-16 16:53:49 +01:00 |
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Nicola Soranzo
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341a6cf760
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Use requirements of type="package" instead of deprecated "binary".
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2015-05-15 12:43:15 +01:00 |
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Lance Parsons
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d0dbaa377d
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Made regex more specific
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2014-09-05 10:55:38 -04:00 |
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Lance Parsons
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94e2961e30
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Allow specification of complete filename of 2bit files in codingSnps.pl
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2014-09-04 16:02:54 -04:00 |
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Dave Bouvier
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b0efe4ddea
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Migrate tools from the distribution to the tool shed, including but not limited to samtools and fastx_toolkit tools.
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2013-09-26 10:05:00 -04:00 |
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Dave Bouvier
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b3df9b732b
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Make wrapper compatible with python 2.5.
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2013-01-23 12:32:05 -05:00 |
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Dave Bouvier
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3a52a92cc5
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Make wrapper compatible with python 2.5.
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2013-01-22 15:55:29 -05:00 |
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Richard Burhans
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8c892f4bf4
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updates to Phenotype Association tools from Belinda
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2012-11-20 11:42:13 -05:00 |
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Jeremy Goecks
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9a5679c37c
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Use mako template in tool help so that dynamic image paths can be used. Fixes #141
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2012-08-07 09:40:51 -04:00 |
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Richard Burhans
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c3765659ea
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changes to aaChanges interface
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2012-04-02 14:28:08 -04:00 |
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Richard Burhans
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77f391c6ae
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changes to aaChanges tool
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2012-03-22 13:19:31 -04:00 |
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Richard Burhans
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a3f8cb2efc
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python version of "phyloP interspecies conservation scores" tool
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2011-11-30 12:05:59 -05:00 |
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Richard Burhans
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5a16f62890
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changed output type for aaChanges (from tabular to interval)
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2011-09-26 15:59:52 -04:00 |
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Richard Burhans
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f762bd3780
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aaChanges tool: Added an option to keep the columns from the SNP dataset
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2011-09-21 16:50:18 -04:00 |
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Daniel Blankenberg
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378c5eeacd
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Tool help updates.
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2011-09-21 04:11:07 -04:00 |
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Richard Burhans
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557e7953f2
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Fixes to aaChanges tool
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2010-12-02 13:04:05 -05:00 |
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Nate Coraor
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e05f11bc73
|
Convert a bunch of binary requirement tags to package requirements, and change the sputnik tool to call 'sputnik' instead of 'bx-sputnik'.
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2010-10-07 16:23:57 -04:00 |
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Richard Burhans
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0cd1db87a2
|
Updates to help text for Human Genome Variation tools and formatHelp.html
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2010-09-28 12:38:52 -04:00 |
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Richard Burhans
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5acffa2403
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Updates to documentation for Human Genome Variation tools
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2010-09-24 06:04:06 -04:00 |
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Richard Burhans
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c4ef1f8b5b
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Initial checkin of Human Genome Variation tools
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2010-09-14 18:20:15 -04:00 |
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Greg Von Kuster
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35d0ac21c9
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Next rev of codingSnps tool.
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2010-03-24 14:14:58 -04:00 |
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Greg Von Kuster
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47463daa73
|
Add the add_scores tool.
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2010-03-23 15:43:58 -04:00 |
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Greg Von Kuster
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f129f97f27
|
Add the codingSnps tool.
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2010-03-23 13:53:21 -04:00 |
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Daniel Blankenberg
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4142fc75fe
|
Changing an 'and' to 'or' in SNP mutate codon tool error checking.
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2009-09-22 11:40:41 -04:00 |
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Daniel Blankenberg
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97297d4e3a
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More friendly error reporting for mutate SNP codon tool.
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2009-09-22 11:37:41 -04:00 |
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Daniel Blankenberg
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132376998d
|
Add a new tool, Mutate by SNP codon, which will take codon position and sequence information that is joined to SNP data and create a 'mutated codon'.
|
2009-09-15 12:04:14 -04:00 |
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