Mercurial > repos > tduigou > cloning_simulation

diff cloning_similation.xml @ 13:7d1778f5e164 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master commit 6ae809b563b40bcdb6be2e74fe2a84ddad5484ae
author tduigou
date Mon, 26 May 2025 10:10:46 +0000
parents 07e902da89ad
children 16ccb36aa8e3
line wrap: on
line diff
--- a/cloning_similation.xml	Mon May 26 09:57:55 2025 +0000
+++ b/cloning_similation.xml	Mon May 26 10:10:46 2025 +0000
@@ -40,7 +40,7 @@
             --output_simulation 'output_zip.zip'
             --enzyme '$adv.enzyme'
             --topology '$topology' &&
-        cp 'output_zip.zip' '$output_zip'
+        cp 'output_zip.zip' '$output_zip' && echo DEBUG && ls 'outdir_gb'
     ]]></command>
     <inputs>
         <param name="genbank_files" type="data_collection" collection_type="list" format="genbank,fasta" label="GenBank and/or Fasta File(s)" optional="True"/>
@@ -54,8 +54,8 @@
             <option value="LigaseCyclingReactionAssembly">lcr_assembly</option>
         </param>
         <param name="topology" type="select" label="Assambly Topology" help="select circular or linear topology">
-            <option value="linear" selected="True">linear</option>
-            <option value="circular">circular</option>
+            <option value="linear">linear</option>
+            <option value="circular" selected="True">circular</option>
         </param>
         <section name="adv" title="Advanced Options" expanded="false">
             <param name="enzyme" type="text" label="Enzyme" value="auto" optional="True"/>