Mercurial > repos > perssond > coreograph

diff coreograph.xml @ 1:57f1260ca94e draft

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"planemo upload commit fec9dc76b3dd17b14b02c2f04be9d30f71eba1ae"
author watsocam
date Fri, 11 Mar 2022 23:40:51 +0000
parents 99308601eaa6
children 224e0cf4aaeb
line wrap: on
line diff
--- a/coreograph.xml	Wed May 19 21:34:38 2021 +0000
+++ b/coreograph.xml	Fri Mar 11 23:40:51 2022 +0000
@@ -12,6 +12,8 @@
         ln -s $source_image `basename $type_corrected`;
 
         @CMD_BEGIN@
+
+        python \$UNET_PATH
         --imagePath `basename $type_corrected`
         --downsampleFactor $downsamplefactor
         --channel $channel
@@ -26,6 +28,10 @@
         --cluster
         #end if
 
+        #if $tissue
+        --tissue
+        #end if
+
         --outputPath .;
         
     ]]></command>
@@ -39,6 +45,7 @@
         <param name="sensitivity" type="float" value="0.3" label="Sensitivity"/>
         <!--<param name="usegrid" type="boolean" label="Use Grid"/>-->
         <param name="cluster" type="boolean" checked="false" label="Cluster"/>
+        <param name="tissue" type="boolean" checked="false" label="Tissue"/>
     </inputs>
 
     <outputs>