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Nicola Soranzo
e1be66312b
In particular add virtualenv activation to extract_dataset_parts.sh to fix the following error when running tools which use `<parallelism>`: ``` Fatal error: /tmp/tmpOoQ01k/job_working_directory/000/12/task_0: Traceback (most recent call last): File "./scripts/extract_dataset_part.py", line 17, in <module> import galaxy.model.mapping # need to load this before we unpickle, in order to setup properties assigned by the mappers File "/opt/galaxyproject_galaxy_release_17.05/lib/galaxy/model/__init__.py", line 20, in <module> from six import string_types ModuleNotFoundError: No module named 'six' ```
18 lines
413 B
Bash
Executable File
18 lines
413 B
Bash
Executable File
#!/bin/sh
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#######
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# NOTE: To downgrade to a specific version, use something like:
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# sh manage_db.sh downgrade --version=3 <tool_shed if using that webapp - galaxy is the default>
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#######
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cd `dirname $0`
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: ${GALAXY_VIRTUAL_ENV:=.venv}
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if [ -d "$GALAXY_VIRTUAL_ENV" ];
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then
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printf "Activating virtualenv at $GALAXY_VIRTUAL_ENV\n"
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. "$GALAXY_VIRTUAL_ENV/bin/activate"
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fi
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python ./scripts/manage_db.py $@
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