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...fasta -d /mnt/project/pracstrucfunc13/data/big/big_80 -O /mnt/home/student/betza/task2/hfe_blast.txt -p blastp -v 1000 ...2/hfe.a3m -oalis /mnt/home/student/betza/task2/hfe -ohhm /mnt/home/student/betza/task2/hfe.hhm -Z 1000

...script compareCath.py can be found on the biocluster at /mnt/home/student/betza/scripts.

...ect/pracstrucfunc13/data/hhblits/pdb70_current_hhm_db -o /mnt/home/student/betza/task4/1A6Z_A_pdb.hhr -Z 10000 -B 10000 ...l.pl -i /mnt/home/student/betza/task4/1A6Z_A_pdb.hhr -ts /mnt/home/student/betza/task4/1A6Z_A_models.pdb

...-d /mnt/project/pracstrucfunc13/data/big/big_80 -j 5 -o /mnt/home/student/betza/task8/psiblast/iter5_big80.results ...nt/home/student/betza/task8/psiblast/iter5_big80.pssm -C /mnt/home/student/betza/task8/psiblast/iter5_big80.chk

...gnment2_Alignments/scripts/task1/parse_output.pl --out_p /mnt/home/student/betza/task2/blast/res_blast.txt ...fasta -d /mnt/project/pracstrucfunc13/data/big/big_80 -o /mnt/home/student/betza/task2/blast/res_blast.txt