kstatebioinfo Updated test script to include unique steps  over 8 years ago

Commit id: 260847f23fac2577a1d860bb10af98bc1536460a

deletions | additions      

       

echo "Header whitespace only Fasta-O-Matic execution:"  /usr/bin/time -v python ~/read-cleaning-format-conversion/KSU_bioinfo_lab/fasta-o-matic/fasta_o_matic.py -f ~/test_fasta_o_matic/input/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE.fna -o ~/test_fasta_o_matic/out -c -s header_whitespace -q  echo "Unique only Fasta-O-Matic execution:"  /usr/bin/time -v python ~/read-cleaning-format-conversion/KSU_bioinfo_lab/fasta-o-matic/fasta_o_matic.py -f ~/test_fasta_o_matic/input/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE.fna -o ~/test_fasta_o_matic/out -c -s unique -q  echo "All steps Fasta-O-Matic execution:"  /usr/bin/time -v python ~/read-cleaning-format-conversion/KSU_bioinfo_lab/fasta-o-matic/fasta_o_matic.py -f ~/test_fasta_o_matic/input/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE.fna -o ~/test_fasta_o_matic/out1 -c -s unique wrap new_line header_whitespace  -q echo "Wrap only setk execution:"  /usr/bin/time -v /home/bionano/seqtk/seqtk seq -l 60 /home/bionano/test_fasta_o_matic/input/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE.fna > /home/bionano/test_fasta_o_matic/out2/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE_seqtk_wrap.fna  echo "Wrap only seqret execution:"  /usr/bin/time -v /home/bionano/EMBOSS-6.5.7/emboss/seqret -sequence ~/test_fasta_o_matic/input/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE.fna -outseq /home/bionano/test_fasta_o_matic/out3/GCF_000164845.1_Vicugna_pacos-2.0.1_genomic_FAKE_seqret.fna