mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-19 10:51:34 +08:00
John Chilton
939e7774a8
This is (so far a subset of) the tool utilities from galaxy-lib. galaxy-lib mocked out a fake galaxy.tools to allow these to all exist below the galaxy.tools - but this was a terrible hack - in order for the new packages to be true subsets of Galaxy they need to be refactored into a new package that doesn't depend on models, SA, galaxy.jobs, etc... [x] galaxy.tools.deps -> galaxy.tool_util.deps [x] galaxy.tools.loader -> galaxy.tool_util.loader [x] galaxy.tools.cwl -> galaxy.tool_util.cwl [x] galaxy.tools.loader -> galaxy.tool_util.loader [x] galaxy.tools.fetcher -> galaxy.tool_util.fetcher [x] galaxy.tools.locations -> galaxy.tool_util.locations [x] galaxy.tools.parser -> galaxy.tool_util.parser
36 lines
867 B
Bash
Executable File
36 lines
867 B
Bash
Executable File
#!/bin/sh
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cd `dirname $0`/..
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./scripts/common_startup.sh
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GALAXY_VIRTUAL_ENV="${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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xsd_path="lib/galaxy/tools/xsd/galaxy.xsd"
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err_tmp=`mktemp`
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count=0
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exit=0
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for p in "$@"; do
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count=$((count+1))
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path="$p"
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echo $path
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PYTHONPATH=lib:$PYTHONPATH
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export PYTHONPATH
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result=`python -c "import galaxy.tool_util.loader; import xml.etree; xml.etree.ElementTree.dump(galaxy.tool_util.loader.load_tool('$path').getroot())" | xmllint --nowarning --noout --schema "$xsd_path" - 2> "$err_tmp"`
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if [ $? -eq 0 ]
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then
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echo "ok $count";
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else
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echo "not ok $count $path";
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cat "$err_tmp" | sed 's/^/ /'
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exit=1
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fi
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done
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rm "$err_tmp"
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exit $exit
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