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47 lines
1.3 KiB
Bash
47 lines
1.3 KiB
Bash
## Set MACHTYPE to something,
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MACHTYPE=`uname -m`
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[ "$MACHTYPE" = "Power Macintosh" ] && MACHTYPE="powerpc"
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LC_ALL=POSIX
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export MACHTYPE LC_ALL
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KERNEL=`uname -s | tr "A-Z" "a-z"`
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ARCH="$KERNEL-$MACHTYPE"
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PLATFORMS=`$GALAXY_PYTHON ./scripts/get_platforms.py`
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UNIVERSE_HOME=`pwd`
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PYTHONPATH=$UNIVERSE_HOME/lib
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for PLATFORM in $PLATFORMS; do
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echo "Using eggs in $PLATFORM"
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PYTHONPATH=$PYTHONPATH:$UNIVERSE_HOME/eggs/$PLATFORM
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done
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# skip egg check for buildbot
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if [ "$USER" != "buildbot" ]; then
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$GALAXY_PYTHON ./scripts/check_eggs.py
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if [ $? -ne 0 ]; then
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exit 1
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fi
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fi
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export UNIVERSE_HOME PYTHONPATH
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## For PBS - if you need to force node paths (i.e. the arch the frontend
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## runs on is not the same arch as the compute nodes or Galaxy is
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## installed in a different path on the node).
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#NODEMACH="i686"
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#NODEARCH="linux-i686"
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#NODEPATH=$PATH
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## Certain tools (EMBOSS, PAML...) are not distributed with Galaxy.
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## If you have them installed, add their bin directories to the PATH.
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PATH=$PATH:/depot/apps/$MACHTYPE/bin:/home/universe/$ARCH/EMBOSS-5.0.0/bin:/home/universe/$ARCH/ImageMagick/bin:/home/universe/$ARCH/PAML/paml3.15/bin
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## NODEPATH defaults to $PATH
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: ${NODEPATH:=$PATH}
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export PATH NODEPATH
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echo "python path: $PYTHONPATH"
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echo "path: $PATH"
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