Mercurial > repos > q2d2 > qiime2__phylogeny__filter_table
comparison qiime2__phylogeny__filter_table.xml @ 0:fce718a0b52f draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__phylogeny commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
| author | q2d2 |
|---|---|
| date | Mon, 29 Aug 2022 20:14:41 +0000 |
| parents | |
| children | 63f054c1fce2 |
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| -1:000000000000 | 0:fce718a0b52f |
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| 1 <?xml version='1.0' encoding='utf-8'?> | |
| 2 <!-- | |
| 3 Copyright (c) 2022, QIIME 2 development team. | |
| 4 | |
| 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) | |
| 6 --> | |
| 7 <!-- | |
| 8 This tool was automatically generated by: | |
| 9 q2galaxy (version: 2022.8.1) | |
| 10 for: | |
| 11 qiime2 (version: 2022.8.1) | |
| 12 --> | |
| 13 <tool name="qiime2 phylogeny filter-table" id="qiime2__phylogeny__filter_table" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> | |
| 14 <description>Remove features from table if they're not present in tree.</description> | |
| 15 <requirements> | |
| 16 <container type="docker">quay.io/qiime2/core:2022.8</container> | |
| 17 </requirements> | |
| 18 <version_command>q2galaxy version phylogeny</version_command> | |
| 19 <command detect_errors="aggressive">q2galaxy run phylogeny filter_table '$inputs'</command> | |
| 20 <configfiles> | |
| 21 <inputs name="inputs" data_style="paths"/> | |
| 22 </configfiles> | |
| 23 <inputs> | |
| 24 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency¹ | RelativeFrequency² | PresenceAbsence³]" help="[required] Feature table that features should be filtered from."> | |
| 25 <options options_filter_attribute="metadata.semantic_type"> | |
| 26 <filter type="add_value" value="FeatureTable[PresenceAbsence]"/> | |
| 27 <filter type="add_value" value="FeatureTable[Frequency]"/> | |
| 28 <filter type="add_value" value="FeatureTable[RelativeFrequency]"/> | |
| 29 </options> | |
| 30 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]', 'FeatureTable[PresenceAbsence]', 'FeatureTable[RelativeFrequency]']</validator> | |
| 31 </param> | |
| 32 <param name="tree" type="data" format="qza" label="tree: Phylogeny[Rooted | Unrooted]" help="[required] Tree where tip identifiers are the feature identifiers that should be retained in the table."> | |
| 33 <options options_filter_attribute="metadata.semantic_type"> | |
| 34 <filter type="add_value" value="Phylogeny[Unrooted]"/> | |
| 35 <filter type="add_value" value="Phylogeny[Rooted]"/> | |
| 36 </options> | |
| 37 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['Phylogeny[Rooted]', 'Phylogeny[Unrooted]']</validator> | |
| 38 </param> | |
| 39 </inputs> | |
| 40 <outputs> | |
| 41 <data name="filtered_table" format="qza" label="${tool.name} on ${on_string}: filtered_table.qza" from_work_dir="filtered_table.qza"/> | |
| 42 </outputs> | |
| 43 <tests/> | |
| 44 <help> | |
| 45 QIIME 2: phylogeny filter-table | |
| 46 =============================== | |
| 47 Remove features from table if they're not present in tree. | |
| 48 | |
| 49 | |
| 50 Outputs: | |
| 51 -------- | |
| 52 :filtered_table.qza: The resulting feature table. | |
| 53 | |
| 54 | | |
| 55 | |
| 56 Description: | |
| 57 ------------ | |
| 58 Remove features from a feature table if their identifiers are not tip identifiers in tree. | |
| 59 | |
| 60 | |
| 61 | | |
| 62 | |
| 63 </help> | |
| 64 <citations> | |
| 65 <citation type="doi">10.1038/s41587-019-0209-9</citation> | |
| 66 </citations> | |
| 67 </tool> |