# HG changeset patch
# User iuc
# Date 1715151953 0
# Node ID 33fac436dd545f63548e5a12d71a8188f3dfe63a
# Parent  eb5dcbebd242cfb811d63a559cc7bee25ffaeafd
planemo upload for repository https://github.com/jonas-fuchs/varVAMP commit 1056d5cc83082613f5d92b22b4e531fa9d505b91

diff -r eb5dcbebd242 -r 33fac436dd54 macros.xml
--- a/macros.xml	Fri Apr 26 13:06:36 2024 +0000
+++ b/macros.xml	Wed May 08 07:05:53 2024 +0000
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <macros>
-    <token name="@TOOL_VERSION@">1.1.3</token>
+    <token name="@TOOL_VERSION@">1.2.0</token>
     <token name="@VERSION_SUFFIX@">0</token>
     <xml name="main_parameters">
         <conditional name="main_params">
@@ -53,7 +53,6 @@
                         <section name="blast_hits_usage" title="varVAMP settings for handling BLAST hits">
                             <param name="BLAST_MAX_DIFF" type="float" min="0" max="1" value="0.5" label="BLAST_MAX_DIFF" help="Minimal fraction of identity to primer to consider a BLAST hit an off-target primer binding site" />
                             <param name="BLAST_SIZE_MULTI" type="float" min="1" value="2" label="BLAST_SIZE_MULTI" help="Disregard off-target amplicons with a length greater than the configured maximal length of target amplicons multiplied by this value" />
-                            <param name="BLAST_PENALTY" type="integer" min="0" value="50" label="BLAST_PENALTY" help="Extra penalty imposed on amplicons with off-target primer products; the default of 50 should be high enough to consider such amplicons only when no other amplicons without off-target products can be found." />
                         </section>
                     </when>
                 </conditional>
diff -r eb5dcbebd242 -r 33fac436dd54 varvamp.xml
--- a/varvamp.xml	Fri Apr 26 13:06:36 2024 +0000
+++ b/varvamp.xml	Wed May 08 07:05:53 2024 +0000
@@ -103,7 +103,6 @@
 }
 BLAST_MAX_DIFF = $mode.filter_blast_hits.blast_advanced_cond.blast_hits_usage.BLAST_MAX_DIFF
 BLAST_SIZE_MULTI = $mode.filter_blast_hits.blast_advanced_cond.blast_hits_usage.BLAST_SIZE_MULTI
-BLAST_PENALTY = $mode.filter_blast_hits.blast_advanced_cond.blast_hits_usage.BLAST_PENALTY
     #end if
   #end if
         ]]></configfile>