search

sanger-pathogens / seroba

k-mer based Pipeline to identify the Serotype from Illumina NGS reads
https://sanger-pathogens.github.io/seroba/
Other
19 stars 16 forks source link

error #35

Closed bhclement closed 5 years ago

bhclement commented 5 years ago

Hello, I install seroba and download the database from PneumoCaT. But I am not able to create the database. (py36)[ctsui@grl-salk Strep_sero]$ seroba createDBs pneumoDB 71 Traceback (most recent call last): File "/home/ctsui/.conda/envs/py36/bin/seroba", line 86, in args.func(args) File "/home/ctsui/.conda/envs/py36/lib/python3.6/site-packages/seroba/tasks/createDBs.py", line 10, in run ref_db.run() File "/home/ctsui/.conda/envs/py36/lib/python3.6/site-packages/seroba/ref_db_creator.py", line 237, in run os.makedirs(os.path.join(self.out_dir,'ariba_db')) File "/home/ctsui/.conda/envs/py36/lib/python3.6/os.py", line 220, in makedirs mkdir(name, mode) FileExistsError: [Errno 17] File exists: 'pneumoDB/ariba_db' (

Will appreciate for advice! Thanks,

Clement

bhclement commented 5 years ago

I have these files in pneumoDB dir

(py36)[ctsui@grl-salk Strep_sero]$ ls ./pneumoDB/ ariba_db cd_cluster.tsv cdhit_cluster meta.tsv reference.fasta streptococcus-pneumoniae-ctvdb

shall I move the ariba_db to somewhere?