Mercurial > repos > mzeidler > virana2

diff vhom_regions.py @ 0:3ba5983012cf draft
Uploaded
author: mzeidler
date: Tue, 24 Sep 2013 10:19:40 -0400
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/vhom_regions.py	Tue Sep 24 10:19:40 2013 -0400
@@ -0,0 +1,45 @@
+from argparse import ArgumentParser
+import os
+from vhom import RegionRunner
+
+
+def printDir(directory):
+    rval=["<ul>"]
+    flist = os.listdir(directory)
+    
+    for entry in flist:
+        if(os.path.isdir(os.path.join(directory,entry))):
+             rval.append('<li>%s</li>'%entry)
+             rval.extend(printDir(os.path.join(directory,entry)))
+        else:
+            rval.append( '<li><a href="%s">%s</a></li>' % ( os.path.join(directory,entry), entry) )     
+    rval.append("</ul>")
+    return rval
+
+
+
+if __name__ == "__main__":
+    
+    
+    parser = ArgumentParser()
+    
+    a = parser.add_argument
+    a("-o","--html_file",dest="html_file")
+    a("-d","--directory",dest="directory")
+      
+    (options,args)= parser.parse_known_args()
+    
+    args.insert(0,"dummy")
+    try:
+        RegionRunner.run(argv=args)
+    except SystemExit:
+        f = open(options.html_file,'w')
+        rval = ["<html><head><title>Homologous groups and regions derived from hit files </title></head><body><p/>\n"]
+        rval.append('<div>This composite dataset is composed of the following files:<p/>')
+        directory= options.directory
+        rval.extend(printDir(directory))
+        
+        rval.append( '</body></html>' )
+    
+        f.write("\n".join( rval ))
+        f.close()