Mercurial > repos > rnateam > blockclust

diff tool_dependencies.xml @ 7:e6f49ee3509c draft

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Uploaded
author rnateam
date Mon, 21 Jul 2014 09:19:13 -0400
parents a50bd507edfe
children c1cc480c53da
line wrap: on
line diff
--- a/tool_dependencies.xml	Wed Jul 09 13:01:56 2014 -0400
+++ b/tool_dependencies.xml	Mon Jul 21 09:19:13 2014 -0400
@@ -1,13 +1,13 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="samtools" version="0.1.19">
-        <repository changeset_revision="6b6b5498d9a2" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="279806044d60" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="R_3_0_1" version="3.0.1">
         <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="eden" version="1.1">
-        <repository changeset_revision="532625813f2e" name="package_eden_1_1" owner="rnateam" toolshed="https://toolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="8087eef83c35" name="package_eden_1_1" owner="rnateam" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
     <package name="mcl" version="12.135">
         <repository changeset_revision="9f59d1a59999" name="package_mcl_12_135" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
@@ -72,21 +72,21 @@
                 </action>
                 <action type="make_directory">$INSTALL_DIR/data/annotations</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/dm3.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz dm3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz dm3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/hg19.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz hg19.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz hg19.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/mm10.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz mm10.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz mm10.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/panTro4.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz panTro4.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz panTro4.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/rheMac3.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz rheMac3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz rheMac3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/celWS235.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz celWS235.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz celWS235.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/tair10.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz tair10.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="shell_command">tar xfvz tair10.tar.gz -C $INSTALL_DIR/data/annotations/</action>
                 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/models.tar.gz</action>
-                <action type="shell_command">cd ..; tar xfvz models.tar.gz -C $INSTALL_DIR/data/</action>
+                <action type="shell_command">tar xfvz models.tar.gz -C $INSTALL_DIR/data/</action>
                 <action type="set_environment">
                     <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                     <environment_variable action="set_to" name="BLOCKCLUST_DATA_PATH">$INSTALL_DIR/data</environment_variable>