11 lines
678 B
Bash
Executable file
11 lines
678 B
Bash
Executable file
#!/bin/bash
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# make sure there is no new line at the end of the mutation file (snps.csv)
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#python3 Mutate.py -v -o /home/tanu/git/Data/pyrazinamide/input/output.fasta mut_map.csv 3pl1.fasta.txt
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python3 mutate.py -v -o /home/tanu/git/Data/pyrazinamide/output/pnca_msa.txt /home/tanu/git/Data/pyrazinamide/output/pnca_all_muts_msa.csv /home/tanu/git/Data/pyrazinamide/input/3pl1.fasta.txt
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# remove fasta style header lines in the output i.e
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# lines beginning with '>' so the file is just the mutated seqs
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sed -i '/^>.*$/d' /home/tanu/git/Data/pyrazinamide/output/pnca_msa.txt
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printf 'No. of lines after cleaning: '
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cat /home/tanu/git/Data/pyrazinamide/output/pnca_msa.txt | wc -l
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