Mercurial > repos > modencode-dcc > bamedit

diff bamedit.py @ 5:38367e8ee3b0 draft

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Uploaded
author modencode-dcc
date Mon, 21 Jan 2013 13:28:47 -0500
parents eb0d7fecbe64
children
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line diff
--- a/bamedit.py	Mon Jan 21 13:24:33 2013 -0500
+++ b/bamedit.py	Mon Jan 21 13:28:47 2013 -0500
@@ -21,7 +21,7 @@
 	if('input3' in options):
 		cmdline = "samtools merge  %s %s %s %s" % ( options['bamout'], options['input1'], options['input2'], options['input3'] )
     elif (options['action'] == "split"):
-	cmdline = "bash %s/split.sh %s %s %s" % ( script__path, options['bamout'], options['bamout2'], options['input1'] )
+	cmdline = "bash %s/split.sh %s %s %s" % ( script_path, options['bamout'], options['bamout2'], options['input1'] )
     elif (options['action'] == "pileup"):
 	cmdline = "perl %s/pileup.pl %s %s %s %s %s" % ( script_path, options['input1'], options['input2'], options['bamout'], options['bamname'], options['refname'] )
     elif (options['action'] == "filter"):