| Next changeset 1:54e234742860 (2023-01-13) |
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Commit message:
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__phylogeny commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1 |
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added:
qiime2__phylogeny__fasttree.xml test-data/.gitkeep |
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| diff -r 000000000000 -r c9eafd561cc4 qiime2__phylogeny__fasttree.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/qiime2__phylogeny__fasttree.xml Mon Aug 29 20:16:28 2022 +0000 |
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| @@ -0,0 +1,73 @@ +<?xml version='1.0' encoding='utf-8'?> +<!-- +Copyright (c) 2022, 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: 2022.8.1) +for: + qiime2 (version: 2022.8.1) +--> +<tool name="qiime2 phylogeny fasttree" id="qiime2__phylogeny__fasttree" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> + <description>Construct a phylogenetic tree with FastTree.</description> + <requirements> + <container type="docker">quay.io/qiime2/core:2022.8</container> + </requirements> + <version_command>q2galaxy version phylogeny</version_command> + <command detect_errors="aggressive">q2galaxy run phylogeny fasttree '$inputs'</command> + <configfiles> + <inputs name="inputs" data_style="paths"/> + </configfiles> + <inputs> + <param name="alignment" type="data" format="qza" label="alignment: FeatureData[AlignedSequence]" help="[required] Aligned sequences to be used for phylogenetic reconstruction."> + <options options_filter_attribute="metadata.semantic_type"> + <filter type="add_value" value="FeatureData[AlignedSequence]"/> + </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"/> + </outputs> + <tests/> + <help> +QIIME 2: phylogeny fasttree +=========================== +Construct a phylogenetic tree with FastTree. + + +Outputs: +-------- +:tree.qza: The resulting phylogenetic tree. + +| + +Description: +------------ +Construct a phylogenetic tree with FastTree. + + +| + +</help> + <citations> + <citation type="doi">10.1371/journal.pone.0009490</citation> + <citation type="doi">10.1038/s41587-019-0209-9</citation> + </citations> +</tool> |