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Added information about the new sequence retreive tool on the feature admin page

spficklin 11 years ago
parent
commit
e384702833
1 changed files with 11 additions and 1 deletions
  1. 11 1
      tripal_feature/theme/tripal_feature_admin.tpl.php

+ 11 - 1
tripal_feature/theme/tripal_feature_admin.tpl.php

@@ -1,5 +1,6 @@
- <h3>Tripal Feature Administrative Tools Quick Links:</h3>
+ <h3>Tripal Feature Quick Links:</h3>
   <ul>
   <ul>
+   <li><a href="<?php print url("find/sequences") ?>">Retrieve Sequences</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/configuration") ?>">Feature Configuration</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/configuration") ?>">Feature Configuration</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/fasta_loader") ?>">Import a multi-FASTA file</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/fasta_loader") ?>">Import a multi-FASTA file</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/gff3_load") ?>">Import a GFF3 file</a></li>
    <li><a href="<?php print url("admin/tripal/tripal_feature/gff3_load") ?>">Import a GFF3 file</a></li>
@@ -79,6 +80,15 @@
   <p>Aside from data loading and feature page setup (as described in the Setup section above),
   <p>Aside from data loading and feature page setup (as described in the Setup section above),
   The Tripal feature module also provides the following functionality
   The Tripal feature module also provides the following functionality
   <ul>
   <ul>
+    <li><p><b>Retrieve Sequences</b>: A tool to <?php print l('retrieve sequences','find/sequences') ?> is provided 
+     which allows end-users to download sequences in FASTA format.  The site admin must first load sequence residues
+     as well as alignments.  The <?php  print l('organism_feature_count', 'admin/tripal/mviews') ?> and 
+     <?php print l('analysis_organism', 'admin/tripal/mviews') ?> materialized
+     views must be populated before using this tool.  Those views should be re-populated 
+     when new data is added.  If you use the <?php print l('jquery_update module', 'http://drupal.org/project/jquery_update') ?>
+     the tool may break.  You will need to update the jquery_update/replace/jquery.form.js file with <?php 
+     print l('a more recent version','https://raw.github.com/malsup/form/master/jquery.form.js') ?>. </p></li>
+    
      <li><p><b>Generic Feature URL</b>:  As described in the setup instructions above, it is often convenient to have a 
      <li><p><b>Generic Feature URL</b>:  As described in the setup instructions above, it is often convenient to have a 
      simple URL for each feature page. For example, http://www.mygenomesite.org/[feature], where [feature] is a 
      simple URL for each feature page. For example, http://www.mygenomesite.org/[feature], where [feature] is a 
      unique identifier for a feature page.  The
      unique identifier for a feature page.  The