diff macros_conffiles.xml @ 4:184dfd9e113d draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"

--- a/macros_conffiles.xml	Mon Dec 02 08:14:29 2019 -0500
+++ b/macros_conffiles.xml	Thu Jan 09 10:03:02 2020 -0500
@@ -163,10 +163,12 @@
 <highlights>
 #for $hi, $data in enumerate($sec_highlight.data):
     <highlight>
-    file       = data/highlight-${hi}.txt # ${data.data_source.element_identifier}
-    r1         = ${data.r1}r
-    r0         = ${data.r0}r
-    fill_color = $circosColor($data.fill_color)
+    file             = data/highlight-${hi}.txt # ${data.data_source.element_identifier}
+    r1               = ${data.r1}r
+    r0               = ${data.r0}r
+    fill_color       = $circosColorAlpha($data.fill_color)
+    stroke_color     = $circosColorAlpha($data.stroke_color)
+    stroke_thickness = ${data.stroke_thickness}
 
     <rules>
     #for $rule in $data.sec_rule.rules:
@@ -175,8 +177,7 @@
                 #if str($condition.application.application_select) == "1":
                     condition = 1
                 #elif str($condition.application.application_select) == "on":
-                    #set on_str = ' '.join([ "on(%s)" % $chr.strip() for $chr in $condition.application.on_genomes.split(',') ])
-                    condition = $on_str
+                    condition = on($condition.application.on_genomes)
                 #elif str($condition.application.application_select) == "pos":
                     #if $condition.application.pos_gt:
                     condition = var(start) > $condition.application.pos_gt
@@ -416,7 +417,7 @@
 <links>
 #for $hi, $data in enumerate($sec_links.data):
 <link>
-    file                 = data/links-${hi}.txt
+    file                 = data/links-${hi}.txt # ${data.data_source.element_identifier}
     radius               = ${data.radius}r
     ribbon               = ${data.linktype.ribbon}
   #if $data.linktype.ribbon == 'yes'