--- a/MergeSTR/mergeSTR.xml	Sat Apr 23 16:34:03 2022 +0000
+++ b/MergeSTR/mergeSTR.xml	Sun May 15 15:23:59 2022 +0000
@@ -103,7 +103,8 @@
 
 
     <tests>
-        <section name="main_params">
+        <test>
+            <section name="required_arguments">
             <param name="out" value="test_result"/>
             <param name="vcftype" value="hipstr"/>
             <repeat name="vcfs">
@@ -113,45 +114,45 @@
                 <param name="vcf" value="NA12891_chr21_hipstr.sorted.vcf.gz"/>
             </repeat>
         </section>
-        <section name="other">
+        <section name="optional_arguments">
             <param name="verbose" value="true"/>
         </section>
         <output name="stdout" file="stdout.txt">
             <discovered_dataset designation="test_result">
                 <!-- The vcf output itself can't be directly compared, because it contains the command that executed it, and that command is different for every run -->
                 <assert_contents>
-                    <has_size value="3106028" delta="100"/>
+                    <has_size value="3106435" delta="100"/>
                     <has_text text="##fileformat=VCFv4.1"/>
-                    <has_n_lines n="9695"/>
+                    <has_n_lines n="9658"/>
                 </assert_contents>
-            </discovered_dataset>
+            </discovered_dataset>   
         </output>
         <output name="stderr" file="stderr.txt"/>
+        </test>
     </tests>
 
 
-    <help>usage: main.py [-h] --vcfs VCFS --out OUT [--vcftype VCFTYPE]
-        [--update-sample-from-file] [--verbose] [--quiet] [--version]
+    <help>sage: pygalgen [-h] --vcfs VCFS --out OUT [--vcftype VCFTYPE] [--update-sample-from-file] [--verbose] [--quiet]
+                [--version]
 
-        options:
-        -h, --help show this help message and exit
+options:
+  -h, --help            show this help message and exit
+
+Required arguments:
+  --vcfs VCFS           Comma-separated list of VCF files to merge (must be sorted, bgzipped and indexed)
+  --out OUT             Prefix to name output files
+  --vcftype VCFTYPE     ##!!## Name trh could not be loaded
 
-        Required arguments:
-        --vcfs VCFS Comma-separated list of VCF files to merge (must be sorted,
-        bgzipped and indexed)
-        --out OUT Prefix to name output files
-        --vcftype VCFTYPE ##!!## Name trh could not be loaded
+Special merge options:
+  --update-sample-from-file
+                        Use file names, rather than sample header names, when merging
 
-        Special merge options:
-        --update-sample-from-file
-        Use file names, rather than sample header names, when merging
+Optional arguments:
+  --verbose             Print out extra info
+  --quiet               Don't print out anything
 
-        Optional arguments:
-        --verbose Print out extra info
-        --quiet Don't print out anything
-
-        Version:
-        --version show program's version number and exit
+Version:
+  --version             show program's version number and exit
     </help>