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galaxyproject / tools-iuc

Tool Shed repositories maintained by the Intergalactic Utilities Commission
https://galaxyproject.org/iuc
MIT License
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Test dev prior to release freeze #5061

Closed mvdbeek closed 1 year ago

mvdbeek commented 1 year ago

/run-all-tool-tests branch=dev

mvdbeek commented 1 year ago

I suspect the first chunk to fail, the weekly tests seem to be failing on this:

galaxy.objectstore CRITICAL 2023-01-17 18:45:59,219 [pN:main.1,p:19633,tN:LocalRunner.work_thread-0] Error copying /tmp/tmpqorr81b5/job_working_directory/000/60/working/dataset_60_files/mpa_vJan21_CHOCOPhlAnSGB_202103/mpa_vJan21_CHOCOPhlAnSGB_202103_SGB.fna to /tmp/tmpqorr81b5/files/000/dataset_60_files/mpa_vJan21_CHOCOPhlAnSGB_202103/mpa_vJan21_CHOCOPhlAnSGB_202103_SGB.fna: [Errno 28] No space left on device
galaxy.job_execution.output_collect DEBUG 2023-01-17 18:45:59,221 [pN:main.1,p:19633,tN:LocalRunner.work_thread-0] Error in collect_associated_files: [Errno 28] No space left on device
galaxy.jobs DEBUG 2023-01-17 18:45:59,222 [pN:main.1,p:19633,tN:LocalRunner.work_thread-0] (60) setting dataset 60 state to ERROR

Shut down
supervisord has terminated
There were problems with 1 test(s) - out of 1 test(s) executed. See tool_test_output.html for detailed breakdown.
data_manager_metaphlan_download (Test #1): failed

Interestingly after cleaning up the container tests continue and pass, but the runner crashes on shutdown. I think I'll just disable data_manager_metaphlan_download tests for now.

mvdbeek commented 1 year ago

/run-all-tool-tests branch=dev

gxydevbot commented 1 year ago

Summary:

  3 error
 90 failure

4279 success

Find all tool test results here

mvdbeek commented 1 year ago

/run-all-tool-tests branch=release_22.05

gxydevbot commented 1 year ago

Summary:

 86 failure

4286 success

Find all tool test results here

mvdbeek commented 1 year ago

Nice, so I think the difference comes from a new assertion in the tool data table branch:

Traceback (most recent call last):
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/jobs/__init__.py", line 1909, in finish
    self.app, inp_data, out_data, param_dict, job=job, final_job_state=final_job_state
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/tools/__init__.py", line 3061, in exec_after_process
    data_manager.process_result(out_data)
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/tools/data_manager/manager.py", line 231, in process_result
    options,
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/tool_util/data/__init__.py", line 1133, in process_bundle
    return _process_bundle(out_data, bundle, options, self)
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/tool_util/data/__init__.py", line 1271, in _process_bundle
    **data_table_value,
  File "/tmp/tmpmk87ahga/galaxy-dev/lib/galaxy/tool_util/data/__init__.py", line 1332, in _process_move
    assert source
AssertionError

that should not stop us from upgrading test & main, but we should look into this (@jmchilton any idea ?)