1 new changeset in galaxy-central:
http://bitbucket.org/galaxy/galaxy-central/changeset/6e72905f5119/
changeset: r5126:6e72905f5119
user: dannon
date: 2011-02-25 00:21:46
summary: workflows: Will never collapse steps containing workflow parameters by default now.
affected #: 1 file (10 bytes)
--- a/templates/workflow/run.mako Thu Feb 24 18:08:15 2011 -0500
+++ b/templates/workflow/run.mako Thu Feb 24 18:21:46 2011 -0500
@@ -27,7 +27,7 @@
toggle_tool_body($(this));
});
// Collapse non-interactive run-workflow panels by default.
- $("div.toolFormBody:not(:has(select, textarea, input[type!=hidden]))").hide().parent().css('border-bottom-width', '0px');
+ $("div.toolFormBody:not(:has(select, textarea, input[type!=hidden], .wfpspan))").hide().parent().css('border-bottom-width', '0px');
$("#show_all_tool_body").click(function(){
$("div.toolFormTitle").each(function(){
show_tool_body($(this));
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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1 new changeset in galaxy-central:
http://bitbucket.org/galaxy/galaxy-central/changeset/fb51941391ed/
changeset: r5120:fb51941391ed
user: kanwei
date: 2011-02-24 21:07:46
summary: Fix BLAST+ test
affected #: 1 file (1 byte)
--- a/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Thu Feb 24 12:27:37 2011 -0500
+++ b/tools/ncbi_blast_plus/ncbi_tblastn_wrapper.xml Thu Feb 24 15:07:46 2011 -0500
@@ -1,7 +1,7 @@
<tool id="ncbi_tblastn_wrapper" name="NCBI BLAST+ tblastn" version="0.0.8"><description>Search translated nucleotide database with protein query sequence(s)</description><command interpreter="python">hide_stderr.py
-# The command is a Cheetah template which allows some Python based syntax.
+## The command is a Cheetah template which allows some Python based syntax.
## Lines starting hash hash are comments. Galaxy will turn newlines into spaces
tblastn
-query "$query"
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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1 new changeset in galaxy-central:
http://bitbucket.org/galaxy/galaxy-central/changeset/dd3c21ebfa4a/
changeset: r5119:dd3c21ebfa4a
user: kanwei
date: 2011-02-24 18:27:37
summary: Fix debugging output on BLASTX+ failure
affected #: 1 file (164 bytes)
--- a/tools/ncbi_blast_plus/hide_stderr.py Thu Feb 24 12:16:33 2011 -0500
+++ b/tools/ncbi_blast_plus/hide_stderr.py Thu Feb 24 12:27:37 2011 -0500
@@ -23,6 +23,13 @@
#Avoid using shell=True when we call subprocess to ensure if the Python
#script is killed, so too is the BLAST process.
try:
+ words = []
+ for w in sys.argv[1:]:
+ if " " in w:
+ words.append('"%s"' % w)
+ else:
+ words.append(w)
+ cmd = " ".join(words)
child = subprocess.Popen(sys.argv[1:],
stdout=subprocess.PIPE, stderr=subprocess.PIPE)
except Exception, err:
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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