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view qiime2__feature_table__tabulate_seqs.xml @ 2:6d5cd7bcc0d0 draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__feature_table commit 65e4952f33eb335528e8553150e9097e5ea8f556
author | q2d2 |
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date | Thu, 08 Jun 2023 19:44:24 +0000 |
parents | 38b618d1eb4d |
children | 2feea4c63f4c |
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<?xml version='1.0' encoding='utf-8'?> <!-- Copyright (c) 2023, 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) for: qiime2 (version: 2023.5.1) --> <tool name="qiime2 feature-table tabulate-seqs" id="qiime2__feature_table__tabulate_seqs" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause"> <description>View sequence associated with each feature</description> <requirements> <container type="docker">quay.io/qiime2/core:2023.5</container> </requirements> <version_command>q2galaxy version feature_table</version_command> <command detect_errors="exit_code">q2galaxy run feature_table tabulate_seqs '$inputs'</command> <configfiles> <inputs name="inputs" data_style="paths"/> </configfiles> <inputs> <param name="data" type="data" format="qza" label="data: FeatureData[Sequence | AlignedSequence]" help="[required] The feature sequences to be tabulated."> <options options_filter_attribute="metadata.semantic_type"> <filter type="add_value" value="FeatureData[Sequence]"/> <filter type="add_value" value="FeatureData[AlignedSequence]"/> </options> <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[AlignedSequence]', 'FeatureData[Sequence]']</validator> </param> </inputs> <outputs> <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/> </outputs> <tests> <test> <param name="data" value="tabulate_seqs.test0.rep-seqs.qza" ftype="qza"/> <output name="visualization" ftype="qzv"> <assert_contents> <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml"> <has_line_matching expression="type: Visualization"/> </has_archive_member> </assert_contents> </output> </test> </tests> <help> QIIME 2: feature-table tabulate-seqs ==================================== View sequence associated with each feature Outputs: -------- :visualization.qzv: <no description> | Description: ------------ Generate tabular view of feature identifier to sequence mapping, including links to BLAST each sequence against the NCBI nt database. Examples: --------- feature_table_tabulate_seqs *************************** Using the ``qiime2 feature-table tabulate-seqs`` tool: #. Set *"data"* to ``#: rep-seqs.qza`` #. Press the ``Execute`` button. Once completed, for the new entry in your history, use the ``Edit`` button to set the name as follows: (Renaming is optional, but it will make any subsequent steps easier to complete.) .. list-table:: :align: left :header-rows: 1 * - History Name - *"Name"* to set (be sure to press ``Save``) * - ``#: qiime2 feature-table tabulate-seqs [...] : visualization.qzv`` - ``rep-seqs.qzv`` | </help> <citations> <citation type="doi">10.1093/nar/gkw1071</citation> <citation type="doi">10.1093/nar/gkn201</citation> <citation type="doi">10.1038/s41587-019-0209-9</citation> </citations> </tool>