Mercurial > repos > q2d2 > qiime2__phylogeny__raxml

changeset 3:a516b3efde8d draft

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__phylogeny commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
author q2d2
date Thu, 25 Apr 2024 21:16:53 +0000
parents 2ff23f0ed1ba
children a874d4dfbac6
files qiime2__phylogeny__raxml.xml test-data/align_to_tree_mafft_fasttree.test0.rep-seqs.qza
diffstat 2 files changed, 6 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/qiime2__phylogeny__raxml.xml	Thu Jun 08 19:50:21 2023 +0000
+++ b/qiime2__phylogeny__raxml.xml	Thu Apr 25 21:16:53 2024 +0000
@@ -1,24 +1,24 @@
 <?xml version='1.0' encoding='utf-8'?>
 <!--
-Copyright (c) 2023, QIIME 2 development team.
+Copyright (c) 2024, QIIME 2 development team.
 
 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
 -->
 <!--
 This tool was automatically generated by:
-    q2galaxy (version: 2023.5.0)
+    q2galaxy (version: 2024.2.1)
 for:
-    qiime2 (version: 2023.5.1)
+    qiime2 (version: 2024.2.0)
 -->
-<tool name="qiime2 phylogeny raxml" id="qiime2__phylogeny__raxml" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause">
+<tool name="qiime2 phylogeny raxml" id="qiime2__phylogeny__raxml" version="2024.2.0+q2galaxy.2024.2.1" profile="22.05" license="BSD-3-Clause">
     <description>Construct a phylogenetic tree with RAxML.</description>
     <requirements>
-        <container type="docker">quay.io/qiime2/core:2023.5</container>
+        <container type="docker">quay.io/qiime2/amplicon:2024.2</container>
     </requirements>
     <version_command>q2galaxy version phylogeny</version_command>
     <command detect_errors="exit_code">q2galaxy run phylogeny raxml '$inputs'</command>
     <configfiles>
-        <inputs name="inputs" data_style="paths"/>
+        <inputs name="inputs" data_style="staging_path_and_source_path"/>
     </configfiles>
     <inputs>
         <param name="alignment" type="data" format="qza" label="alignment: FeatureData[AlignedSequence]" help="[required]  Aligned sequences to be used for phylogenetic reconstruction.">
@@ -30,7 +30,6 @@
         <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
             <param name="seed" type="integer" optional="true" label="seed: Int" help="[optional]  Random number seed for the parsimony starting tree. This allows you to reproduce tree results. If not supplied then one will be randomly chosen."/>
             <param name="n_searches" type="integer" min="1" value="1" label="n_searches: Int % Range(1, None)" help="[default: 1]  The number of independent maximum likelihood searches to perform. The single best scoring tree is returned."/>
-            <param name="n_threads" type="integer" min="1" value="1" label="n_threads: Int % Range(1, None)" help="[default: 1]  The number of threads to use for multithreaded processing. Using more than one thread will enable the PTHREADS version of RAxML."/>
             <param name="raxml_version" type="select" label="raxml_version: Str % Choices('Standard', 'SSE3', 'AVX2')" display="radio">
                 <option value="Standard" selected="true">Standard</option>
                 <option value="SSE3">SSE3</option>
Binary file test-data/align_to_tree_mafft_fasttree.test0.rep-seqs.qza has changed