diff cummeRbund_options.py @ 0:e462121e8269 draft

planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/cummerbund commit 5a4e0ca9992af3a6e5ed2b533f04bb82ce761e0b

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/cummeRbund_options.py	Mon Nov 09 11:27:38 2015 -0500
@@ -0,0 +1,11 @@
+import sqlite3
+
+def get_genes( database_path ):
+    conn = sqlite3.connect( database_path )
+    gene_ids = conn.execute( 'SELECT gene_short_name, gene_id FROM genes ORDER BY gene_short_name' )
+    return [ ( gene_id[ 0 ], gene_id[ 1 ], False ) for gene_id in gene_ids ]
+
+def get_samples( database_path ):
+    conn = sqlite3.connect( database_path )
+    samples = conn.execute( 'SELECT sample_name FROM samples ORDER BY sample_name' )
+    return [ ( sample[ 0 ], sample[ 0 ], False ) for sample in samples ]