1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/6ec2d7f4a64d/
changeset: 6ec2d7f4a64d
user: dannon
date: 2011-11-10 20:56:35
summary: Fix for slug check flag pointed out by Andrew Warren.
affected #: 1 file
diff -r 429f6b869c71b2aa2df8d6b61b6e12cd22fc8a4d -r 6ec2d7f4a64dcf6a1c49415bd8f40c8d4ca907c5 lib/galaxy/web/controllers/workflow.py
--- a/lib/galaxy/web/controllers/workflow.py
+++ b/lib/galaxy/web/controllers/workflow.py
@@ -149,7 +149,8 @@
# Legacy issue: all shared workflows must have slugs.
slug_set = False
for workflow_assoc in shared_by_others:
- slug_set = self.create_item_slug( trans.sa_session, workflow_assoc.stored_workflow )
+ if self.create_item_slug( trans.sa_session, workflow_assoc.stored_workflow ):
+ slug_set = True
if slug_set:
trans.sa_session.flush()
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/429f6b869c71/
changeset: 429f6b869c71
user: natefoo
date: 2011-11-10 18:49:44
summary: Fix an exception class that doesn't exist. Thanks Oleksandr Moskalenko.
affected #: 1 file
diff -r d9408bcb3cf4bcb81e9dac4ddeda74cbc164e123 -r 429f6b869c71b2aa2df8d6b61b6e12cd22fc8a4d lib/galaxy/util/__init__.py
--- a/lib/galaxy/util/__init__.py
+++ b/lib/galaxy/util/__init__.py
@@ -607,7 +607,7 @@
log.error( "The server didn't accept the username/password combination: %s" % e )
s.close()
raise
- except smtplib.SMTPError, e:
+ except smtplib.SMTPException, e:
log.error( "No suitable authentication method was found: %s" % e )
s.close()
raise
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/3565ae97160f/
changeset: 3565ae97160f
user: dan
date: 2011-11-10 17:54:50
summary: Update GeneTrack help.
affected #: 2 files
diff -r b62855bbd52e68b7ecac586e3bc329c7e472bc47 -r 3565ae97160f4a70b3910b54bcd98c0f4c7d1796 tools/genetrack/genetrack_indexer.xml
--- a/tools/genetrack/genetrack_indexer.xml
+++ b/tools/genetrack/genetrack_indexer.xml
@@ -49,10 +49,14 @@
When shifting the averaging process in GeneTrack is able correct for longer or shorter
than expected fragment sizes as long as the errors are reasonably random.
+See http://genetrack.bx.psu.edu/ for more information on GeneTrack.
+
------
**Citation**
+For the underlying tool, please cite `Albert I, Wachi S, Jiang C, Pugh BF. GeneTrack--a genomic data processing and visualization framework. Bioinformatics. 2008 May 15;24(10):1305-6. <http://www.ncbi.nlm.nih.gov/pubmed/18388141>`_
+
If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.*
</help>
diff -r b62855bbd52e68b7ecac586e3bc329c7e472bc47 -r 3565ae97160f4a70b3910b54bcd98c0f4c7d1796 tools/genetrack/genetrack_peak_prediction.xml
--- a/tools/genetrack/genetrack_peak_prediction.xml
+++ b/tools/genetrack/genetrack_peak_prediction.xml
@@ -54,10 +54,14 @@
- **Prediction method** the function used to average nearby values
+See http://genetrack.bx.psu.edu/ for more information on GeneTrack.
+
------
**Citation**
+For the underlying tool, please cite `Albert I, Wachi S, Jiang C, Pugh BF. GeneTrack--a genomic data processing and visualization framework. Bioinformatics. 2008 May 15;24(10):1305-6. <http://www.ncbi.nlm.nih.gov/pubmed/18388141>`_
+
If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.*
</help>
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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