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bernt-matthias / gist:703e18cb4c33c276b2f229f1007e958d
Created May 12, 2020 13:38
PepNovoAdapter patch for model dir
--- /tmp/PepNovoAdapter.xml 2020-05-12 15:36:31.267276757 +0200
+++ PepNovoAdapter.xml 2020-05-12 15:28:28.904364695 +0200
@@ -42,13 +42,8 @@
</configfiles>
<inputs>
<param name="in" argument="-in" type="data" format="mzml" optional="false" label="input file" help=" select mzml data sets(s)"/>
- <param name="model_directory" argument="-model_directory" type="select" optional="false" label="Name of the directory where the model files are kept" help="">
- <options from_data_table="pepnovo_models">
- <column name="name" index="0"/>
- <column name="value" index="2"/>
@bernt-matthias
bernt-matthias / gist:2c75e2266f626ba8bb5c331e178bce30
Last active May 9, 2020 13:56
dynamic resubmission debug notes
galaxy.jobs.runners.univa "Job hit walltime"
galaxy.jobs.runners _handle_runner_state
galaxy.jobs.runners.state_handlers.resubmit.failure
File "lib/galaxy/jobs/runners/__init__.py", line 464, in _handle_runner_state
handler(self.app, self, job_state)
File "lib/galaxy/jobs/runners/state_handlers/resubmit.py", line 79, in failure
_handle_resubmit_definitions(resubmit_definitions, app, job_runner, job_state)