Mercurial > repos > q2d2 > qiime2__quality_control__bowtie2_build
comparison qiime2__quality_control__bowtie2_build.xml @ 0:78420e8bfd49 draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__quality_control commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
| author | q2d2 |
|---|---|
| date | Mon, 29 Aug 2022 20:21:32 +0000 |
| parents | |
| children | dc6b98098f4f |
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| -1:000000000000 | 0:78420e8bfd49 |
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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 quality-control bowtie2-build" id="qiime2__quality_control__bowtie2_build" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> | |
| 14 <description>Build bowtie2 index from reference sequences.</description> | |
| 15 <requirements> | |
| 16 <container type="docker">quay.io/qiime2/core:2022.8</container> | |
| 17 </requirements> | |
| 18 <version_command>q2galaxy version quality_control</version_command> | |
| 19 <command detect_errors="aggressive">q2galaxy run quality_control bowtie2_build '$inputs'</command> | |
| 20 <configfiles> | |
| 21 <inputs name="inputs" data_style="paths"/> | |
| 22 </configfiles> | |
| 23 <inputs> | |
| 24 <param name="sequences" type="data" format="qza" label="sequences: FeatureData[Sequence]" help="[required] Reference sequences used to build bowtie2 index."> | |
| 25 <options options_filter_attribute="metadata.semantic_type"> | |
| 26 <filter type="add_value" value="FeatureData[Sequence]"/> | |
| 27 </options> | |
| 28 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Sequence]']</validator> | |
| 29 </param> | |
| 30 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> | |
| 31 <param name="n_threads" type="integer" min="1" value="1" label="n_threads: Int % Range(1, None)" help="[default: 1] Number of threads to launch"/> | |
| 32 </section> | |
| 33 </inputs> | |
| 34 <outputs> | |
| 35 <data name="database" format="qza" label="${tool.name} on ${on_string}: database.qza" from_work_dir="database.qza"/> | |
| 36 </outputs> | |
| 37 <tests/> | |
| 38 <help> | |
| 39 QIIME 2: quality-control bowtie2-build | |
| 40 ====================================== | |
| 41 Build bowtie2 index from reference sequences. | |
| 42 | |
| 43 | |
| 44 Outputs: | |
| 45 -------- | |
| 46 :database.qza: Bowtie2 index. | |
| 47 | |
| 48 | | |
| 49 | |
| 50 Description: | |
| 51 ------------ | |
| 52 Build bowtie2 index from reference sequences. | |
| 53 | |
| 54 | |
| 55 | | |
| 56 | |
| 57 </help> | |
| 58 <citations> | |
| 59 <citation type="bibtex">@article{cite1, | |
| 60 author = {Langmead, Ben and Salzberg, Steven L}, | |
| 61 journal = {Nature methods}, | |
| 62 number = {4}, | |
| 63 pages = {357}, | |
| 64 publisher = {Nature Publishing Group}, | |
| 65 title = {Fast gapped-read alignment with Bowtie 2}, | |
| 66 volume = {9}, | |
| 67 year = {2012} | |
| 68 } | |
| 69 </citation> | |
| 70 <citation type="doi">10.1038/s41587-019-0209-9</citation> | |
| 71 </citations> | |
| 72 </tool> |