Mercurial > repos > florianbegusch > qiime2_suite
comparison qiime2/qiime_phylogeny_iqtree-ultrafast-bootstrap.xml @ 4:914fa4daf16a draft
Fixes
author | florianbegusch |
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date | Wed, 31 Jul 2019 03:06:00 -0400 |
parents | 370e0b6e9826 |
children | de4c22a52df4 |
comparison
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3:558645416841 | 4:914fa4daf16a |
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11 | 11 |
12 #if str($pseed): | 12 #if str($pseed): |
13 --p-seed="$pseed" | 13 --p-seed="$pseed" |
14 #end if | 14 #end if |
15 | 15 |
16 #if $pncores: | 16 |
17 --p-n-cores=$pncores | 17 #set $pncores = '${GALAXY_SLOTS:-4}' |
18 #end if | 18 #if str($pncores): |
19 --p-n-cores=$pncores | |
20 #end if | |
21 | |
19 | 22 |
20 #if $pnruns: | 23 #if $pnruns: |
21 --p-n-runs=$pnruns | 24 --p-n-runs=$pnruns |
22 #end if | 25 #end if |
23 | 26 |
98 cp otree.qza $otree | 101 cp otree.qza $otree |
99 ]]></command> | 102 ]]></command> |
100 <inputs> | 103 <inputs> |
101 <param format="qza,no_unzip.zip" label="--i-alignment: ARTIFACT FeatureData[AlignedSequence] Aligned sequences to be used for phylogenetic reconstruction. [required]" name="ialignment" optional="False" type="data"/> | 104 <param format="qza,no_unzip.zip" label="--i-alignment: ARTIFACT FeatureData[AlignedSequence] Aligned sequences to be used for phylogenetic reconstruction. [required]" name="ialignment" optional="False" type="data"/> |
102 <param label="--p-seed: INTEGER Random number seed. If not set, program defaults will be used. See IQ-TREE manual for details. [optional]" name="pseed" optional="True" type="integer"/> | 105 <param label="--p-seed: INTEGER Random number seed. If not set, program defaults will be used. See IQ-TREE manual for details. [optional]" name="pseed" optional="True" type="integer"/> |
103 <param label="--p-n-cores: INTEGER The number of cores to use for parallel processing. Range(0, None) Use '0' to let IQ-TREE automatically determine the optimal number of cores to use. [default: 1]" name="pncores" optional="True" type="integer" min="0" value="1"/> | |
104 <param label="--p-n-runs: INTEGER Number of indepedent runs. Multiple independent Range(1, None) runs (e.g. 10) can outperform a single run in terms of likelihood maximisation. [default: 1]" name="pnruns" optional="True" type="integer" min="1" value="1"/> | 106 <param label="--p-n-runs: INTEGER Number of indepedent runs. Multiple independent Range(1, None) runs (e.g. 10) can outperform a single run in terms of likelihood maximisation. [default: 1]" name="pnruns" optional="True" type="integer" min="1" value="1"/> |
105 <param label="--p-substitution-model: " name="psubstitutionmodel" optional="True" type="select"> | 107 <param label="--p-substitution-model: " name="psubstitutionmodel" optional="True" type="select"> |
106 <option selected="True" value="None">Selection is Optional</option> | 108 <option selected="True" value="None">Selection is Optional</option> |
107 <option value="JC">JC</option> | 109 <option value="JC">JC</option> |
108 <option value="JC+I">JC+I</option> | 110 <option value="JC+I">JC+I</option> |