install hisat2 and sailfish on Main

galaxyproject · Dec 21, 2015 · c18f04b · c18f04b
1 parent b7b3ff6
commit c18f04b
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diff --git a/files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml b/files/galaxy/usegalaxy.org/var/integrated_tool_panel.xml
@@ -169,6 +169,8 @@
         <label id="ab_solid" text="AB-SOLiD" version="" />
     </section>
     <section id="ngs-rna-tools" name="NGS: RNA Analysis" version="">
+        <tool id="toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/1.0.0" />
+        <tool id="toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.7.6.0" />
         <tool id="toolshed.g2.bx.psu.edu/repos/iuc/stringtie/stringtie/1.1.0" />
         <tool id="toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.3" />
         <tool id="toolshed.g2.bx.psu.edu/repos/devteam/cuffdiff/cuffdiff/2.2.1.2" />

diff --git a/files/galaxy/usegalaxy.org/var/shed_tool_conf.xml b/files/galaxy/usegalaxy.org/var/shed_tool_conf.xml
@@ -4420,4 +4420,26 @@
     </tool>
 </section>
 
+<section id="ngs-rna-tools" name="NGS: RNA Analysis" version="">
+  <tool file="toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/20eab032389f/sailfish/sailfish.xml" guid="toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.7.6.0">
+      <tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
+        <repository_name>sailfish</repository_name>
+        <repository_owner>bgruening</repository_owner>
+        <installed_changeset_revision>20eab032389f</installed_changeset_revision>
+        <id>toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/sailfish/0.7.6.0</id>
+        <version>0.7.6.0</version>
+    </tool>
+</section>
+
+<section id="ngs-rna-tools" name="NGS: RNA Analysis" version="">
+  <tool file="toolshed.g2.bx.psu.edu/repos/iuc/hisat2/6d4d39720545/hisat2/hisat2.xml" guid="toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/1.0.0">
+      <tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
+        <repository_name>hisat2</repository_name>
+        <repository_owner>iuc</repository_owner>
+        <installed_changeset_revision>6d4d39720545</installed_changeset_revision>
+        <id>toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/1.0.0</id>
+        <version>1.0.0</version>
+    </tool>
+</section>
+
 </toolbox>
diff --git a/files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml b/files/galaxy/usegalaxy.org/var/shed_tool_data_table_conf.xml
@@ -360,4 +360,24 @@
             <installed_changeset_revision>99684adf84de</installed_changeset_revision>
             </tool_shed_repository>
     </table>
+<table comment_char="#" name="sailfish_indexes">
+        <columns>value, name, path</columns>
+        <file path="/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/bgruening/sailfish/20eab032389f/sailfish_indexes.loc" />
+        <tool_shed_repository>
+            <tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
+            <repository_name>sailfish</repository_name>
+            <repository_owner>bgruening</repository_owner>
+            <installed_changeset_revision>20eab032389f</installed_changeset_revision>
+            </tool_shed_repository>
+    </table>
+<table comment_char="#" name="hisat2_indexes">
+        <columns>value, dbkey, name, path</columns>
+        <file path="/galaxy-repl/main/tool_data/toolshed.g2.bx.psu.edu/repos/iuc/hisat2/6d4d39720545/hisat2_indexes.loc" />
+        <tool_shed_repository>
+            <tool_shed>toolshed.g2.bx.psu.edu</tool_shed>
+            <repository_name>hisat2</repository_name>
+            <repository_owner>iuc</repository_owner>
+            <installed_changeset_revision>6d4d39720545</installed_changeset_revision>
+            </tool_shed_repository>
+    </table>
 </tables>