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arodri7  committed 70b5d8e

modified links for standard pipelines on welcome page

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  • Parent commits 0466ad9

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Files changed (2)

File static/welcome.html

 	    <table>
 	      <tbody><tr>
 		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
-		<td class="notice_table_name"><a href="http://dev.globusgenomics.org/u/arodri7/w/illumina-rna-seq-analysis" target="_top">Workflow for Illumina RNA-seq »</a></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/illumina-rna-seq-analysis" target="_top">Workflow for Illumina RNA-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">Provide information on differential gene expression between NGS samples including alleles and spliced transcripts. This analysis is for paired-end sequences. Includes QC, mapping to hg19 and expression of genes.</td>
 	    <table>
 	      <tbody><tr>
 		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
-		<td class="notice_table_name"><a href="http://dev.globusgenomics.org/u/arodri7/w/complete-exome-analysis-pipeline" target="_top">Workflow for Illumina Exome-seq »</a></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/complete-exome-analysis-pipeline" target="_top">Workflow for Illumina Exome-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">This analysis is an efficient strategy to selectively sequence the coding regions of the genome. The goal of this approach is to identify the functional variations in the exome regions. Analysis for paired-end sequences. Includes QC, mapping to hg19 and variants list.</td>
 	    <table>
 	      <tbody><tr>
 		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
-		<td class="notice_table_name"><a href="http://dev.globusgenomics.org/u/arodri7/w/illumina-chip-seq-analysis" target="_top">Workflow for Illumina ChIP-seq »</a></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/illumina-chip-seq-analysis" target="_top">Workflow for Illumina ChIP-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">ChIP-seq combines chromatin immunoprecipitation (ChIP) with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins. It can be used to map global binding sites precisely for any protein of interest. Analysis includes QC, mapping to hg19 and identification of peaks.</td>
             <table>
               <tbody><tr>
                 <td rowspan="2" class="notice_table notice_table_date">2013<br>Apr 06</td>
-                <td class="notice_table_name"><a href="http://dev.globusgenomics.org/tool_runner?tool_id=seattleseq_wrapper">SeattleSeq »</a></td>
+                <td class="notice_table_name"><a href="/tool_runner?tool_id=seattleseq_wrapper">SeattleSeq »</a></td>
               </tr>
               <tr>
                 <td class="notice_table_description"><a href="http://snp.gs.washington.edu/SeattleSeqAnnotation137/" target="_new">SeattleSeq</a> provides annotation of SNVs (single-nucleotide variations) and indels, both known and novel.</td>
 	    <table>
 	      <tbody><tr>
 		<td rowspan="2" class="notice_table notice_table_date">2013<br>Mar 01</td>
-		<td class="notice_table_name"><a href="http://dev.globusgenomics.org/tool_runner?tool_id=novoalign">Novoalign »</a></td>
+		<td class="notice_table_name"><a href="/tool_runner?tool_id=novoalign">Novoalign »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description"><a href="http://www.novocraft.com/main/index.php" target="_new">Novoalign</a> is a highly accurate program for mapping next-generation sequencing reads to a reference database.</td>
 	    <table>
 	      <tbody><tr>
 		<td rowspan="2" class="notice_table notice_table_date">2013<br>Mar 01</td>
-		<td class="notice_table_name"><a href="http://dev.globusgenomics.org/tool_runner?tool_id=freebayes">Freebayes »</a></td>
+		<td class="notice_table_name"><a href="/tool_runner?tool_id=freebayes">Freebayes »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description"><a href="http://bioinformatics.bc.edu/marthlab/FreeBayes" target="_new">FreeBayes</a> is a high-performance, flexible, and open-source Bayesian genetic variant detector.</td>

File static/welcome.html.sample

-<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
-  <head>
-    <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
-    <link rel="stylesheet" href="style/base.css" type="text/css" />
+<!-- saved from url=(0047)http://test.galaxycloud.org/static/welcome.html -->
+<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+    
+    <link rel="stylesheet" href="style/base.css" type="text/css">
     <style type="text/css">
+
+
       div.document {
          padding: 0 10px 0 10px; 
          text-align: center; 
       }
       td.logo_table_row {
          text-decoration:none;
-         color:#0066cc;
-         font-size:10px;
+         color:#666666;
+         font-size:13px;
          vertical-align: bottom;
          padding-bottom: 55px; 
          width:90px;
          padding-left: 90px;
       }
       div.notice_table {
+         padding-right:90px;
          padding-left:90px;
          margin-right: 45px;
       }
          background-position: 0% 83.6%;
       }
       td.notice_table_name {
-         font-size:18px;
+         font-size:22px;
          line-height: 22px;
          color:#0066cc;
+         padding-bottom:8px;
       }
       td.notice_table_description {
-         font-size:12px; 
-         line-height:16px; 
+         font-size:16px; 
+         line-height:1.5; 
          color:#333333;
       }
+
+      td.notice_table_date {
+         font-size:12px; 
+      }
+
       a:link {
          color: #0066cc;
       }
          text-decoration:underline;
       }
     </style>
- </head>
+ <style type="text/css"></style></head>
   <body style="margin: 0; padding: 0;">
     <div style="width: 100%; height: 100%;">
       <div class="unified-panel-header" unselectable="on"></div>
       <div class="document">
-	<br/>
+	<br>
+<!-- 	<div align="center">
+	  <table width="90%">
+	    <tbody><tr>
+	      <td><img class="topLogo" src="globusGenomics.png" alt="Globus Genomics Galaxy"></td>
+	      <td class="logo_table_row">system status</td>
+	      <td class="status"><div class="status_image" alt="Globus Genomics System Status"></div></td>
+	    </tr>
+	    <tr>
+	      </tr><tr>
+	    </tr>
+	  </tbody></table>
+	</div>
+ -->	
 	<div align="center">
 	  <table width="90%">
-	    <tr>
-	      <td><img class="topLogo" src="images/globusGenomics.png" alt="Globus Genomics Galaxy"/></td>
+	    <tbody><tr>
+	      <td><img class="topLogo" src="images/globusGenomics-2.png" alt="Globus Genomics Galaxy"></td>
 	      <td class="logo_table_row">system status</td>
-	      <td class="status"><div class="status_image" alt="Globus Genomics System Status"/></td>
+	      <td class="status"><div class="status_image" alt="Globus Genomics System Status"></div></td>
 	    </tr>
 	    <tr>
-	      <tr>
+	      </tr><tr>
 	    </tr>
-	  </table>
+	  </tbody></table>
 	</div>
-	<br/>
+	<br>
 
 	<div class="section_break">
-	  <hr class="section_break" width="100%"/>
+	  <hr class="section_break" width="100%">
 	</div>
 
 	<div>
 
 	  <div class="notice_table">
 	    <table>
-	      <tr>
-		<td rowspan="2" class="notice_table"><div class="notice_table_image"/></td>
-		<td class="notice_table_name"><a  href="http://test.galaxycloud.org/u/arodri7/w/rna-seq" target="_top">Workflow for Illumina RNA-seq &raquo;</a></td>
+	      <tbody><tr>
+		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/illumina-rna-seq-analysis" target="_top">Workflow for Illumina RNA-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">Provide information on differential gene expression between NGS samples including alleles and spliced transcripts. This analysis is for paired-end sequences. Includes QC, mapping to hg19 and expression of genes.</td>
 	      </tr>
-	    </table>
+	    </tbody></table>
 	  </div>
 	  <br><br>
 
 	  <div class="notice_table">
 	    <table>
-	      <tr>
-		<td rowspan="2" class="notice_table"><div class="notice_table_image" /></td>
-		<td class="notice_table_name"><a  href="http://test.galaxycloud.org/u/sulakhe/w/complete-exome-analysis-pipeline-for-single-fastq-imported-from-uploaded-file" target="_top">Workflow for Illumina Exome-seq &raquo;</a></td>
+	      <tbody><tr>
+		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/complete-exome-analysis-pipeline" target="_top">Workflow for Illumina Exome-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">This analysis is an efficient strategy to selectively sequence the coding regions of the genome. The goal of this approach is to identify the functional variations in the exome regions. Analysis for paired-end sequences. Includes QC, mapping to hg19 and variants list.</td>
 	      </tr>
-	    </table>
+	    </tbody></table>
 	  </div>
 	  <br><br>
 
 	  <div class="notice_table">
 	    <table>
-	      <tr>
-		<td rowspan="2" class="notice_table"><div class="notice_table_image"/></td>
-		<td class="notice_table_name"><a  href=" http://test.galaxycloud.org/u/arodri7/w/illumina-chip-seq-analysis" target="_top">Workflow for Illumina ChIP-seq &raquo;</a></td>
+	      <tbody><tr>
+		<td rowspan="2" class="notice_table"><div class="notice_table_image"></div></td>
+		<td class="notice_table_name"><a href="/u/arodri7/w/illumina-chip-seq-analysis" target="_top">Workflow for Illumina ChIP-seq »</a></td>
 	      </tr>
 	      <tr>
 		<td class="notice_table_description">ChIP-seq combines chromatin immunoprecipitation (ChIP) with massively parallel DNA sequencing to identify the binding sites of DNA-associated proteins. It can be used to map global binding sites precisely for any protein of interest. Analysis includes QC, mapping to hg19 and identification of peaks.</td>
 	      </tr>
-	    </table>
+	    </tbody></table>
 	  </div>
 	</div>
 	<br><br>
 
 	<div class="section_break">
-	  <hr class="section_break" width="100%"/>
+	  <hr class="section_break" width="100%">
 	</div>
 
 	<div>
 	  <p class="section_title">TOOL UPDATES</p>
 	  <br>
-
+          <div class="notice_table">
+            <table>
+              <tbody><tr>
+                <td rowspan="2" class="notice_table notice_table_date">2013<br>Apr 06</td>
+                <td class="notice_table_name"><a href="/tool_runner?tool_id=seattleseq_wrapper">SeattleSeq »</a></td>
+              </tr>
+              <tr>
+                <td class="notice_table_description"><a href="http://snp.gs.washington.edu/SeattleSeqAnnotation137/" target="_new">SeattleSeq</a> provides annotation of SNVs (single-nucleotide variations) and indels, both known and novel.</td>
+              </tr>
+            </tbody></table>
+          </div>
+	  <BR><BR>
 	  <div class="notice_table">
 	    <table>
-	      <tr>
-		<td rowspan="2" class="notice_table">2013<br>Mar 01</td>
-		<td class="notice_table_name">Novoalign &raquo;</td>
+	      <tbody><tr>
+		<td rowspan="2" class="notice_table notice_table_date">2013<br>Mar 01</td>
+		<td class="notice_table_name"><a href="/tool_runner?tool_id=novoalign">Novoalign »</a></td>
 	      </tr>
 	      <tr>
-		<td class="notice_table_description"><a  href="http://www.novocraft.com/main/index.php" target="_new">Novoalign</a> is a highly accurate program for mapping next-generation sequencing reads to a reference database.</td>
+		<td class="notice_table_description"><a href="http://www.novocraft.com/main/index.php" target="_new">Novoalign</a> is a highly accurate program for mapping next-generation sequencing reads to a reference database.</td>
 	      </tr>
-	    </table>
+	    </tbody></table>
 	  </div>
 	  <br><br>
 
 	  <div class="notice_table">
 	    <table>
-	      <tr>
-		<td rowspan="2" class="notice_table">2013<br>Mar 01</td>
-		<td class="notice_table_name">Freebayes &raquo;</td>
+	      <tbody><tr>
+		<td rowspan="2" class="notice_table notice_table_date">2013<br>Mar 01</td>
+		<td class="notice_table_name"><a href="/tool_runner?tool_id=freebayes">Freebayes »</a></td>
 	      </tr>
 	      <tr>
-		<td class="notice_table_description"><a  href="http://bioinformatics.bc.edu/marthlab/FreeBayes" target="_new">FreeBayes</a> is a high-performance, flexible, and open-source Bayesian genetic variant detector.</td>
+		<td class="notice_table_description"><a href="http://bioinformatics.bc.edu/marthlab/FreeBayes" target="_new">FreeBayes</a> is a high-performance, flexible, and open-source Bayesian genetic variant detector.</td>
 	      </tr>
-	    </table>
+	    </tbody></table>
 	  </div>
 	  <br><br>
 	</div>
 
 	<div class="final_break">
-	  <hr class="section_break" width="100%"/>
+	  <hr class="section_break" width="100%">
 	</div>
 	<div class="section" align="center">
 	  <table width="90%">
-	    <tr>
-	      <td><a href="http://ci.uchicago.edu" target="_new"><img src="images/CI_logo_nobg.png" height="100"/></a></td>
-	      <td><a href="http://www.uchicago.edu" target="_new"><img src="images/university-of-chicago-logo.png" height="100"/></a></td>
-	      <td><a href="http://www.anl.gov" target="_new"><img src="images/anl-logo_nobg.png" height="100"/></a></td>
-	      <td><a href="http://galaxyproject.org//" target="_new"><img src="images/galaxyLogoTrimmed.png" height="100"/></a></td>
-	      <td><a href="https://www.globusonline.org/" target="_new"><img src="images/globusOnline_logo_nobg.png" height="100"/></a></td>
+	    <tbody><tr>
+	      <td><a href="http://ci.uchicago.edu/" target="_new"><img src="images/CI_logo_nobg.png" height="100"></a></td>
+	      <td><a href="http://www.uchicago.edu/" target="_new"><img src="images/university-of-chicago-logo.png" height="100"></a></td>
+	      <td><a href="http://www.anl.gov/" target="_new"><img src="images/anl-logo_nobg.png" height="100"></a></td>
+	      <td><a href="http://galaxyproject.org//" target="_new"><img src="images/galaxyLogoTrimmed.png" height="100"></a></td>
+	      <td><a href="http://aws.amazon.com/" target="_new"><img src="images/AWS_Logo_PoweredBy_127px-gray.png" height="100" width="90"></a></td>
+	      <td><a href="https://www.globusonline.org/" target="_new"><img src="images/globusOnline_logo_nobg.png" height="100"></a></td>
 	    </tr>
-	  </table>
+	  </tbody></table>
 	  <br><br>
 	</div>
       </div>
     </div>
-  </body>
-</html>
+  
+
+</body></html>