fix library_id

gga_load_data.py

@@ -86,8 +86,8 @@ class LoadData(speciesData.SpeciesData):
 
             logging.info("Creating new %s library" % constants.GALAXY_LIBRARY_NAME)
             prj_lib = gio.libraries.create(constants.GALAXY_LIBRARY_NAME, constants.GALAXY_LIBRARY_DESC)
-            self.library_id = prj_lib.id  # project data folder/library
-            logging.info("Library for {0}: {1}".format(self.full_name, self.library_id))
+            library_id = prj_lib.id  # project data folder/library
+            logging.info("Library for {0}: {1}".format(self.full_name, library_id))
 
             for fname, files in folders.items():
                 if fname and files:

gga_run_workflow_phaeo_jbrowse.py

@@ -8,6 +8,7 @@ import logging
 import sys
 import json
 import time
+from bioblend.galaxy.objects import GalaxyInstance
 
 import utilities
 import utilities_bioblend
@@ -185,7 +186,16 @@ class RunWorkflowJbrowse(runWorkflowPhaeo.RunWorkflow):
         transcripts_hda_id = None
         proteins_hda_id = None
 
-        folder_dict_list = self.instance.libraries.get_folders(library_id=str(self.library_id))
+        gio = GalaxyInstance(url=self.instance_url,
+                             email=self.config[constants.CONF_GALAXY_DEFAULT_ADMIN_EMAIL],
+                             password=self.config[constants.CONF_GALAXY_DEFAULT_ADMIN_PASSWORD]
+                             )
+        prj_lib = gio.libraries.get_previews(constants.GALAXY_LIBRARY_NAME)
+        if len(prj_lib) == 1:
+            library_id = prj_lib[0].id
+        else:
+            logging.error("Multiple (or no one) libraries '%s' exist" % constants.GALAXY_LIBRARY_NAME)
+        folder_dict_list = self.instance.libraries.get_folders(library_id=str(library_id))
 
         folders_id_dict = {}
 

speciesData.py

@@ -140,4 +140,3 @@ class SpeciesData:
         self.instance = None
         self.history_id = None
         self.history_name = str(self.genus_species)
-        self.library_id = None