# HG changeset patch
# User fubar
# Date 1704783334 0
# Node ID 79f7265f90bdae7dac5519a60ed287e1bd6f0c69
# Parent  efc64d8f4b722fefcfd7facac46a4ab658af6189
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 79e81bef99f582680d9aa4eec88980c675f3fae9-dirty

diff -r efc64d8f4b72 -r 79f7265f90bd jbrowse2.py
--- a/jbrowse2.py	Tue Jan 09 05:24:48 2024 +0000
+++ b/jbrowse2.py	Tue Jan 09 06:55:34 2024 +0000
@@ -1163,7 +1163,7 @@
         with open(self.config_json_file, "r") as config_file:
             config_json = json.load(config_file)
 
-        for track_conf in self.tracksToAdd:  # config_json["tracks"]:
+        for track_conf in self.tracksToAdd:
             track_types[track_conf["trackId"]] = track_conf["type"]
 
         for on_track in data["visibility"]["default_on"]:
@@ -1199,7 +1199,7 @@
         elif self.genome_name is not None:
             refName = self.genome_name
             start = 0
-            end = 1000  # Booh, hard coded! waiting for https://github.com/GMOD/jbrowse-components/issues/2708
+            end = 100000  # Booh, hard coded! waiting for https://github.com/GMOD/jbrowse-components/issues/2708
 
         if refName is not None:
             # TODO displayedRegions is not just zooming to the region, it hides the rest of the chromosome