Question: Divine tool configuration file requirments
0
gravatar for hjafar
6 months ago by
hjafar10
hjafar10 wrote:

I have install the Divine tool (https://github.com/hwanglab/divine/blob/master/documents/tutorial/divine_tutorial.md) but when I run the following command, I have got the error as shown below. $ divine.py -v ./Pfeiffer.vcf -o ./Pfeiffer.noHpo

IOError: check [beta_fit = /home/genomic-lab/Documents/kfmc/tools/divine/gcndata/snv_training/clin_tr.dill] in the file [/home/genomic-lab/Documents/kfmc/tools/divine/gcn/config/divine.conf]

It is showing related to configuration file that needs the following files in database part.

[database] ext_disease_to_gene = gcndata/hpo/ALL_SOURCES_disgnet_TYPICAL_FEATURES_diseases_to_genes_to_phenotypes.txt beta_fit = gcndata/snv_training/clin_tr.dill esp_to_gene = gcndata/stringDB/est2geneSymbol_20160306.tsv

What I should do to fix the issue.

Best regards, Hussain

next-gen software error • 129 views
ADD COMMENTlink written 6 months ago by hjafar10

This would probably be better served as an issue on their github repository.

ADD REPLYlink written 6 months ago by drkennetz500
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