file premission linux, succsessfull optimotu metazoa run

Author: METS0JA

src/pipecraft-core/service_scripts/pipeline_options.yaml

@@ -31,7 +31,7 @@ protax:
     - family
     - genus
     - species
-orient: mixed
+orient: fwd
 control:
   spike:
   positive:

src/pipecraft-core/service_scripts/run_optimotu.sh

@@ -81,12 +81,7 @@ else
     exit $R_EXIT_STATUS
 fi
 
-echo "All operations completed."
 
-if [ ! -z "$HOST_UID" ] && [ ! -z "$HOST_GID" ]; then
-  echo "Setting ownership of /optimotu_targets to $HOST_UID:$HOST_GID"
-  chown -R $HOST_UID:$HOST_GID /optimotu_targets/sequences
-fi
 
 ### Make README.txt 
 end=$(date +%s)
@@ -99,6 +94,13 @@ Start time: $start_time
 End time: $(date)
 Runtime: $runtime seconds
 
+echo "All operations completed."
+
+if [ ! -z "$HOST_UID" ] && [ ! -z "$HOST_GID" ]; then
+  echo "Setting ownership of /optimotu_targets to $HOST_UID:$HOST_GID"
+  chown -R $HOST_UID:$HOST_GID /optimotu_targets/sequences
+fi
+
 The outputs of the pipeline are a set of tables in TSV format (tab-delimited files) and 
 RDS format (for easy loading in R), as well as sequences in gzipped FASTA format.