Mercurial > repos > q2d2 > qiime2__phylogeny__iqtree_ultrafast_bootstrap
changeset 2:adccaaf33660 draft
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__phylogeny commit 65e4952f33eb335528e8553150e9097e5ea8f556
| author | q2d2 |
|---|---|
| date | Thu, 08 Jun 2023 19:50:07 +0000 |
| parents | caa6e396efc4 |
| children | 7f29e76a07c2 |
| files | qiime2__phylogeny__iqtree_ultrafast_bootstrap.xml test-data/align_to_tree_mafft_fasttree.test0.rep-seqs.qza |
| diffstat | 2 files changed, 6 insertions(+), 6 deletions(-) [+] |
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--- a/qiime2__phylogeny__iqtree_ultrafast_bootstrap.xml Fri Jan 13 22:59:07 2023 +0000 +++ b/qiime2__phylogeny__iqtree_ultrafast_bootstrap.xml Thu Jun 08 19:50:07 2023 +0000 @@ -6,14 +6,14 @@ --> <!-- This tool was automatically generated by: - q2galaxy (version: 2022.11.1) + q2galaxy (version: 2023.5.0) for: - qiime2 (version: 2022.11.1) + qiime2 (version: 2023.5.1) --> -<tool name="qiime2 phylogeny iqtree-ultrafast-bootstrap" id="qiime2__phylogeny__iqtree_ultrafast_bootstrap" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause"> +<tool name="qiime2 phylogeny iqtree-ultrafast-bootstrap" id="qiime2__phylogeny__iqtree_ultrafast_bootstrap" version="2023.5.0+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause"> <description>Construct a phylogenetic tree with IQ-TREE with bootstrap supports.</description> <requirements> - <container type="docker">quay.io/qiime2/core:2022.11</container> + <container type="docker">quay.io/qiime2/core:2023.5</container> </requirements> <version_command>q2galaxy version phylogeny</version_command> <command detect_errors="exit_code">q2galaxy run phylogeny iqtree_ultrafast_bootstrap '$inputs'</command> @@ -345,9 +345,9 @@ <param name="min_cor_ufboot" type="float" min="0.51" max="0.989999" optional="true" label="min_cor_ufboot: Float % Range(0.51, 0.99)" help="[optional] Minimum correlation coefficient. If not set, program defaults will be used.See IQ-TREE manual for details."/> <param name="ep_break_ufboot" type="float" min="0.01" max="0.989999" optional="true" label="ep_break_ufboot: Float % Range(0.01, 0.99)" help="[optional] Epsilon value to break tie. If not set, program defaults will be used. See IQ-TREE manual for details."/> <param name="allnni" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="allnni: Bool" help="[default: No] Perform more thorough NNI search."/> - <param name="alrt" type="integer" min="1000" optional="true" label="alrt: Int % Range(1000, None)" help="[optional] Single branch test method. Number of bootstrap replicates to perform an SH-like approximate likelihood ratio test (SH-aLRT). Minimum of 1000 replicates is recomended. Can be used with other 'single branch test methods'. Values reported in the order of: alrt, lbp, abayes."/> + <param name="alrt" type="integer" min="1000" optional="true" label="alrt: Int % Range(1000, None)" help="[optional] Single branch test method. Number of bootstrap replicates to perform an SH-like approximate likelihood ratio test (SH-aLRT). Minimum of 1000 replicates is required. Can be used with other 'single branch test methods'. Values reported in the order of: alrt, lbp, abayes."/> <param name="abayes" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="abayes: Bool" help="[default: No] Single branch test method. Performs an approximate Bayes test. Can be used with other 'single branch test methods' and ultrafast bootstrap. Values reported in the order of: alrt, lbp, abayes, ufboot."/> - <param name="lbp" type="integer" min="1000" optional="true" label="lbp: Int % Range(1000, None)" help="[optional] Single branch test method. Number of bootstrap replicates to perform a fast local bootstrap probability method. Minimum of 1000 replicates is recomended. Can be used with other 'single branch test methods'. Values reported in the order of: alrt, lbp, abayes, ufboot."/> + <param name="lbp" type="integer" min="1000" optional="true" label="lbp: Int % Range(1000, None)" help="[optional] Single branch test method. Number of bootstrap replicates to perform a fast local bootstrap probability method. Minimum of 1000 replicates is required. Can be used with other 'single branch test methods'. Values reported in the order of: alrt, lbp, abayes, ufboot."/> <param name="bnni" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="bnni: Bool" help="[default: No] Optimize UFBoot trees by NNI on bootstrap alignment. This option reduces the risk of overestimating branch supports with UFBoot due to severe model violations."/> <param name="safe" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="safe: Bool" help="[default: No] Safe likelihood kernel to avoid numerical underflow."/> </section>