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comparison iqtree.xml @ 9:f58a10e2e46d draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/iqtree/ commit 00ddca12cd441fab5c928f93c62fa8aa79160967"
author iuc
date Fri, 20 Aug 2021 20:17:09 +0000
parents c1d53e95327f
children b8476e82ac20
comparison
equal deleted inserted replaced
8:c1d53e95327f 9:f58a10e2e46d
1 <tool id="iqtree" name="IQ-TREE" version="@TOOL_VERSION@+@VERSION_SUFFIX@" > 1 <tool id="iqtree" name="IQ-TREE" version="@TOOL_VERSION@+@VERSION_SUFFIX@" >
2 <description>Phylogenomic / evolutionary tree construction from multiple sequences</description> 2 <description>Phylogenomic / evolutionary tree construction from multiple sequences</description>
3 <macros> 3 <macros>
4 <token name="@VERSION_SUFFIX@">galaxy0</token> 4 <token name="@VERSION_SUFFIX@">galaxy1</token>
5 <import>iqtree_macros.xml</import> 5 <import>iqtree_macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements" /> 7 <expand macro="requirements" />
8 <command detect_errors="exit_code"><![CDATA[ 8 <command detect_errors="exit_code"><![CDATA[
9 iqtree 9 iqtree
694 <filter>modelling_parameters['rate_heterogeneity']['mlrate']</filter> 694 <filter>modelling_parameters['rate_heterogeneity']['mlrate']</filter>
695 </data> 695 </data>
696 <data name="timetree" format="nex" from_work_dir="PREF.timetree.nex" label="${tool.name} on ${on_string}: Tree labeled with dates"> 696 <data name="timetree" format="nex" from_work_dir="PREF.timetree.nex" label="${tool.name} on ${on_string}: Tree labeled with dates">
697 <filter>time_tree['date_source']['select_source'] != 'none'</filter> 697 <filter>time_tree['date_source']['select_source'] != 'none'</filter>
698 </data> 698 </data>
699 <data name="lsd_report" format="txt" from_work_dir="PREF.timetree.lsd" label="${tool.name} on ${on_string}: LSD Report">
700 <filter>time_tree['date_source']['select_source'] != 'none'</filter>
701 </data>
699 </outputs> 702 </outputs>
700 <tests> 703 <tests>
701 <test expect_num_outputs="6"> 704 <test expect_num_outputs="6">
702 <param name="seed" value="1257" /> 705 <param name="seed" value="1257" />
703 <param name="seqtype" value="AA" /> 706 <param name="seqtype" value="AA" />
846 <assert_contents> 849 <assert_contents>
847 <has_line_matching expression="\(NC_045512.+\(MT019531.+MT019532.+" /> 850 <has_line_matching expression="\(NC_045512.+\(MT019531.+MT019532.+" />
848 </assert_contents> 851 </assert_contents>
849 </output> 852 </output>
850 </test> 853 </test>
851 <test expect_num_outputs="7"> 854 <test expect_num_outputs="8">
852 <param name="s" value="dates.fa" /> 855 <param name="s" value="dates.fa" />
853 <param name="n" value="100" /> 856 <param name="n" value="100" />
854 <param name="seed" value="122125" /> 857 <param name="seed" value="122125" />
855 <param name="select_source" value="dataset" /> 858 <param name="select_source" value="dataset" />
856 <param name="date" value="dates.tabular" /> 859 <param name="date" value="dates.tabular" />
857 <output name="timetree"> 860 <output name="timetree">
858 <assert_contents> 861 <assert_contents>
859 <has_line_matching expression=".+222-3pu_03-28-01_985737600.+" /> 862 <has_line_matching expression=".+222-3pu_03-28-01_985737600.+" />
863 </assert_contents>
864 </output>
865 <output name="lsd_report">
866 <assert_contents>
867 <has_line_matching expression="^LEAST-SQUARE METHODS.+" />
860 </assert_contents> 868 </assert_contents>
861 </output> 869 </output>
862 </test> 870 </test>
863 </tests> 871 </tests>
864 <help><![CDATA[ 872 <help><![CDATA[