changeset 4:fced964b054a draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_twobit_builder commit ba82deebf385e4b2d4c55a43f34f0553478e6059
author iuc
date Fri, 09 Jun 2017 05:30:02 -0400
parents e697ffc1197e
children ced9f4a48806
files data_manager/twobit_builder.xml tool_data_table_conf.xml.sample
diffstat 2 files changed, 25 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- a/data_manager/twobit_builder.xml	Fri Jun 09 05:25:37 2017 -0400
+++ b/data_manager/twobit_builder.xml	Fri Jun 09 05:30:02 2017 -0400
@@ -5,10 +5,10 @@
     <description>builder</description>
     <command detect_errors="exit_code"><![CDATA[
         python '$__tool_directory__/twobit_builder.py'
-        '$out_file'
-        --fasta_filename '$all_fasta_source.fields.path'
-        --fasta_dbkey '$all_fasta_source.fields.dbkey'
-        --fasta_description '$all_fasta_source.fields.name'
+        '${out_file}'
+        --fasta_filename '${all_fasta_source.fields.path}'
+        --fasta_dbkey '${all_fasta_source.fields.dbkey}'
+        --fasta_description '${all_fasta_source.fields.name}'
     ]]></command>
     <inputs>
         <param name="all_fasta_source" type="select" label="Source FASTA Sequence">
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_data_table_conf.xml.sample	Fri Jun 09 05:30:02 2017 -0400
@@ -0,0 +1,21 @@
+<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc-->
+<tables>
+    <!-- Locations of all fasta files under genome directory -->
+    <table name="all_fasta" comment_char="#">
+        <columns>value, dbkey, name, path</columns>
+        <file path="tool-data/all_fasta.loc" />
+    </table>
+    <!-- Locations of 2bit sequence files for use in Lastz -->
+    <table name="lastz_seqs" comment_char="#">
+        <columns>value, name, path</columns>
+        <file path="tool-data/lastz_seqs.loc" />
+    </table>
+    <table name="twobit" comment_char="#">
+        <columns>value, path</columns>
+        <file path="tool-data/twobit.loc" />
+    </table>
+    <table name="alignseq_seq" comment_char="#">
+        <columns>type, value, path</columns>
+        <file path="tool-data/alignseq.loc" />
+    </table>
+</tables>