Mercurial > repos > blankenberglab > data_manager_refgenie_pull

comparison data_manager/data_manager_refgenie_pull.xml @ 1:43d2baff05cd draft

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"planemo upload for repository https://github.com/blankenberglab/galaxy-tools-blankenberg/tree/master/data_managers/data_manager_refgenie_pull commit 9a36112c745f111e68a29cee063e0b36448eb303"
author blankenberglab
date Thu, 30 Sep 2021 14:49:57 +0000
parents aec9bc48cdb7
children b2fa406276e7
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0:aec9bc48cdb7 1:43d2baff05cd
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <requirements> 6 <requirements>
7 <requirement type="package" version="@VERSION@">refgenie</requirement> 7 <requirement type="package" version="@VERSION@">refgenie</requirement>
8 </requirements> 8 </requirements>
9 <version_command>refgenie --version</version_command>
9 <code file="data_manager_refgenie_pull.py" /> 10 <code file="data_manager_refgenie_pull.py" />
10 <environment_variables> 11 <environment_variables>
11 <environment_variable name="API_KEY" inject="api_key" /> 12 <environment_variable name="API_KEY" inject="api_key" />
12 </environment_variables> 13 </environment_variables>
13 <command detect_errors="exit_code"><![CDATA[ 14 <command detect_errors="exit_code"><![CDATA[
58 59
59 **Notice:** Galaxy data tables will be refreshed using API calls. 60 **Notice:** Galaxy data tables will be refreshed using API calls.
60 61
61 .. class:: warning 62 .. class:: warning
62 63
63 **You must configure Galaxy to use refgenie, by setting 'refgenie_config_file' in the Galaxy config. This tool uses refgenie config file version 0.3.** 64 **You must configure Galaxy to use refgenie, by setting 'refgenie_config_file' in the Galaxy config. This tool uses refgenie config file version 0.4.**
64 ]]></help> 65 ]]></help>
65 <citations> 66 <citations>
66 <citation type="doi">10.1093/gigascience/giz149</citation> 67 <citation type="doi">10.1093/gigascience/giz149</citation>
67 <citation type="doi">10.1101/2020.10.09.327114</citation> 68 <citation type="doi">10.1101/2020.10.09.327114</citation>
68 </citations> 69 </citations>