Mercurial > repos > vimalkumarvelayudhan > riboplot

changeset 34:3c6ce517b9f2

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Testing whl bundle install
author Vimalkumar Velayudhan <vimalkumarvelayudhan@gmail.com>
date Tue, 01 Dec 2015 21:05:55 +0000
parents 461285cb3b6a
children 34b33b5ae288
files README.rst ribocount.xml riboplot.xml tool_dependencies.xml
diffstat 4 files changed, 26 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/README.rst	Fri Oct 16 16:15:05 2015 +0100
+++ b/README.rst	Tue Dec 01 21:05:55 2015 +0000
@@ -16,7 +16,7 @@
 
 Documentation: http://pythonhosted.org/riboplot
 
-Repository: https://github.com/vimalkumarvelayudhan/riboplot
+Repository: https://github.com/vimalkvn/riboplot
 
 
 .. note::
--- a/ribocount.xml	Fri Oct 16 16:15:05 2015 +0100
+++ b/ribocount.xml	Tue Dec 01 21:05:55 2015 +0000
@@ -1,8 +1,8 @@
-<tool id="ribocount" name="ribocount" version="0.2.0">
+<tool id="ribocount" name="ribocount" version="0.2.5">
     <description>Get read counts for all transcripts in an alignment (BAM)
     </description>
     <requirements>
-        <requirement type="package" version="0.2.1">riboplot</requirement>
+        <requirement type="package" version="0.2.5">riboplot</requirement>
     </requirements>
     <stdio>
         <exit_code range="1:"  level="fatal" description="Error" />
--- a/riboplot.xml	Fri Oct 16 16:15:05 2015 +0100
+++ b/riboplot.xml	Tue Dec 01 21:05:55 2015 +0000
@@ -1,8 +1,8 @@
-<tool id="riboplot" name="riboplot" version="0.2.0">
+<tool id="riboplot" name="riboplot" version="0.2.5">
     <description>Plot and output read counts for a single transcript in an alignment (BAM)
     </description>
     <requirements>
-        <requirement type="package" version="0.2.1">riboplot</requirement>
+        <requirement type="package" version="0.2.5">riboplot</requirement>
     </requirements>
     <stdio>
         <exit_code range="1:"  level="fatal" description="Error" />
--- a/tool_dependencies.xml	Fri Oct 16 16:15:05 2015 +0100
+++ b/tool_dependencies.xml	Tue Dec 01 21:05:55 2015 +0000
@@ -1,16 +1,34 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="riboplot" version="0.2.1">
+    <package name="riboplot" version="0.2.5">
         <install version="1.0">
+			<actions_group>
+            <actions os="linux" architecture="x86_64">
+                <action type="download_by_url">https://github.com/vimalkvn/riboplot/releases/download/0.2.5/riboplot-whl-bundle-0.2.5.tar.bz2</action>
+                <action type="move_directory_files">
+                    <source_directory>.</source_directory>
+                    <destination_directory>$INSTALL_DIR</destination_directory>
+                </action>
+            </actions>
             <actions>
-                <action type="setup_virtualenv">riboplot==0.2.1</action>
+                <action type="setup_virtualenv">--no-index 
+				--find-links=$INSTALL_DIR
+				matplotlib<=1.4.3
+				pysam<=0.8.3
+				riboplot==0.2.5</action>
                 <action type="set_environment">
                     <environment_variable action="set_to" name="RIBOPLOT_PATH">$INSTALL_DIR/venv/bin</environment_variable>
                 </action>
             </actions>
+        </actions_group>
         </install>
         <readme>
-           Note: RNA coverage requires bedtools installed.
+            Please check README.rst
         </readme>
     </package>
+    <package name="bedtools" version="2.24">
+        <repository changeset_revision="39b86c1e267d" name="package_bedtools_2_24"
+            owner="iuc" prior_installation_required="True"
+            toolshed="https://toolshed.g2.bx.psu.edu/" />
+    </package>
 </tool_dependency>