Hi,
We are migrating our galaxy data to a new server with python 2.7 so that we can upgrade galaxy. We have migrated all of the files and installed dependencies, but galaxy will not run. When we run the run_test.sh script we get 1 error and 2 failures. Can anyone help with resolving these issues. Thank you in advance
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ERROR: ( toolshed.g2.bx.psu.edu/repos/devteam/data_manager_twobit_builder/twobit_builder_data_manager/0.0.2 ) > Test-1
Traceback (most recent call last): File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 88, in test_tool self.do_it(tool_version=tool_version, test_index=test_index) File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 41, in do_it verify_tool(tool_id, self.galaxy_interactor, resource_parameters=resource_parameters, test_index=test_index, tool_version=tool_version, register_job_data=register_job_data) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 674, in verify_tool raise e RunToolException: Error creating a job for these tool inputs - An invalid option was selected for all_fasta_source, u'sacCer2', please verify.
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FAIL: ( toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_all_fasta/data_manager_fetch_genome_all_fasta/0.0.1 ) > Test-1
Traceback (most recent call last): File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 88, in test_tool self.do_it(tool_version=tool_version, test_index=test_index) File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 41, in do_it verify_tool(tool_id, self.galaxy_interactor, resource_parameters=resource_parameters, test_index=test_index, tool_version=tool_version, register_job_data=register_job_data) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 653, in verify_tool stage_data_in_history(galaxy_interactor, tool_id, testdef.test_data(), test_history) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 54, in stage_data_in_history upload_waits.append(galaxy_interactor.stage_data_async(test_data, history, tool_id)) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 267, in stage_data_async file_name = self.test_data_path(tool_id, fname) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 232, in test_data_path assert response.status_code == 200 AssertionError
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FAIL: ( toolshed.g2.bx.psu.edu/repos/devteam/data_manager_fetch_genome_dbkeys_all_fasta/data_manager_fetch_genome_all_fasta_dbkey/0.0.1 ) > Test-1
Traceback (most recent call last): File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 88, in test_tool self.do_it(tool_version=tool_version, test_index=test_index) File "/vectorbase/web/Galaxy/galaxy-dist/test/functional/test_toolbox.py", line 41, in do_it verify_tool(tool_id, self.galaxy_interactor, resource_parameters=resource_parameters, test_index=test_index, tool_version=tool_version, register_job_data=register_job_data) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 653, in verify_tool stage_data_in_history(galaxy_interactor, tool_id, testdef.test_data(), test_history) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 54, in stage_data_in_history upload_waits.append(galaxy_interactor.stage_data_async(test_data, history, tool_id)) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 267, in stage_data_async file_name = self.test_data_path(tool_id, fname) File "/vectorbase/web/Galaxy/galaxy-dist/lib/galaxy/tools/verify/interactor.py", line 232, in test_data_path assert response.status_code == 200 AssertionError
Ran 4 tests in 0.767s
FAILED (errors=1, failures=2)