Mercurial > repos > galaxyp > data_manager_eggnog_mapper_abspath
comparison data_manager/data_manager_eggnog.xml @ 1:269f0970d762 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper/data_manager_eggnog_mapper_abspath commit 2200885b5049b2d952959001c8a9b5ae5c62bee5"
author | galaxyp |
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date | Sat, 05 Sep 2020 07:24:42 +0000 |
parents | 9d5f039c637f |
children | 2aec8d30ff42 |
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0:9d5f039c637f | 1:269f0970d762 |
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1 <tool id="data_manager_eggnog_abspath" name="EggNOG DB Download" version="@VERSION@.1" tool_type="manage_data"> | 1 <tool id="data_manager_eggnog_abspath" name="EggNOG DB Download" version="@VERSION@" tool_type="manage_data"> |
2 <description>eggnog data to a specified directory</description> | 2 <description>eggnog data to a specified directory</description> |
3 <macros> | 3 <macros> |
4 <import>eggnog_macros.xml</import> | 4 <import>eggnog_macros.xml</import> |
5 </macros> | 5 </macros> |
6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
8 <command detect_errors="exit_code"><![CDATA[ | 8 <command detect_errors="exit_code"><![CDATA[ |
9 #set $install_path = $target_path | 9 #set $install_path = $target_path |
10 @DOWNLOAD_CMD@ | 10 @DOWNLOAD_CMD@ |
11 ]]></command> | 11 ]]></command> |
12 <inputs> | 12 <inputs> |
13 <param name="target_path" type="text" value="" label="Download Destination" | 13 <param name="target_path" type="text" value="" label="Download Destination" |
14 help="Full path to where the eggnod data should be installed."> | 14 help="Full path to where the eggnod data should be installed."> |
15 <validator type="regex" message="Must be an absolute path">^/.*$</validator> | 15 <validator type="regex" message="Must be an absolute path">^/.*$</validator> |
16 </param> | 16 </param> |
17 <expand macro="data_manager_params"/> | 17 <expand macro="data_manager_params"/> |
18 </inputs> | 18 </inputs> |
19 <expand macro="data_manager_outputs"/> | 19 <expand macro="data_manager_outputs"/> |
20 <tests> | 20 <tests> |
21 <expand macro="data_manager_test"/> | 21 <expand macro="data_manager_test"> |
22 <param name="target_path" value="/tmp" /> <!-- Not used in test mode --> | |
23 </expand> | |
22 </tests> | 24 </tests> |
23 <help><![CDATA[ | 25 <help><![CDATA[ |
24 This tool downloads eggnog data using download_eggnog_data.py | 26 This tool downloads eggnog data using download_eggnog_data.py |
25 and populates the data tables: eggnog_mapper_db and eggnog_mapper_hmm_dbs. | 27 and populates the data tables: eggnog_mapper_db. |
26 The data is located at: http://eggnogdb.embl.de/download/emapperdb-4.5.1/ | 28 The data is located at: http://eggnog5.embl.de/download/emapperdb-5.0.0/ |
27 The optional eggNOG HMM databases: http://eggnogdb.embl.de/download/emapperdb-4.5.1/hmmdb_levels/ | |
28 can vary from 1G to 80G in size. | 29 can vary from 1G to 80G in size. |
29 | 30 |
30 The data will be downloaded to the specified directory. This allows adding hmmdb_levels to an existing download. | 31 The data will be downloaded to the specified directory. |
31 You should not mix eggnog data versions in the same directory. | 32 You should not mix eggnog data versions in the same directory. |
32 ]]></help> | 33 ]]></help> |
33 <expand macro="citations"/> | 34 <expand macro="citations"/> |
34 </tool> | 35 </tool> |