mirror of
https://github.com/galaxyproject/galaxy.git
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66 lines
2.1 KiB
XML
66 lines
2.1 KiB
XML
<tool id="interactive_tool_ethercalc" tool_type="interactive" name="EtherCalc" version="0.1" profile="20.01">
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<requirements>
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<container type="docker">shiltemann/ethercalc-galaxy-ie:17.05</container>
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</requirements>
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<entry_points>
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<entry_point name="EtherCalc instance on $infile.display_name" requires_domain="True">
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<port>8000</port>
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</entry_point>
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</entry_points>
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<command><![CDATA[
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export HOME=/root &&
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forever start `which ethercalc` --cors &
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bash $wait_script
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&&
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curl --include --request POST --header "Content-Type: application/json" --data-binary "{ \"room\": \"galaxy\", \"snapshot\": \"...\"}" 'http://localhost:8000/_'
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&&
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## put loading message into worksheet in case of large files
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echo -e "Loading your,dataset\nThis may take, some time for, large files.." > loading.txt
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&&
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curl --include --request PUT --header "Content-Type: text/csv" --data-binary @loading.txt http://localhost:8000/_/galaxy
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&&
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## remove dump file so this doesnt appear in audit trail
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rm /dump.json
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&&
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## load dataset into worksheet
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curl --include --request PUT --header "Content-Type: text/csv" --data-binary @$infile http://localhost:8000/_/galaxy
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&&
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tail -f /etc/hosts
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]]>
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</command>
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<configfiles>
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<configfile name="wait_script">
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<![CDATA[
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## make sure ethercalc has finished starting up
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STATUS=\$(curl --include 'http://localhost:8000/_/galaxy' 2>&1)
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while [[ \${STATUS} =~ "refused" ]]
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do
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echo "waiting for ethercalc: \$STATUS \n"
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STATUS=\$(curl --include 'http://localhost:8000/_/galaxy' 2>&1)
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sleep 2
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done
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]]>
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</configfile>
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</configfiles>
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<inputs>
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<param name="infile" type="data" format="tabular,csv,tsv" label="Some tabular dataset"/>
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</inputs>
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<outputs>
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<data name="outfile" format="txt" />
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</outputs>
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<tests>
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</tests>
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<help>
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EtherCalc is a web spreadsheet.
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https://ethercalc.net
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</help>
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</tool>
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