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