correct path

main.sh

@@ -54,12 +54,12 @@ obitab -o $all_sample_sequences_sort > final/all.csv
 
 ## Assign each sequence to a taxon according to alternative SPYGEN fasta sequences
 
-spygen_bdr_fasta="/donnees/rhone_all/teleo_V1_0_VM.fasta"
-all_sample_sequences_tag-spygen="${dereplicated_all/.fasta/.tag-spygen.fasta}"
-ecotag -d "$REF_DATABASE"/"${base_pref}" -R "$spygen_bdr_fasta" $dereplicated_all > $all_sample_sequences_tag-spygen
+spygen_bdr_fasta="/media/superdisk/edna/donnees/rhone_all/teleo_V1_0_VM.fasta"
+all_sample_sequences_tag_spygen="${dereplicated_all/.fasta/.tag_spygen.fasta}"
+ecotag -d "$REF_DATABASE"/"${base_pref}" -R "$spygen_bdr_fasta" $dereplicated_all > $all_sample_sequences_tag_spygen
 ##The sequences can be sorted by decreasing order of count
-all_sample_sequences_sort="${all_sample_sequences_tag-spygen/.fasta/.sort.fasta}"
+all_sample_sequences_sort="${all_sample_sequences_tag_spygen/.fasta/.sort.fasta}"
 obisort -k count -r $all_sample_sequences_tag > $all_sample_sequences_sort
 ##generate a table final results
-obitab -o $all_sample_sequences_sort > final/all-spygen.csv
+obitab -o $all_sample_sequences_sort > final/all_spygen.csv