Mercurial > repos > q2d2 > qiime2__rescript__cull_seqs
comparison qiime2__rescript__cull_seqs.xml @ 2:ae9cfce668bf draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__rescript commit 5f71b597c9495eae67a447744fded834f56ca1f7
| author | q2d2 |
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| date | Wed, 30 Oct 2024 19:54:46 +0000 |
| parents | b9948cab53e8 |
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| 1:b9948cab53e8 | 2:ae9cfce668bf |
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| 4 | 4 |
| 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) | 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) |
| 6 --> | 6 --> |
| 7 <!-- | 7 <!-- |
| 8 This tool was automatically generated by: | 8 This tool was automatically generated by: |
| 9 q2galaxy (version: 2024.5.0) | 9 q2galaxy (version: 2024.10.0) |
| 10 for: | 10 for: |
| 11 qiime2 (version: 2024.5.0) | 11 qiime2 (version: 2024.10.1) |
| 12 --> | 12 --> |
| 13 <tool name="qiime2 rescript cull-seqs" id="qiime2__rescript__cull_seqs" version="2024.5.0+q2galaxy.2024.5.0" profile="22.05" license="BSD-3-Clause"> | 13 <tool name="qiime2 rescript cull-seqs" id="qiime2__rescript__cull_seqs" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause"> |
| 14 <description>Removes sequences that contain at least the specified number of degenerate bases and/or homopolymers of a given length.</description> | 14 <description>Removes sequences that contain at least the specified number of degenerate bases and/or homopolymers of a given length.</description> |
| 15 <xrefs> | |
| 16 <xref type="bio.tools">qiime2</xref> | |
| 17 </xrefs> | |
| 15 <requirements> | 18 <requirements> |
| 16 <container type="docker">quay.io/qiime2/amplicon:2024.5</container> | 19 <container type="docker">quay.io/qiime2/amplicon:2024.10</container> |
| 17 </requirements> | 20 </requirements> |
| 18 <version_command>q2galaxy version rescript</version_command> | 21 <version_command>q2galaxy version rescript</version_command> |
| 19 <command detect_errors="exit_code">q2galaxy run rescript cull_seqs '$inputs'</command> | 22 <command detect_errors="exit_code">q2galaxy run rescript cull_seqs '$inputs'</command> |
| 20 <configfiles> | 23 <configfiles> |
| 21 <inputs name="inputs" data_style="staging_path_and_source_path"/> | 24 <inputs name="inputs" data_style="staging_path_and_source_path"/> |
| 22 </configfiles> | 25 </configfiles> |
| 23 <inputs> | 26 <inputs> |
| 24 <param name="sequences" type="data" format="qza" label="sequences: FeatureData[Sequence | RNASequence]" help="[required] DNA or RNA Sequences to be screened for removal based on degenerate base and homopolymer screening criteria."> | 27 <param name="sequences" type="data" format="qza" label="sequences: FeatureData[Sequence | RNASequence]" help="[required] DNA or RNA Sequences to be screened for removal based on degenerate base and homopolymer screening criteria."> |
| 25 <options options_filter_attribute="metadata.semantic_type"> | 28 <options options_filter_attribute="metadata.semantic_type"> |
| 29 <filter type="add_value" value="FeatureData[Sequence]"/> | |
| 26 <filter type="add_value" value="FeatureData[RNASequence]"/> | 30 <filter type="add_value" value="FeatureData[RNASequence]"/> |
| 27 <filter type="add_value" value="FeatureData[Sequence]"/> | |
| 28 </options> | 31 </options> |
| 29 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[RNASequence]', 'FeatureData[Sequence]']</validator> | 32 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[RNASequence]', 'FeatureData[Sequence]']</validator> |
| 30 </param> | 33 </param> |
| 31 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> | 34 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> |
| 32 <param name="num_degenerates" type="integer" min="1" value="5" label="num_degenerates: Int % Range(1, None)" help="[default: 5] Sequences with N, or more, degenerate bases will be removed."/> | 35 <param name="num_degenerates" type="integer" min="1" value="5" label="num_degenerates: Int % Range(1, None)" help="[default: 5] Sequences with N, or more, degenerate bases will be removed."/> |