Pfam-A.hmm location is currently not flexible
Currently, it has to be in the folder where you run it...
File "bgc_networks/bigscape.py", line 493, in genbank_parser_hmmscan_call hmmscan(outputfile, outputdir, outputbase, cores) #Run hmmscan File "/home/yeong001/bgc_networks/functions.py", line 203, in hmmscan subprocess.check_output(hmmscan_cmd, shell=True) File "/usr/lib/python2.7/subprocess.py", line 573, in check_output raise CalledProcessError(retcode, cmd, output=output) subprocess.CalledProcessError: Command 'hmmscan --cpu 8 --domtblout /home/medem005/bigrunOSD_0106/TARA_152_MIX_0.22-3_scaffold80_1.cluster037.domtable --cut_tc Pfam-A.hmm /home/medem005/bigrunOSD_0106/TARA_152_MIX_0.22-3_scaffold80_1.cluster037.fasta' returned non-zero exit status 1
Error: File existence/permissions problem in trying to open HMM file Pfam-A.hmm. HMM file Pfam-A.hmm not found (nor an .h3m binary of it); also looked in PFAMDB