--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qcSTR/macros.xml	Sat Apr 23 16:34:03 2022 +0000
@@ -0,0 +1,35 @@
+<macros>
+    <token name="@tool_version@">4.1.0</token>
+    <token name="@INDEX_VCFS@"><![CDATA[##prepare input and indices
+#import os
+
+#def get_new_vcf_names(vcf_paths):
+    #set result = []
+    #for $vcf in $vcf_paths:
+        #set $split_path = $os.path.basename(vcf)
+        #set new_file_name = f"tmp_{split_path.split('.')[0]}.vcf.gz"
+        $result.append($new_file_name)
+    #end for
+    #return $result
+#end def
+#def index_vcfs(old_paths, new_paths):
+    #for ($left, $right) in $zip($old_paths, $new_paths):
+        ln -sfn $left $right &&
+        tabix -f -p  vcf $right &&
+    #end for
+#end def]]></token>
+    <xml name="requirements">
+        <requirements>
+            <requirement type="package" version="4.1.0">trtools</requirement>
+            <requirement type="package" version="1.14">samtools</requirement>
+        </requirements>
+    </xml>
+    <xml name="vcfTypes">
+        <option value="auto">Auto</option>
+        <option value="gangstr">GangSTR</option>
+        <option value="advntr">Advntr</option>
+        <option value="hipstr">HipSTR</option>
+        <option value="eh">Expansion hunter</option>
+        <option value="popstr">PopSTR</option>
+    </xml>
+</macros>