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comparison iqtree.xml @ 15:f4adc3371cac draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/iqtree/ commit fce566406340cd87aeae2cfaac40e53dfd0db5ff
author iuc
date Tue, 20 Aug 2024 08:50:41 +0000
parents 9454e1c4f022
children 8a15b044f890
comparison
equal deleted inserted replaced
14:55b91acb1314 15:f4adc3371cac
358 $bootstrap_parameters.nonparametric_bootstrap.bcon 358 $bootstrap_parameters.nonparametric_bootstrap.bcon
359 $bootstrap_parameters.nonparametric_bootstrap.bonly 359 $bootstrap_parameters.nonparametric_bootstrap.bonly
360 $bootstrap_parameters.nonparametric_bootstrap.tbe 360 $bootstrap_parameters.nonparametric_bootstrap.tbe
361 361
362 #if str($miscellaneous_options.fconst) != '' 362 #if str($miscellaneous_options.fconst) != ''
363 --fconst '$miscellaneous_options.fconst' 363 -fconst '$miscellaneous_options.fconst'
364 #end if 364 #end if
365 ]]> 365 ]]>
366 </command> 366 </command>
367 <inputs> 367 <inputs>
368 <section name="general_options" expanded="true" title="General options"> 368 <section name="general_options" expanded="true" title="General options">
369 <param argument="-s" type="data" format="txt,fasta,phylip,nex,clustal,msf" optional="true" label="Specify input alignment file in PHYLIP, FASTA, NEXUS, CLUSTAL or MSF format."/> 369 <param argument="-s" type="data" format="txt,fasta,phylip,nex,clustal,msf" optional="true" label="Specify input alignment file in PHYLIP, FASTA, NEXUS, CLUSTAL or MSF format."/>
370 <param argument="-o" type="text" optional="true" label="Comma-separated list of taxons to output"> 370 <param argument="-o" type="text" optional="true" label="Specify an outgroup taxon name to root the tree" help="If an outgroup taxon name is not specified, the first taxon in the alignment will be used to root the tree">
371 <expand macro="sanitize_query" /> 371 <expand macro="sanitize_query" />
372 </param> 372 </param>
373 373
374 <param type="boolean" name="short_alignments" label="Short alignments" help="IQ-TREE will fail if given too many threads on input data that consists of short alignments, this option will force the use of a single thread." /> 374 <param type="boolean" name="short_alignments" label="Short alignments" help="IQ-TREE will fail if given too many threads on input data that consists of short alignments, this option will force the use of a single thread." />
375 <param argument="--seqtype" type="select" label="Specify sequence type as either of DNA, AA, BIN, MORPH, CODON or NT2AA for DNA, amino-acid, binary, morphological, codon or DNA-to-AA-translated sequences"> 375 <param argument="--seqtype" type="select" label="Specify sequence type as either of DNA, AA, BIN, MORPH, CODON or NT2AA for DNA, amino-acid, binary, morphological, codon or DNA-to-AA-translated sequences">