ValueError: not enough values to unpack

[alexmsalmeida]

Hi,

Thanks for putting together DeepVirFinder.

However, I am having trouble processing one particular FASTA file. I am getting the error below.

2. Encoding and Predicting Sequences.
   processing line 1
   processing line 7014
Traceback (most recent call last):
  File "/nfs/production/interpro/metagenomics/mags-scripts/dependencies/DeepVirFinder/dvf.py", line 212, in <module>
    head, score, pvalue = zip(*pool.map(pred, range(0, len(code))))
ValueError: not enough values to unpack (expected 3, got 0)

There is nothing obviously wrong with the FASTA file (I ran it with VirSorter2 and VIBRANT and had no issues). Any ideas on what could be the problem here?

Many thanks in advance.

Best, Alex

[jessieren]

Hi Alex,

Thanks for using DeepVirFinder.

To help me debug, could you print the input and output of line 212?

print(code) out = zip(*pool.map(pred, range(0, len(code)))) print(out)

See what you get? Thanks.

Jie

[alexmsalmeida]

Hi Jie,

Thanks for the quick reply. After playing around with it some more I actually figured it was due to the length filtering I was putting it. It was too high so none of the contigs were passing through.

Thanks again, Alex

[EarlyEvol]

If you have a fasta with many small seqs at the end, dvf.py will throw this error. Basically if no sequences pass the size filter in the 100 sequence chunk at the end of the fasta file, the "code" variable will be empty, but pred will still get called. I added an if statement (line 209 in my version) that fixed the issue.

if len(code) >= 1:
           print("   processing line "+str(lineNum))
           pool = multiprocessing.Pool(core_num)
           head, score, pvalue = zip(*pool.map(pred, range(0, len(code))))