# HG changeset patch
# User yating-l
# Date 1469116535 14400
# Node ID e177d8e95666d6d0dbf0f51a506ae2c84efd3971
# Parent  b8726891e16fd4f6c2f503f16e86e8f4ebe50874
planemo upload commit 0ba99fe246099cc1827f71f2722d253becee64ba

diff -r b8726891e16f -r e177d8e95666 readme.md
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/readme.md	Thu Jul 21 11:55:35 2016 -0400
@@ -0,0 +1,46 @@
+Galaxy wrapper for SNAP
+========================
+
+This wrapper is copyright 2016-2017 by Yating Liu
+
+This is a wrapper for the gene prediction tool SNAP. SNAP is a general purpose gene finding program suitable for both eukaryotic and prokaryotic genomes. SNAP is an acroynm for Semi-HMM-based Nucleic Acid
+Parser.
+
+Reference
+----------------------
+
+    Korf I. Gene finding in novel Genomes. BMC Bioinformatics 2004, 5:59
+
+Installation
+-----------------------
+
+To install SNAP, please download SNAP from
+
+http://korflab.ucdavis.edu/Software/snap-2013-11-29.tar.gz
+
+and follow the installation instractions. The software is routinely compiled and tested on Mac OS X. It should compile
+fine on any Linux/Unix type operating systems.
+The default compiler is gcc. If you have gcc installed, the easiest is to just compile as:
+```
+  make
+```
+
+The ZOE environment variable is used by SNAP to find the HMM files. Set this
+to the directory containing this file. For example, if you unpackaged the tar-ball in /usr/local/snap, set the ZOE environment variable to /usr/local/snap
+
+```
+    setenv ZOE /usr/local/snap # csh, tcsh, etc
+```
+  or
+```
+    export ZOE=/usr/local/snap # sh, bash, etc
+```
+To install the wrapper copy the snap folder in the galaxy tools and modify the $GALAXY_ROOT/config/tool_conf.xml file to make the tool available to Galaxy. For example:
+```
+<tool file="galaxy/tools/myTools/snap/snap.xml" />
+```
+
+
+
+
+
diff -r b8726891e16f -r e177d8e95666 snap
Binary file snap has changed
diff -r b8726891e16f -r e177d8e95666 snap.xml
--- a/snap.xml	Thu Jul 21 11:51:11 2016 -0400
+++ b/snap.xml	Thu Jul 21 11:55:35 2016 -0400
@@ -1,4 +1,4 @@
-<tool id="snap" name="Semi-HMM-based Nucleic Acid Parser (SNAP)" version="2006-07-28">
+<tool id="snap" name="Semi-HMM-based Nucleic Acid Parser (SNAP)" version="0.1.0">
     <requirements>
     </requirements>
     <stdio>
diff -r b8726891e16f -r e177d8e95666 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jul 21 11:51:11 2016 -0400
+++ b/tool_dependencies.xml	Thu Jul 21 11:55:35 2016 -0400
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="snap" version="2006-07-28">
-        <install version="1.0">
+    <package name="snap" version="0.1.0">
+        <install version="0.1.0">
             <actions>
                 <action type="download_by_url">http://korflab.ucdavis.edu/Software/snap-2013-11-29.tar.gz</action>
                 <action type="shell_command">make</action>