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deyvidamgarten / MARVEL

MARVEL: Metagenomic Analyses and Retrieval of Viral Elements
GNU General Public License v3.0
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Error in download_and_set_models.py #2

Open Handymanalan opened 5 years ago

Handymanalan commented 5 years ago

Hi Deyvid,

I am installing MARVEL but upon the step of downloading the models, I received this error:

Error: File models/all_vogs_hmm_profiles_feb2018.hmm does not appear to be in a   recognized HMM format.

Error using hmmer tools (hmmpress). Verify if it is installed!

Is there some program missing from my HPC?

Nice logo btw.

Cheers and many thanks

Handyman

Handymanalan commented 5 years ago

Hi Deyvid. This problem is solved but there is a new problem.

Whenever I used PROKKA version 1.7 it gives me an error message: Prokka did not end well

I then used PROKKA version 1.13 but it gave me this error: Traceback (most recent call last): File "marvel_bins.py", line 224, in <module> with open(input_folder + 'results/prokka/' + prefix + '/prokka_results_' + prefix + '.faa', 'r') as faa: FileNotFoundError: [Errno 2] No such file or directory: '/srv/scratch/z3336178/MARVEL/example_data/bins_8k_refseq/results/prokka/NC_003157.5_caudo/prokka_results_NC_003157.5_caudo.faa'

Seems like PROKKA did not translate the nucleotide sequences as no faa files were found.

Is there a solution to this?

Cheers and many thanks

Alan