Mercurial > repos > sanbi-uwc > build_ctb_gene

diff build_ctb_gene.py @ 47:515fdc4654a5 draft

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planemo upload for repository https://github.com/SANBI-SA/tools-sanbi-uwc.git commit 98d4308400f203c124e041692846267e1b22387e
author sanbi-uwc
date Tue, 28 Jun 2016 11:13:28 -0400
parents c41519f46131
children
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line diff
--- a/build_ctb_gene.py	Fri Jun 17 09:15:37 2016 -0400
+++ b/build_ctb_gene.py	Tue Jun 28 11:13:28 2016 -0400
@@ -44,7 +44,7 @@
         self.neo4j_proc = None
 
     def build_ctb_gene(self):
-        cmdline_str = "goget goterms {}".format(self.args.input_file)
+        cmdline_str = "goget goterms {} {}".format(self.args.input_file, self.args.human_interactions)
         cmdline_str = self.newSplit(cmdline_str)
         try:
             check_call(cmdline_str)
@@ -123,6 +123,7 @@
     parser = argparse.ArgumentParser(description="Tool used to extract data about genes using locus_tags")
     parser.add_argument('--outputdir')
     parser.add_argument('--input_file')
+    parser.add_argument('--human_interactions')
     args = parser.parse_args()
 
     ctb_gene_runner = BuildCtbRunner(args)