# HG changeset patch
# User jeremyjliu
# Date 1422507612 18000
# Node ID 2c918b3a7e8c2b57eecaa01493d7acd901330b41
# Parent  aa0d1b1850702a50ab746ca5119df972eee5279a
Uploaded

diff -r aa0d1b185070 -r 2c918b3a7e8c data_manager/data_manager_fetch_motifs.xml
--- a/data_manager/data_manager_fetch_motifs.xml	Wed Jan 28 23:39:30 2015 -0500
+++ b/data_manager/data_manager_fetch_motifs.xml	Thu Jan 29 00:00:12 2015 -0500
@@ -15,6 +15,11 @@
     <help>
         **What it does**
 
-        UPDATE THIS
+        Fetches a reference motif database (bgz and tbi files) from Harvard
+        CBMI source and populates the "motif_databases" data table.
+
+        **TO DO**
+        Ability to add motif database from local file, as the last step in 
+        a MEME pipeline.
     </help>
 </tool>
diff -r aa0d1b185070 -r 2c918b3a7e8c tool-data/motif_databases.loc.sample
--- a/tool-data/motif_databases.loc.sample	Wed Jan 28 23:39:30 2015 -0500
+++ b/tool-data/motif_databases.loc.sample	Thu Jan 29 00:00:12 2015 -0500
@@ -1,7 +1,9 @@
-#
-#<value>		<display_name>	<file_path>
+# This file lists the locations and values of all the motif databases bgz
+# and tbi files. This file has the format (white space characters are TAB
+# characters)
+# <value>		<display_name>	<file_path>
 #
-#So, motif_databases.loc could look something like this:
+# So, motif_databases.loc could look something like this:
 #
-#test	  Test Pouya Subset (hg19)		  /<path_to_galaxy>/tool-data/motifs/pouya_test_motifs.bed.bgz
-#
+# test_bgz	  Test Pouya Subset (hg19) BGZ	  /<path_to_galaxy>/tool-data/motifs/pouya_test_motifs.bed.bgz
+# test_tbi    Test Pouya Subset (hg19) TBI    /<path_to_galaxy>/tool-data/motifs/pouya_test_motifs.bed.bgz.tbi
diff -r aa0d1b185070 -r 2c918b3a7e8c tool_data_table_conf.xml.sample
--- a/tool_data_table_conf.xml.sample	Wed Jan 28 23:39:30 2015 -0500
+++ b/tool_data_table_conf.xml.sample	Thu Jan 29 00:00:12 2015 -0500
@@ -1,5 +1,5 @@
 <tables>
-    <!-- Locations of all fasta files under genome directory -->
+    <!-- Locations of all motif database files under genome directory -->
     <table name="motif_databases" comment_char="#">
         <columns>value, name, path</columns>
         <file path="tool-data/motif_databases.loc" />