Merge branch 'smw-tbprofiler-dev' into im-fja-tb-clockwork

theiagen · Sep 19, 2023 · 304d6ba · 304d6ba
2 parents d617a9f + 51ddccd
commit 304d6ba
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Showing 2 changed files with 5 additions and 3 deletions.
diff --git a/tasks/species_typing/task_tbp_parser.wdl b/tasks/species_typing/task_tbp_parser.wdl
@@ -50,6 +50,7 @@ task tbp_parser {
     cpu: cpu
     disks: "local-disk " + disk_size + " SSD"
     disk: disk_size + " GB"
-    maxRetries: 3 
+    maxRetries: 3
+    preemptible: 1
   }
 }
diff --git a/tasks/species_typing/task_tbprofiler.wdl b/tasks/species_typing/task_tbprofiler.wdl
@@ -22,7 +22,7 @@ task tbprofiler {
     date | tee DATE
 
     # Print and save version
-    tb-profiler version > VERSION && sed -i -e 's/^/TBProfiler version /' VERSION
+    tb-profiler version > VERSION && sed -i -e 's/TBProfiler version //' VERSION && sed -n -i '$p' VERSION
 
     if [ -z "~{read2}" ] ; then
       INPUT_READS="-1 ~{read1}"
@@ -119,6 +119,7 @@ task tbprofiler {
     cpu: cpu
     disks: "local-disk " + disk_size + " SSD"
     disk: disk_size + " GB"
-    maxRetries: 3 
+    maxRetries: 3
+    preemptible: 1
   }
 }