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comparison ete_mod.xml @ 16:e4d5d9a69c9d draft default tip

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planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/main/tools/ete commit a0d7ab86b86bb764e457767bf8e8bc29868d0cbb
author earlhaminst
date Mon, 10 Mar 2025 23:28:17 +0000
parents 1e85af7a29c4
children
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15:1e85af7a29c4 16:e4d5d9a69c9d
1 <tool id="ete3_mod" name="ETE mod" version="@VERSION@"> 1 <tool id="ete3_mod" name="ETE mod" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@">
2 <description>manipulates tree topology by rooting, pruning or sorting branches</description> 2 <description>manipulates tree topology by rooting, pruning or sorting branches</description>
3 <macros> 3 <macros>
4 <import>ete_macros.xml</import> 4 <import>ete_macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="bio_tools"/> 6 <expand macro="bio_tools"/>
71 <output name="output_tree" file="tree1_pruneAC.nhx" /> 71 <output name="output_tree" file="tree1_pruneAC.nhx" />
72 </test> 72 </test>
73 <test> 73 <test>
74 <param name="input_trees" ftype="nhx" value="tree1.nhx" /> 74 <param name="input_trees" ftype="nhx" value="tree1.nhx" />
75 <param name="prune" value="A,C" /> 75 <param name="prune" value="A,C" />
76 <param name="prune_preserve_lengths" value="--prune_preserve_lengths" /> 76 <param name="prune_preserve_lengths" value="true" />
77 <output name="output_tree" file="tree1_pruneACpreserve.nhx" /> 77 <output name="output_tree" file="tree1_pruneACpreserve.nhx" />
78 </test> 78 </test>
79 <test> 79 <test>
80 <param name="input_trees" ftype="nhx" value="tree1.nhx" /> 80 <param name="input_trees" ftype="nhx" value="tree1.nhx" />
81 <param name="unroot" value="--unroot" /> 81 <param name="unroot" value="true" />
82 <output name="output_tree" file="tree1_unroot.nhx" /> 82 <output name="output_tree" file="tree1_unroot.nhx" />
83 </test> 83 </test>
84 <test> 84 <test>
85 <param name="input_trees" ftype="nhx" value="tree2.nhx" /> 85 <param name="input_trees" ftype="nhx" value="tree2.nhx" />
86 <param name="sort_branches" value="--sort_branches" /> 86 <param name="sort_branches" value="true" />
87 <output name="output_tree" file="tree2_sort.nhx" /> 87 <output name="output_tree" file="tree2_sort.nhx" />
88 </test> 88 </test>
89 <test> 89 <test>
90 <param name="input_trees" ftype="nhx" value="tree1.nhx" /> 90 <param name="input_trees" ftype="nhx" value="tree1.nhx" />
91 <param name="ladderize" value="--ladderize" /> 91 <param name="ladderize" value="true" />
92 <output name="output_tree" file="tree1_ladder.nhx" /> 92 <output name="output_tree" file="tree1_ladder.nhx" />
93 </test> 93 </test>
94 <test> 94 <test>
95 <param name="input_trees" ftype="nhx" value="tree1_unroot.nhx" /> 95 <param name="input_trees" ftype="nhx" value="tree1_unroot.nhx" />
96 <param name="resolve_polytomies" value="--resolve_polytomies" /> 96 <param name="resolve_polytomies" value="true" />
97 <output name="output_tree" file="tree1_unroot_resolve.nhx" /> 97 <output name="output_tree" file="tree1_unroot_resolve.nhx" />
98 </test> 98 </test>
99 <test> 99 <test>
100 <param name="input_trees" ftype="nhx" value="tree3.nhx" /> 100 <param name="input_trees" ftype="nhx" value="tree3.nhx" />
101 <param name="standardize" value="--standardize" /> 101 <param name="standardize" value="true" />
102 <output name="output_tree" file="tree3_stand.nhx" /> 102 <output name="output_tree" file="tree3_stand.nhx" />
103 </test> 103 </test>
104 </tests> 104 </tests>
105 <help><![CDATA[ 105 <help><![CDATA[
106 Modify a given input tree using the `ETE Toolkit`_. 106 Modify a given input tree using the `ETE Toolkit`_.