# HG changeset patch
# User peterjc
# Date 1312291252 14400
# Node ID e88a3246520ee84ee189b02e03879c8bf72256c0
# Parent  0f159cf346c86ee38c7dc847e0263f59579ae1ec
Uploaded v0.0.3 which adds tool-data/blast2go.loc.sample example settings file

diff -r 0f159cf346c8 -r e88a3246520e tool-data/blast2go.loc.sample
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool-data/blast2go.loc.sample	Tue Aug 02 09:20:52 2011 -0400
@@ -0,0 +1,15 @@
+# This is a three column tab separated file to define the properties
+# file (settings) to be offered for Blast2GO for Pipelines (b2g4pipe).
+#
+# Column 1 - ID, string that Galaxy will save in its database
+# Column 2 - Human readable name, Galaxy will show this in the UI
+# Column 3 - Filename, Galaxy will use this when calling the tool
+#
+# Probably the most important setting in the properties file is the
+# Blast2GO database to use. Currently b2g4pipe v2.3.5 ships with an
+# old configuration so consult http://blast2go.org for the latest
+# public database they host in Spain. We also strongly recommend
+# configuring a local Blast2GO database.
+#
+Local_2011_May	Local database (May 2011)	/opt/b2g4pipe/Local_2011_May.properties
+Spain_2010_May	Database in Spain (May 2010)	/opt/b2g4pipe/Spain_2010_May.properties
diff -r 0f159cf346c8 -r e88a3246520e tools/ncbi_blast_plus/blast2go.txt
--- a/tools/ncbi_blast_plus/blast2go.txt	Tue Jun 07 16:29:28 2011 -0400
+++ b/tools/ncbi_blast_plus/blast2go.txt	Tue Aug 02 09:20:52 2011 -0400
@@ -55,8 +55,9 @@
 under /opt/b2g4pipe with the JAR file etc.
 
 You must tell Galaxy about these Blast2GO property files so that they can be
-offered to the user. Create the file tool-data/blast2go.loc under the Galaxy
-folder. This must be plain text, tab separated, with three columns:
+offered to the user. Copy file blast2go.loc.sample to tool-data/blast2go.loc
+under the Galaxy folder and edit this to match your installation. This must
+be plain text, tab separated, with three columns:
 
 (1) ID for the setup, e.g. Spain_2010_May
 (2) Description for the setup, e.g. Database in Spain (May 2010)
@@ -81,6 +82,7 @@
        - Reformats the XML to use old NCBI-style concatenated BLAST XML since
          b2g4pipe crashes with heap space error on with large files using
          current NCBI output.
+v0.0.3 - Include sample loc file, tool-data/blast2go.loc.sample
 
 
 Developers
@@ -92,7 +94,7 @@
 For making the "Galaxy Tool Shed" http://community.g2.bx.psu.edu/ tarball I use
 the following command from the Galaxy root folder:
 
-$ tar -czf blast2go.tar.gz tools/ncbi_blast_plus/blast2go.xml tools/ncbi_blast_plus/blast2go.py tools/ncbi_blast_plus/blast2go.txt
+$ tar -czf blast2go.tar.gz tools/ncbi_blast_plus/blast2go.xml tools/ncbi_blast_plus/blast2go.py tools/ncbi_blast_plus/blast2go.txt tool-data/blast2go.loc.sample
 
 Check this worked:
 
@@ -100,6 +102,7 @@
 tools/ncbi_blast_plus/blast2go.xml
 tools/ncbi_blast_plus/blast2go.py
 tools/ncbi_blast_plus/blast2go.txt
+tool-data/blast2go.loc.sample
 
 
 Licence (MIT/BSD style)
diff -r 0f159cf346c8 -r e88a3246520e tools/ncbi_blast_plus/blast2go.xml
--- a/tools/ncbi_blast_plus/blast2go.xml	Tue Jun 07 16:29:28 2011 -0400
+++ b/tools/ncbi_blast_plus/blast2go.xml	Tue Aug 02 09:20:52 2011 -0400
@@ -1,4 +1,4 @@
-<tool id="blast2go" name="Blast2GO" version="0.0.2">
+<tool id="blast2go" name="Blast2GO" version="0.0.3">
     <description>Maps BLAST results to GO annotation terms</description>
     <command interpreter="python">
         blast2go.py $xml ${prop.fields.path} $tab