Mercurial > repos > rmarenco > hubarchivecreator

changeset 14:cbd8982c9f51 draft

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planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 38f01a73fea83321618501978a3a505b5e8ab527
author rmarenco
date Mon, 15 Aug 2016 19:19:32 -0400
parents 25809f699cb3
children 2a45cd656e8e
files hubArchiveCreator.xml tool_dependencies.xml
diffstat 2 files changed, 27 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/hubArchiveCreator.xml	Thu Aug 11 19:02:29 2016 -0400
+++ b/hubArchiveCreator.xml	Mon Aug 15 19:19:32 2016 -0400
@@ -9,6 +9,7 @@
         <requirement type="package" version="0.0.1">gff3ToGenePred</requirement>
         <requirement type="package" version="0.0.1">gtfToGenePred</requirement>
         <requirement type="package" version="0.0.1">genePredToBed</requirement>
+        <requirement type="package" version="0.0.1">genePredToBigGenePred</requirement>
         <requirement type="package" version="1.2">samtools</requirement>
         <!-- Conda dependencies -->
         <requirement type="package" version="332">ucsc-bedtobigbed</requirement>
--- a/tool_dependencies.xml	Thu Aug 11 19:02:29 2016 -0400
+++ b/tool_dependencies.xml	Mon Aug 15 19:19:32 2016 -0400
@@ -8,6 +8,7 @@
         - gff3ToGenePred
         - gtfToGenePred
         - genePredToBed
+        - genePredToBigGenePred
         - faToTwoBit
         - samtools
     -->
@@ -79,4 +80,29 @@
         </install>
         <readme>The tools downloaded by this dependency definition are free for academic use.</readme>
     </package>
+
+    http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/genePredToBigGenePred
+
+    <!-- Package genePredToBigGenePred -->
+    <package name="genePredToBigGenePred" version="0.0.1">
+        <install version="1.0">
+            <actions>
+                <action target_directory="bin" type="download_binary">
+                    <url_template os="darwin">
+                        http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.${architecture}/genePredToBigGenePred
+                    </url_template>
+                    <url_template os="linux">
+                        http://hgdownload.cse.ucsc.edu/admin/exe/linux.${architecture}/genePredToBigGenePred
+                    </url_template>
+                </action>
+                <action type="chmod">
+                    <file mode="750">$INSTALL_DIR/bin/genePredToBigGenePred</file>
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>The tools downloaded by this dependency definition are free for academic use.</readme>
+    </package>
 </tool_dependency>