Closed matnguyen closed 2 years ago
Sorry, that's an old version of the database. Please try: https://imperialcollegelondon.box.com/s/6koqlrlvtw7a19och2dbel59x9j32r79 (references only, smaller) https://imperialcollegelondon.box.com/s/8irebd9hrguzmtgcvm8zp9f647k5iqzo (all samples, larger, recommended only if you want to update the database)
Closing issue for now, let us know if further help required
Versions poppunk 2.4.0 poppunk_sketch 1.7.4
Command used and output returned Downloaded the E. coli database from https://figshare.com/articles/dataset/PopPUNK_databases/6683624?file=12208811
Ran
poppunk_assign --db ecoli_poppunk --query rfiles.txt --distances ecoli.h5 --output ecoli --threads 32
Describe the bug
I have tried to refit the model from the downloaded database too, but seems like it is missing
FileNotFoundError: [Errno 2] Unable to open file (unable to open file: name = 'ecoli_poppunk/ecoli_poppunk.h5', errno = 2, error message = 'No such file or directory', flags = 1, o_flags = 2)