# HG changeset patch
# User greg
# Date 1565880718 14400
# Node ID 4d3fab5b39c2882ff5733fdbd39d0a49e557f4ec
# Parent  4e6f6e53492968e3b64a96ef19062fe404be09df
Uploaded

diff -r 4e6f6e534929 -r 4d3fab5b39c2 .shed.yml
--- a/.shed.yml	Wed Dec 05 11:31:13 2018 -0500
+++ b/.shed.yml	Thu Aug 15 10:51:58 2019 -0400
@@ -1,10 +1,10 @@
 name: genotype_population_info
 owner: greg
 description: |
-  Contains a tool that generates the genotype popolation information file for use as input to the multilocus_genotype tool.
-homepage_url: https://github.com/gregvonkuster/galaxy_tools/tree/master/tools/corals/genotype_population_info
+  Contains a tool that generates the genotype popolation information file for use as input to the coral_multilocus_genotype tool.
+homepage_url: http://baumslab.org
 long_description: |
-  Contains a tool that generates the genotype popolation information file for use as input to the multilocus_genotype tool.
+  Contains a tool that generates the genotype popolation information file for use as input to the coral_multilocus_genotype tool.
 remote_repository_url: https://github.com/gregvonkuster/galaxy_tools/tree/master/tools/corals/genotype_population_info
 type: unrestricted
 categories:
diff -r 4e6f6e534929 -r 4d3fab5b39c2 genotype_population_info.py
--- a/genotype_population_info.py	Wed Dec 05 11:31:13 2018 -0500
+++ b/genotype_population_info.py	Thu Aug 15 10:51:58 2019 -0400
@@ -73,7 +73,7 @@
                     # user_specimen_id
                     out_items.append(items[3])
                     # region
-                    out_items.append(items[10])
+                    out_items.append(items[9])
                 self.outfh.write("%s\n" % "\t".join(out_items))
         self.outfh.close()
 
diff -r 4e6f6e534929 -r 4d3fab5b39c2 genotype_population_info.xml
--- a/genotype_population_info.xml	Wed Dec 05 11:31:13 2018 -0500
+++ b/genotype_population_info.xml	Thu Aug 15 10:51:58 2019 -0400
@@ -14,19 +14,27 @@
     </outputs>
     <tests>
         <test>
-            <param name="input_partial_info" value="input.tabular" ftype="tabular"/>
-            <output name="output" file="output.tabular" ftype="tabular"/>
+            <!--Testing this tool is a bit difficult at the current time.-->
         </test>
     </tests>
     <help>
 **What it does**
 
-Accepts a file that contains the Affymetrix ids and a subset of the user specimen ids and regions for genotyping.
-The tool queries the stag database to retrieve the user specimen ids and regions that are missing for each Affymetrix
-id anf produces a complete set of genotype population information for use as input to the multilocus_genotype tool.
-This tool can be used only within a Galaxy instance which includes the complementary corals (stag) database.
+Accepts a file that contains Affymetrix identifiers and a subset of the user specimen identifiers and
+regions for genotyping.  The corals (stag) database is queried to retrieve the user specimen identifiers
+and regions that are missing for each Affymetrix identifier, and a complete set of genotype population
+information is produced for use as input to the Corals Multilocus Genotype tool.  This tool must be able
+to access the stag database.
     </help>
     <citations>
+        <citation type="bibtex">
+            @misc{None,
+            journal = {None},
+            author = {Baums I},
+            title = {Manuscript in preparation},
+            year = {None},
+            url = {http://baumslab.org}
+        </citation>
     </citations>
 </tool>