Mercurial > repos > bgruening > pg_query
view macros.xml @ 0:fa1a61331039 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tools/pgtools commit ab93c4c70fa487e55a24863a7786e102e7d92272
author | bgruening |
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date | Wed, 24 Apr 2019 06:12:05 -0400 |
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<?xml version="1.0"?> <macros> <xml name="inputs_outputs"> <inputs> <param format="tabular" help="" label="Input tabular dataset" name="in_file" type="data" /> <yield /> </inputs> <outputs> <data format="tabular" name="out_file" label="${tool.name} on ${on_string}" /> </outputs> </xml> <xml name="requirements"> <requirements> <requirement type="package" version="@PG_VERSION@">postgresql</requirement> <requirement type="package" version="0.1">pglite</requirement> </requirements> </xml> <token name="@PG_VERSION@">11.2</token> <token name="@HELP_FOOTER@"> The postgresql tools, are using a postgresql database in user-space. Databases are packed into a tarball and stored in the user-history. </token> <token name="@UNTAR_INFILE@"><![CDATA[ tar -xjvf '$infile' && export PWD=`pwd` && sed -i.bak "s|unix_socket_directories.*|unix_socket_directories = '\$PWD/postgresql/'|" ./postgresql/db/postgresql.conf ]]> </token> <token name="@PG_SETUP@"><![CDATA[ pglite setup -d ./postgresql && @PG_START@ ]]> </token> <token name="@PSQL@"><![CDATA[ psql "\$(pglite url -d ./postgresql)" ]]> </token> <token name="@STATUS_RUNNING@"><![CDATA[ timeout 60 bash -c 'until pglite status -d ./postgresql | grep -F -q "server is running"; do sleep 1; done' && pglite status -d ./postgresql && timeout 60 bash -c 'until ls -la ./postgresql | grep -F -q ".s.PGSQL.5432"; do sleep 1; done' && pglite status -d ./postgresql ]]> </token> <token name="@STOPPED@"><![CDATA[ timeout 60 bash -c 'until pglite status -d ./postgresql | grep -F -q "no server running"; do sleep 1; done' ]]> </token> <token name="@PG_START@"><![CDATA[ pglite start -d ./postgresql && @STATUS_RUNNING@ ]]> </token> <token name="@PG_STOP@"><![CDATA[ pglite stop -d ./postgresql && @STOPPED@ ]]> </token> <token name="@ARCHIVE_DATABASE@"><![CDATA[ tar -cvjf postgresql_out.tar.bz2 postgresql ]]> </token> <xml name="citations"> <citations></citations> </xml> </macros>