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Added Cite to masthead

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This commit is contained in:
Anton Nekrutenko
2009-09-25 13:58:15 -04:00
parent a1465b5e33
commit 2e7fdf2bff
5 changed files with 15 additions and 8 deletions
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templates/base_panels.mako
+8 -3
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@@ -167,12 +167,17 @@
<div class="submenu">
<ul>
<li><a href="${app.config.get( "bugs_email", "mailto:galaxy-bugs@bx.psu.edu" )}">Email comments, bug reports, or suggestions</a></li>
<li><a target="_blank" href="${app.config.get( "wiki_url", "http://g2.trac.bx.psu.edu/" )}">Galaxy Wiki</a></li>
<li><a target="_blank" href="${app.config.get( "screencasts_url", "http://g2.trac.bx.psu.edu/wiki/ScreenCasts" )}">Video tutorials (screencasts)</a></li>
<li><a target="_blank" href="${app.config.get( "wiki_url", "http://bitbucket.org/galaxy/galaxy-central/wiki" )}">Galaxy Wiki</a></li>
<li><a target="_blank" href="${app.config.get( "screencasts_url", "http://galaxycast.org" )}">Video tutorials (screencasts)</a></li>
</ul>
</div>
</td>
<td class="tab">
<a target="_blank" href="${app.config.get( "citation_url", "http://bitbucket.org/galaxy/galaxy-central/wiki/Citations" )}">Cite</a>
</td>
<td class="tab">
<a>User</a>
<%
@@ -282,7 +287,7 @@
</head>
<body scroll="no" class="${self.body_class}">
<div id="everything" style="position: absolute; top: 0; left: 0; width: 100%; height: 100%; min-width: 600px;">
<div id="everything" style="position: absolute; top: 0; left: 0; width: 100%; height: 100%; min-width: 960px;">
## Background displays first
<div id="background"></div>
## Layer iframes over backgrounds
tools/fastx_toolkit/fastq_to_fasta.xml
+1 -1
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@@ -3,7 +3,7 @@
<command>gunzip -cf $input | fastq_to_fasta $SKIPN $RENAMESEQ -o $output -v </command>
<inputs>
<param format="fastqsolexa" name="input" type="data" label="FASTQ Library to convert" />
<param format="fastqsolexa,fastqsanger" name="input" type="data" label="FASTQ Library to convert" />
<param name="SKIPN" type="select" label="Discard sequences with unknown (N) bases ">
<option value="">yes</option>
tools/samtools/pileup_parser.xml
+2 -2
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@@ -1,5 +1,5 @@
<tool id="pileup_parser" name="Parse pileup">
<description>to find variants</description>
<tool id="pileup_parser" name="Filter pileup">
<description>on coverage and SNPs</description>
<command interpreter="perl">
#if $pileup_type.type_select == "six": #pileup_parser.pl $input "3" "5" "6" "4" $qv_cutoff $cvrg_cutoff $snps_only $interval "2" $out_file1
#elif $pileup_type.type_select == "ten": #pileup_parser.pl $input "3" "9" "10" "8" $qv_cutoff $cvrg_cutoff $snps_only $interval "2" $out_file1
tools/samtools/sam_pileup.xml
+2 -2
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@@ -1,5 +1,5 @@
<tool id="sam_pileup" name="SAM Pileup Format" version="1.0.0">
<description>generates the pileup format for a provided BAM file</description>
<tool id="sam_pileup" name="Generate pileup" version="1.0.0">
<description>from BAM dataset</description>
<command interpreter="python">
sam_pileup.py
--input1=$input1
universe_wsgi.ini.sample
+2
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@@ -102,9 +102,11 @@ static_style_dir = %(here)s/static/june_2007_style/blue
## Brand: appends "/[brand]" to the "Galaxy" text in the masthead
## wiki_url: replaces the default galaxy main wiki
## bugs_email: replaces the default galaxy bugs email list
##citation_url: point to a URL listing citations
#brand = Private local mirror
#wiki_url = /path/to/my/local/wiki
#bugs_email = mailto:galaxy-bugs@example.org
#citation_url = /path/to/my/citations
# ---- Logging and Debugging ------------------------------------------------