Mercurial > repos > yating-l > jbrowsearchivecreator

diff jbrowseArchiveCreator.py @ 31:127037c49bc8 draft

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planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 691e5366893905d30943a3cb8cdfb6341f0f5362-dirty
author yating-l
date Mon, 16 Oct 2017 18:03:58 -0400
parents 31a41ce128cc
children 7b955a58d8f2
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--- a/jbrowseArchiveCreator.py	Fri Oct 13 16:19:03 2017 -0400
+++ b/jbrowseArchiveCreator.py	Mon Oct 16 18:03:58 2017 -0400
@@ -40,6 +40,7 @@
     debug_mode = reader.getDebugMode()
     track_type = reader.getTrackType()
     #jbrowse_path = reader.getJBrowsePath()
+    apollo_path = reader.getApolloPath()
     apollo_host = reader.getApolloHost()
     apollo_user = reader.getApolloUser()
  
@@ -54,7 +55,7 @@
  
     # Create the Track Hub folder
     logging.info('#### JBrowseArchiveCreator: Creating the Track Hub folder ####\n')
-    trackHub = TrackHub(reference_genome, apollo_user, outputFile, extra_files_path, toolDirectory, track_type, apollo_host)
+    trackHub = TrackHub(reference_genome, apollo_user, outputFile, extra_files_path, toolDirectory, track_type, apollo_host, user_email) 
 
     # Create Ordered Dictionary to add the tracks in the tool form order
     logging.info('#### JBrowseArchiveCreator: Preparing track data ####\n')