Update to use tar module compatible for our test databases

modules.json

@@ -107,7 +107,7 @@
                 },
                 "minimap2/index": {
                     "branch": "master",
-                    "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
+                    "git_sha": "73e062cf5e0ef346f65d73009b1b656299359fc5"
                 },
                 "motus/merge": {
                     "branch": "master",
@@ -119,7 +119,7 @@
                 },
                 "multiqc": {
                     "branch": "master",
-                    "git_sha": "16eee433b87b303bda650131ac5a0b1ad725e166"
+                    "git_sha": "5587389874dac9c9953a2ab6f01d49af81969492"
                 },
                 "porechop": {
                     "branch": "master",
@@ -139,7 +139,7 @@
                 },
                 "untar": {
                     "branch": "master",
-                    "git_sha": "5e7b1ef9a5a2d9258635bcbf70fcf37dacd1b247"
+                    "git_sha": "393dbd6ddafe3f18eac02893dd4a21e4d45de679"
                 }
             }
         }

modules/nf-core/modules/untar/main.nf

@@ -25,12 +25,23 @@ process UNTAR {
     """
     mkdir output
 
-    tar \\
+    ## Ensures --strip-components only applied when top level of tar contents is a directory
-        -C output --strip-components 1 \\
+    ## If just files or multiple directories, place all in output
-        -xzvf \\
+    if [[ \$(tar -tzf ${archive} | grep "/\$" | wc -l) -eq 1 ]]; then
-        $args \\
+        tar \\
-        $archive \\
+            -C output --strip-components 1 \\
-        $args2
+            -xzvf \\
+            $args \\
+            $archive \\
+            $args2
+    else
+        tar \\
+            -C output \\
+            -xzvf \\
+            $args \\
+            $archive \\
+            $args2
+    fi
 
     mv output ${untar}
 

modules/nf-core/modules/untar/meta.yml

@@ -26,9 +26,9 @@ output:
         Groovy Map containing sample information
         e.g. [ id:'test', single_end:false ]
   - untar:
-      type: file
+      type: directory
-      description:
+      description: Directory containing contents of archive
-      pattern: "*.*"
+      pattern: "*/"
   - versions:
       type: file
       description: File containing software versions
@@ -36,3 +36,5 @@ output:
 authors:
   - "@joseespinosa"
   - "@drpatelh"
+  - "@matthdsm"
+  - "@jfy133"