Mercurial > repos > matt-shirley > sra_fetch

changeset 4:8ce70ee5f335 draft

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Updated wrapper script. First version that should work properly.
author Matthew Shirley <mdshw5@gmail.com>
date Wed, 14 Nov 2012 13:13:32 -0500
parents 01dec8611542
children f74bbb22bf62
files sra_fetch.xml
diffstat 1 files changed, 14 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/sra_fetch.xml	Wed Nov 14 13:05:14 2012 -0500
+++ b/sra_fetch.xml	Wed Nov 14 13:13:32 2012 -0500
@@ -1,2 +1,16 @@
 <tool id="sra_fetch" name="Fetch SRA" version="1.0.0">
+  <description> by accession from NCBI SRA.</description>
+  <command interpreter="python">sra_fetch.py $accession > $output</command>
+  <inputs>
+    <param name="accession" size="13" type="text" value="SRR000001" label="SRA run accession"/>
+  </inputs>
+  <outputs>
+    <data format="sra" name="output"/>
+  </outputs>
+  <requirements>
+    <requirement type="python">sra_fetch.py</requirement>
+  </requirements>
+  <help>
+    This tool fetches SRA archives from NCBI over FTP using the python ftplib.
+  </help>
 </tool>