Mercurial > repos > rmarenco > hubarchivecreator

diff hubArchiveCreator.xml @ 11:d05236b15f81 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 3760d0c8353b924ecf994131a5c2eb381aa81fb2
author rmarenco
date Wed, 27 Jul 2016 10:10:49 -0400
parents acc233161f50
children 25809f699cb3
line wrap: on
line diff
--- a/hubArchiveCreator.xml	Thu Jul 21 05:58:51 2016 -0400
+++ b/hubArchiveCreator.xml	Wed Jul 27 10:10:49 2016 -0400
@@ -1,4 +1,4 @@
-<tool id="hubArchiveCreator" name="Hub Archive Creator" version="2.0.2">
+<tool id="hubArchiveCreator" name="Hub Archive Creator" version="2.3.0">
     <description>
         This Galaxy tool permits to prepare your files to be ready for
         Assembly Hub visualization.
@@ -11,9 +11,12 @@
         <requirement type="package" version="0.0.1">genePredToBed</requirement>
         <requirement type="package" version="1.2">samtools</requirement>
         <!-- Conda dependencies -->
+        <requirement type="package" version="332">ucsc-bedtobigbed</requirement>
+        <requirement type="package" version="332">ucsc-fatotwobit</requirement>
+        <requirement type="package" version="324">ucsc-genepredtobed</requirement>
         <requirement type="package" version="324">ucsc-gff3togenepred</requirement>
         <requirement type="package" version="324">ucsc-gtftogenepred</requirement>
-        <requirement type="package" version="324">ucsc-genepredtobed</requirement>
+        <requirement type="package" version="324">ucsc-twobitinfo</requirement>
         <requirement type="package" version="1.3.1">samtools</requirement>
     </requirements>
 
@@ -158,8 +161,8 @@
                 <when value="bed">
                     <conditional name="bedChoice">
                         <param name="bed_select" type="select" label="Bed Choice">
-                            <option value="bed" selected="true">Generic BED</option>
-                            <option value="bed_simple_repeats_option">BED simple repeats</option>
+                            <option value="bed" selected="true">BED Generic (bed3+)</option>
+                            <option value="bed_simple_repeats_option">BED Simple repeat (bed4+12 / simpleRepeat.as)</option>
                         </param>
                         <when value="bed">
                             <param