/usr/share/ray/scripts/NCBI-Taxonomy/getNameInFile.py is in ray-extra 2.3.0-2.
This file is owned by root:root, with mode 0o755.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 | #!/usr/bin/python
#>gi|148243635|ref|NC_009467.1| Acidiphilium cryptum JF-5 plasmid pACRY01, complete sequence
import sys
file=sys.argv[1]
line=open(file).readline()
tokens=line.split("|")
name=tokens[4].replace(', complete sequence','').replace(', complete chromosome','').strip()
name=name.replace(', complete genome','')
name=name.replace(" ","_").replace('/','_').strip()
print name
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