diff --git a/03_dereplication/derep_tally.sh b/03_dereplication/derep_tally.sh index 0a0466955304ca6f59f9a3c09043130f8b233bfb..b16784b88f94edd48ae085ea9b4d0f65327a9ae3 100644 --- a/03_dereplication/derep_tally.sh +++ b/03_dereplication/derep_tally.sh @@ -77,9 +77,9 @@ for sample in `ls $main_dir/"$pref"_sample_*.fasta`; do sample_sh="${sample/.fasta/_cmd.sh}" echo "bash "$sample_sh >> $all_samples_parallel_cmd_sh -# D�r�plication des reads en s�quences uniques +# Dereplicate sequences with tally dereplicated_sample="${sample/.fasta/.uniq.fasta}" -echo "/usr/bin/time $tally -i "$sample" --fasta-in --fasta-out -o "$dereplicated_sample > $sample_sh; +echo "$tally -i "$sample" --fasta-in --fasta-out -o "$dereplicated_sample > $sample_sh; # On garde les s�quences de plus de 20pb sans bases ambigues good_sequence_sample="${dereplicated_sample/.fasta/.l20.fasta}" echo "$obigrep -s '^[ACGT]+$' -l 20 "$dereplicated_sample" > "$good_sequence_sample >> $sample_sh