Mercurial > repos > rnateam > viennarna_rnacofold
changeset 1:cb8201484ad8 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/vienna_rna commit 14f0b39f64982773ef0367379b915f742eabcc1b
author | rnateam |
---|---|
date | Wed, 21 Dec 2016 17:32:46 -0500 |
parents | f3d4656ed57c |
children | f3384a8b45a2 |
files | macros.xml rnacofold.xml |
diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/macros.xml Tue Dec 06 12:33:31 2016 -0500 +++ b/macros.xml Wed Dec 21 17:32:46 2016 -0500 @@ -1,7 +1,7 @@ <macros> <xml name="requirements"> <requirements> - <requirement version="2.2.10">viennarna</requirement> + <requirement type="package" version="2.2.10">viennarna</requirement> </requirements> </xml> <token name="@VERSION@">2.2.10</token>
--- a/rnacofold.xml Tue Dec 06 12:33:31 2016 -0500 +++ b/rnacofold.xml Wed Dec 21 17:32:46 2016 -0500 @@ -131,8 +131,8 @@ <repeat name="concfiles" title="A file with initial concentrations for the two sequences" default="0" max="1" help="The table consits of arbitrary many lines with just two numbers (the concentration of sequence A and B). This option will automatically toggle the −c (and thus -a and --all_pf) options"> <param type="data" name="concfile" format="*" label="Concentrations file"/> </repeat> - <param argument="--pfScale" type="float" value="1.07" label="Scaling factor" help="In the calculation of the pf use scale*mfe as an estimate for the ensemble free energy (used to avoid overflows). The default is 1.07, useful values are 1.0 to 1.2. Occasionally needed for long sequences." argumen="--pfScale"/> - <param argument="--bppmThreshold" type="float" value="1e-5" label="Threshold for base pair probabilities" help="By setting the threshold the base pair probabilities that are included in the output can be varied. By default only those exceeding 1e−5 in probability will be shown as squares in the dot plot. Changing the threshold to any other value allows for increase or decrease of data." argumen="--bppmThreshold"/> + <param argument="--pfScale" type="float" value="1.07" label="Scaling factor" help="In the calculation of the pf use scale*mfe as an estimate for the ensemble free energy (used to avoid overflows). The default is 1.07, useful values are 1.0 to 1.2. Occasionally needed for long sequences."/> + <param argument="--bppmThreshold" type="float" value="1e-5" label="Threshold for base pair probabilities" help="By setting the threshold the base pair probabilities that are included in the output can be varied. By default only those exceeding 1e−5 in probability will be shown as squares in the dot plot. Changing the threshold to any other value allows for increase or decrease of data."/> <param argument="--gquad" type="boolean" truevalue="--gquad" falsevalue="" checked="false" label="G Quadruplex formation" help="take into account G Quadruplex formation"/> </section> </inputs>