Error downloading database about tiptoft HOT 2 OPEN

Hi @Niicii ,

I am trying to use tiptoft and I found the same error as you did. I have solve it by modifying the script RefGenesGetter.py which was located inside the conda enviroment I created "<conda_env_path>/lib/python3.10/site-packages/tiptoft/RefGenesGetter.py".

I modified the lines 41 to 44 to be:

for f in files_to_download:
    cmd = 'wget https://bitbucket.org/genomicepidemiology/plasmidfinder_db/raw/master/'+str(f)
    print('Downloading data with:', cmd, sep='\n')
    subprocess.check_call(cmd, shell=True)

Hope it helps!
Adrián

from tiptoft.

This error comes up because tiptoft_database_downloader is trying to download enterobacteriaceae.fsa from plasmidfinder_db, which has been modified to enterobacteriales.fsa.
enterobacteriaceae.fsa → enterobacteriales.fsa
I modified the tiptoft/RefGenesGetter.py line 39:

files_to_download = ['enterobacteriaceae.fsa', 'Inc18.fsa', 'NT_Rep.fsa', 'Rep1.fsa', 'Rep2.fsa', 'Rep3.fsa', 'RepA_N.fsa', 'RepL.fsa', 'Rep_trans.fsa']

to

files_to_download = ['enterobacteriales.fsa', 'Inc18.fsa', 'NT_Rep.fsa', 'Rep1.fsa', 'Rep2.fsa', 'Rep3.fsa', 'RepA_N.fsa', 'RepL.fsa', 'Rep_trans.fsa']

and was able to download.

Hope this helps !!

from tiptoft.