Mercurial > repos > bgruening > canu

diff canu.xml @ 2:c5b7390290b1 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/canu commit ecd77cd558a9b941fd0dfb71c4e534feba3ee7da
author bgruening
date Sun, 26 May 2019 10:52:09 -0400
parents 58346ef3116b
children 5732f959936a
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--- a/canu.xml	Sat Jun 09 13:46:56 2018 -0400
+++ b/canu.xml	Sun May 26 10:52:09 2019 -0400
@@ -1,7 +1,7 @@
-<tool id="canu" name="Canu assembler" version="1.7">
+<tool id="canu" name="Canu assembler" version="1.8">
     <description>Assembler optimized for long error-prone reads such as PacBio, Oxford Nanopore </description>
     <requirements>
-        <requirement type="package" version="1.7">canu</requirement>
+        <requirement type="package" version="1.8">canu</requirement>
     </requirements>
     <version_command>canu --version</version_command>
     <command detect_errors="exit_code">
@@ -41,20 +41,18 @@
             ${contigFilter.lowCovDepth}
         '
         genomeSize=$genomeSize
-        stopOnReadQuality=false
         minThreads=\${GALAXY_SLOTS:-4}
         maxThreads=\${GALAXY_SLOTS:-4}
         obtovlThreads=\${GALAXY_SLOTS:-4}
         utgovlThreads=\${GALAXY_SLOTS:-4}
         batThreads=\${GALAXY_SLOTS:-4}
-        batMemory=\${GALAXY_MEMORY_MB:-7}
-        cormhapMemory=\${GALAXY_MEMORY_MB:-7}
-        obtovlMemory=\${GALAXY_MEMORY_MB:-7}
-        utgovlMemory=\${GALAXY_MEMORY_MB:-7}
+        batMemory=\${GALAXY_MEMORY_MB:-4096}M
+        cormhapMemory=\${GALAXY_MEMORY_MB:-4096}M
+        obtovlMemory=\${GALAXY_MEMORY_MB:-4096}M
+        utgovlMemory=\${GALAXY_MEMORY_MB:-4096}M
         gfaThreads=\${GALAXY_SLOTS:-4}
         corThreads=\${GALAXY_SLOTS:-4}
         cnsThreads=\${GALAXY_SLOTS:-4}
-        gnuplotTested=true
         useGrid=false
         $mode
         #for $counter, $input in enumerate($inputs):