2 new commits in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/be47a7f089f9/
Changeset: be47a7f089f9
Branch: stable
User: jgoecks
Date: 2013-06-28 21:26:27
Summary: Enhance multi-value select parsing to split on all whitespace; this fixes a bug that prevents multi-value selects from being used in workflows due to web browsers using \r\n for newline designation.
Affected #: 1 file
diff -r 8c663e656f64a60dac55979841947e78ce23a473 -r be47a7f089f91c4b72c0c5f89182a62589389e1f lib/galaxy/tools/parameters/basic.py
--- a/lib/galaxy/tools/parameters/basic.py
+++ b/lib/galaxy/tools/parameters/basic.py
@@ -703,7 +703,10 @@
value = None
else:
if not isinstance( value, list ):
- value = value.split( "\n" )
+ # Split on all whitespace. This not only provides flexibility
+ # in interpreting values but also is needed because many browsers
+ # use \r\n to separate lines.
+ value = value.split()
return UnvalidatedValue( value )
legal_values = self.get_legal_values( trans, context )
if isinstance( value, list ):
https://bitbucket.org/galaxy/galaxy-central/commits/019ad31c3c25/
Changeset: 019ad31c3c25
User: jgoecks
Date: 2013-06-28 21:28:01
Summary: Automated merge of stable branch.
Affected #: 1 file
diff -r b89b721a0b3db47cdeddef35f03ce4c2ffcb47b5 -r 019ad31c3c2502005846dadc5c0457bbb6f80712 lib/galaxy/tools/parameters/basic.py
--- a/lib/galaxy/tools/parameters/basic.py
+++ b/lib/galaxy/tools/parameters/basic.py
@@ -703,7 +703,10 @@
value = None
else:
if not isinstance( value, list ):
- value = value.split( "\n" )
+ # Split on all whitespace. This not only provides flexibility
+ # in interpreting values but also is needed because many browsers
+ # use \r\n to separate lines.
+ value = value.split()
return UnvalidatedValue( value )
legal_values = self.get_legal_values( trans, context )
if isinstance( value, list ):
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/commits/b89b721a0b3d/
Changeset: b89b721a0b3d
User: Adam Brenner
Date: 2013-06-27 22:50:57
Summary: Replaced "binary" with "package" for eXpress according to my listsrv report of not picking up the correct environmental variables.
http://dev.list.galaxyproject.org/Tool-Dependency-Check-for-eXpress-require…
Signed-off-by: Adam Brenner <aebrenne(a)uci.edu>
Affected #: 1 file
diff -r 4227472b7640e6689d13d428949be363b4bbc637 -r b89b721a0b3db47cdeddef35f03ce4c2ffcb47b5 tools/ngs_rna/express_wrapper.xml
--- a/tools/ngs_rna/express_wrapper.xml
+++ b/tools/ngs_rna/express_wrapper.xml
@@ -1,7 +1,7 @@
<tool id="express" name="eXpress" version="1.1.1"><description>Quantify the abundances of a set of target sequences from sampled subsequences</description><requirements>
- <requirement type="binary">eXpress</requirement>
+ <requirement type="package">eXpress</requirement></requirements><command>
express --no-update-check
@@ -122,4 +122,4 @@
- If you choose to use to calculate the covariance between targets and outputs, an other output would be : varcov.xprs.
</help>
-</tool>
\ No newline at end of file
+</tool>
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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