Mercurial > repos > rnateam > viennarna_rnafold

changeset 6:b31dcdb31209 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/vienna_rna commit e3c20fec5dafc424d55a4de77304e79e3c88b76b-dirty
author rnateam
date Fri, 22 Sep 2017 15:57:19 -0400
parents b05424042661
children 86f517dcfdfb
files rnafold.xml
diffstat 1 files changed, 7 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/rnafold.xml	Tue Jul 18 01:49:11 2017 -0400
+++ b/rnafold.xml	Fri Sep 22 15:57:19 2017 -0400
@@ -201,7 +201,7 @@
                 <when value="none"></when>
 		<when value="inFile"></when>
                     <when value="fromFile">
-                        <param name="constraintsFile" type="data" format="*" label="Constraints file" argument="--constraint"/>
+                        <param name="constraintsFile" type="data" format="txt" label="Constraints file" argument="--constraint"/>
                         <param name="batch" type="boolean" checked="false" truevalue="--batch" falsevalue=""
                             label="Use constraints for all alignment records"
                             help="Usually, constraints provided from input file are only applied to a single sequence alignment. Therefore, RNAalifold will stop its computation and quit after the first input alignment was processed. Using this switch, RNAfold processes all sequence alignments in the input and applies the same provided constraints to each of them."
@@ -261,7 +261,12 @@
                         <when value="notUsed">
                         </when>
                 </conditional>
-                <param argument="--motif" type="text" value="" label="Sequence structure energy" help="Specify stabilizing effect of ligand binding to a particular sequence/structure motif. Some ligands binding to RNAs require and/or induce particular sequence and structure motifs. For instance they bind to an interior loop, or small hairpin loop. If for such cases a binding free energy is known, the binding and therefore stabilizing effect of the ligand can be included in the folding recursions. Interior loop motifs are specified as concatenations of 5’ and 3’ motif, separated by an ’&amp;’ character. Energy contributions must be specified in kcal/mol."/>
+                <param argument="--motif" type="text" value="" label="Sequence structure energy" help="Specify stabilizing effect of ligand binding to a particular sequence/structure motif. Some ligands binding to RNAs require and/or induce particular sequence and structure motifs. For instance they bind to an interior loop, or small hairpin loop. If for such cases a binding free energy is known, the binding and therefore stabilizing effect of the ligand can be included in the folding recursions. Interior loop motifs are specified as concatenations of 5’ and 3’ motif, separated by an ’&amp;’ character. Energy contributions must be specified in kcal/mol.">
+                    <sanitizer>
+                        <valid initial="string.printable">
+                        </valid>
+                    </sanitizer>
+				</param>
         </section>
         <section name="IDs" title="Naming Conventions">
             <param name="auto_id"