Mercurial > repos > q2d2 > qiime2__phylogeny__fasttree
changeset 3:67a54c48a537 draft default tip
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 21:17:06 +0000 |
| parents | 977e2ec8beb0 |
| children | |
| files | qiime2__phylogeny__fasttree.xml test-data/align_to_tree_mafft_fasttree.test0.rep-seqs.qza |
| diffstat | 2 files changed, 6 insertions(+), 20 deletions(-) [+] |
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--- a/qiime2__phylogeny__fasttree.xml Thu Jun 08 19:50:04 2023 +0000 +++ b/qiime2__phylogeny__fasttree.xml Thu Apr 25 21:17:06 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 fasttree" id="qiime2__phylogeny__fasttree" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause"> +<tool name="qiime2 phylogeny fasttree" id="qiime2__phylogeny__fasttree" version="2024.2.0+q2galaxy.2024.2.1" profile="22.05" license="BSD-3-Clause"> <description>Construct a phylogenetic tree with FastTree.</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 fasttree '$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."> @@ -27,20 +27,6 @@ </options> <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[AlignedSequence]']</validator> </param> - <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> - <conditional name="__q2galaxy__GUI__conditional__n_threads__"> - <param name="__q2galaxy__GUI__select__" type="select" label="n_threads: Int % Range(1, None) | Str % Choices('auto')" help="[default: 1] The number of threads. Using more than one thread runs the non-deterministic variant of `FastTree` (`FastTreeMP`), and may result in a different tree than single-threading. See http://www.microbesonline.org/fasttree/#OpenMP for details. (Use `auto` to automatically use all available cores)"> - <option value="auto">auto (Str)</option> - <option value="__q2galaxy__::control::Int X Range(1__comma__ None)" selected="true">Provide a value (Int % Range(1, None))</option> - </param> - <when value="auto"> - <param name="n_threads" type="hidden" value="auto"/> - </when> - <when value="__q2galaxy__::control::Int X Range(1__comma__ None)"> - <param name="n_threads" type="integer" min="1" value="1" label="n_threads: Int % Range(1, None)" help="[default: 1] The number of threads. Using more than one thread runs the non-deterministic variant of `FastTree` (`FastTreeMP`), and may result in a different tree than single-threading. See http://www.microbesonline.org/fasttree/#OpenMP for details. (Use `auto` to automatically use all available cores)"/> - </when> - </conditional> - </section> </inputs> <outputs> <data name="tree" format="qza" label="${tool.name} on ${on_string}: tree.qza" from_work_dir="tree.qza"/>