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author | q2d2 |
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date | Mon, 03 Jun 2024 23:29:55 +0000 |
parents | 2f4e088869d4 |
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<?xml version='1.0' encoding='utf-8'?> <!-- 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: 2024.5.0) for: qiime2 (version: 2024.5.0) --> <tool name="qiime2 phylogeny filter-table" id="qiime2__phylogeny__filter_table" version="2024.5.0+q2galaxy.2024.5.0" profile="22.05" license="BSD-3-Clause"> <description>Remove features from table if they're not present in tree.</description> <requirements> <container type="docker">quay.io/qiime2/amplicon:2024.5</container> </requirements> <version_command>q2galaxy version phylogeny</version_command> <command detect_errors="exit_code">q2galaxy run phylogeny filter_table '$inputs'</command> <configfiles> <inputs name="inputs" data_style="staging_path_and_source_path"/> </configfiles> <inputs> <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency¹ | RelativeFrequency² | PresenceAbsence³]" help="[required] Feature table that features should be filtered from."> <options options_filter_attribute="metadata.semantic_type"> <filter type="add_value" value="FeatureTable[PresenceAbsence]"/> <filter type="add_value" value="FeatureTable[RelativeFrequency]"/> <filter type="add_value" value="FeatureTable[Frequency]"/> </options> <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]', 'FeatureTable[PresenceAbsence]', 'FeatureTable[RelativeFrequency]']</validator> </param> <param name="tree" type="data" format="qza" label="tree: Phylogeny[Rooted | Unrooted]" help="[required] Tree where tip identifiers are the feature identifiers that should be retained in the table."> <options options_filter_attribute="metadata.semantic_type"> <filter type="add_value" value="Phylogeny[Rooted]"/> <filter type="add_value" value="Phylogeny[Unrooted]"/> </options> <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['Phylogeny[Rooted]', 'Phylogeny[Unrooted]']</validator> </param> </inputs> <outputs> <data name="filtered_table" format="qza" label="${tool.name} on ${on_string}: filtered_table.qza" from_work_dir="filtered_table.qza"/> </outputs> <tests/> <help> QIIME 2: phylogeny filter-table =============================== Remove features from table if they're not present in tree. Outputs: -------- :filtered_table.qza: The resulting feature table. | Description: ------------ Remove features from a feature table if their identifiers are not tip identifiers in tree. | </help> <citations> <citation type="doi">10.1038/s41587-019-0209-9</citation> </citations> </tool>