diff BigWig.py @ 0:3e0c61b52a06 draft

planemo upload for repository https://github.com/Yating-L/hub-archive-creator commit a77635b40ebd29baafb3bea57f8cbfb3f252e3b0-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/BigWig.py	Mon Oct 31 16:36:25 2016 -0400
@@ -0,0 +1,62 @@
+#!/usr/bin/python
+
+import os
+import shutil
+
+# Internal dependencies
+from Datatype import Datatype
+from Track import Track
+from TrackDb import TrackDb
+
+
+class BigWig( Datatype ):
+    def __init__(self, input_bigwig_path, data_bigwig):
+        super(BigWig, self).__init__()
+
+        self.track = None
+
+        self.input_bigwig_path = input_bigwig_path
+        self.name_bigwig = data_bigwig["name"]
+        self.priority = data_bigwig["order_index"]
+        self.track_color = data_bigwig["track_color"]
+        # TODO: Think about how to avoid repetition of the group_name everywhere
+        self.group_name = data_bigwig["group_name"]
+
+        #print "Creating TrackHub BigWig from (falsePath: %s; name: %s)" % ( self.input_bigwig_path, self.name_bigwig )
+
+        trackName = "".join( ( self.name_bigwig, ".bigwig" ) )
+
+        myBigWigFilePath = os.path.join(self.myTrackFolderPath, trackName)
+        shutil.copy(self.input_bigwig_path, myBigWigFilePath)
+
+        # Create the Track Object
+        self.createTrack(file_path=trackName,
+                         track_name=trackName,
+                         long_label=self.name_bigwig,
+                         track_type='bigWig', visibility='full',
+                         priority=self.priority,
+                         track_file=myBigWigFilePath,
+                         track_color=self.track_color,
+                         group_name=self.group_name)
+
+        # dataURL = "tracks/%s" % trackName
+        #
+        # # Return the BigBed track
+        #
+        # trackDb = TrackDb(
+        #     trackName=trackName,
+        #     longLabel=self.name_bigwig,
+        #     shortLabel=self.getShortName( self.name_bigwig ),
+        #     trackDataURL=dataURL,
+        #     trackType='bigWig',
+        #     visibility='full',
+        #     priority=self.priority,
+        # )
+        #
+        # self.track = Track(
+        #     trackFile=myBigWigFilePath,
+        #     trackDb=trackDb,
+        # )
+
+        print("- BigWig %s created" % self.name_bigwig)
+        #print("- %s created in %s" % (trackName, myBigWigFilePath))