Mercurial > repos > iuc > data_manager_build_kraken2_database

comparison data_manager/kraken2_build_database.xml @ 12:bf7f964a12b7 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_build_kraken2_database/ commit f43fe4223c7cca2dac7549c3dee7e766378588da
author iuc
date Sat, 25 Jan 2025 17:41:35 +0000
parents 36cdd9783e6b
children 150ea60a4ebc
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equal deleted inserted replaced
11:36cdd9783e6b 12:bf7f964a12b7
1 <tool id="kraken2_build_database" name="Kraken2" tool_type="manage_data" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> 1 <tool id="kraken2_build_database" name="Kraken2" tool_type="manage_data" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 <description>database builder</description> 2 <description>database builder</description>
3 <macros> 3 <macros>
4 <token name="@TOOL_VERSION@">2.1.3</token> 4 <token name="@TOOL_VERSION@">2.1.3</token>
5 <token name="@VERSION_SUFFIX@">5</token> 5 <token name="@VERSION_SUFFIX@">6</token>
6 <token name="@PROFILE@">22.01</token> 6 <token name="@PROFILE@">22.01</token>
7 <xml name="common_params"> 7 <xml name="common_params">
8 <param name="kmer_len" type="integer" value="35" label="K-mer length in BP" /> 8 <param name="kmer_len" type="integer" value="35" label="K-mer length in BP" />
9 <param name="minimizer_len" type="integer" value="31" label="Minimizer length" /> 9 <param name="minimizer_len" type="integer" value="31" label="Minimizer length" />
10 <param name="minimizer_spaces" type="integer" value="7" label="Minimizer spaces" /> 10 <param name="minimizer_spaces" type="integer" value="7" label="Minimizer spaces" />
111 <expand macro="common_params" /> 111 <expand macro="common_params" />
112 </when> 112 </when>
113 <when value="standard_prebuilt"> 113 <when value="standard_prebuilt">
114 <conditional name="prebuild"> 114 <conditional name="prebuild">
115 <param name="prebuilt_date" type="select" label="Select index build date"> 115 <param name="prebuilt_date" type="select" label="Select index build date">
116 <option value="2024-12-28">December 28, 2024</option>
116 <option value="2024-09-04">September 4, 2024</option> 117 <option value="2024-09-04">September 4, 2024</option>
117 <option value="2024-06-05">June 5, 2024</option> 118 <option value="2024-06-05">June 5, 2024</option>
118 <option value="2024-01-12">January 12, 2024</option> 119 <option value="2024-01-12">January 12, 2024</option>
119 <option value="2023-06-05">June 5, 2023</option> 120 <option value="2023-06-05">June 5, 2023</option>
120 <option value="2022-06-07">June 7, 2022</option> 121 <option value="2022-06-07">June 7, 2022</option>
121 <option value="2021-05-17">May 17, 2021</option> 122 <option value="2021-05-17">May 17, 2021</option>
122 <option value="2021-01-27">January 27, 2021</option> 123 <option value="2021-01-27">January 27, 2021</option>
123 <option value="2020-12-02">December 2, 2020</option> 124 <option value="2020-12-02">December 2, 2020</option>
124 <option value="2020-09-19">September 19, 2020</option> 125 <option value="2020-09-19">September 19, 2020</option>
125 </param> 126 </param>
127 <when value="2024-12-28">
128 <param name="prebuilt_db" type="select" label="Select a prebuilt Refseq index to download">
129 <expand macro="viral"/>
130 <expand macro="minusb"/>
131 <expand macro="standard"/>
132 <expand macro="standard_08gb"/>
133 <expand macro="standard_16gb"/>
134 <expand macro="pluspf"/>
135 <expand macro="pluspf_08gb"/>
136 <expand macro="pluspf_16gb"/>
137 <expand macro="pluspfp"/>
138 <expand macro="pluspfp_08gb"/>
139 <expand macro="pluspfp_16gb"/>
140 <expand macro="core_nt"/>
141 </param>
142 </when>
126 <when value="2024-09-04"> 143 <when value="2024-09-04">
127 <param name="prebuilt_db" type="select" label="Select a prebuilt Refseq index to download"> 144 <param name="prebuilt_db" type="select" label="Select a prebuilt Refseq index to download">
128 <expand macro="viral"/> 145 <expand macro="viral"/>
129 <expand macro="minusb"/> 146 <expand macro="minusb"/>
130 <expand macro="standard"/> 147 <expand macro="standard"/>