Mercurial > repos > galaxyp > data_manager_eggnog_mapper
diff data_manager/data_manager_eggnog.xml @ 0:6d8144eef202 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper/eggnog_mapper_data_manager commit ba81f4bfe31157aa6b986e81d5e4405ae1372b3b"
author | galaxyp |
---|---|
date | Mon, 11 Nov 2019 11:49:16 -0500 |
parents | |
children | 077cf0a99144 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/data_manager/data_manager_eggnog.xml Mon Nov 11 11:49:16 2019 -0500 @@ -0,0 +1,33 @@ +<tool id="data_manager_eggnog" name="EggNOG DB Download" version="@VERSION@.1" tool_type="manage_data"> + <description>eggnog data</description> + <macros> + <import>eggnog_macros.xml</import> + </macros> + <expand macro="requirements"/> + <expand macro="version_command"/> + <command detect_errors="exit_code"><![CDATA[ +#import json, os +#set params = json.loads(open(str($out_file)).read()) +#set install_path = $params['output_data'][0]['extra_files_path'].encode('ascii', 'replace') +@DOWNLOAD_CMD@ + ]]></command> + <inputs> + <expand macro="data_manager_params"/> + </inputs> + <expand macro="data_manager_outputs"/> + <tests> + <expand macro="data_manager_test"/> + </tests> + <help><![CDATA[ +This tool downloads eggnog data using download_eggnog_data.py +and populates the data tables: eggnog_mapper_db and eggnog_mapper_hmm_dbs. +The data is located at: http://eggnogdb.embl.de/download/emapperdb-4.5.1/ +The optional eggNOG HMM databases: http://eggnogdb.embl.de/download/emapperdb-4.5.1/hmmdb_levels/ +can vary from 1G to 80G in size. + +This will install data relative to the galaxy_data_manager_data_path declared in config/galaxy.yml +in directory eggnog_data/<eggnog data version>/. +The eggnog version is queried from the downloaded SQlite eggnog.db from table version. + ]]></help> + <expand macro="citations"/> +</tool>