def load_singlecore(args): # create a new gemini loader and populate # the gemini db and files from the VCF l = GeminiLoader(args) l.populate_from_vcf() if not args.no_genotypes and not args.no_load_genotypes: l.store_sample_gt_counts() return l
def load_singlecore(args): # create a new gemini loader and populate # the gemini db and files from the VCF gemini_loader = GeminiLoader(args) gemini_loader.store_resources() gemini_loader.store_version() gemini_loader.populate_from_vcf() gemini_loader.build_indices_and_disconnect() if not args.no_genotypes and not args.no_load_genotypes: gemini_loader.store_sample_gt_counts()
def load_singlecore(args): # create a new gemini loader and populate # the gemini db and files from the VCF gemini_loader = GeminiLoader(args) gemini_loader.store_resources() gemini_loader.store_version() gemini_loader.populate_from_vcf() if not args.skip_gene_tables and not args.test_mode: gemini_loader.update_gene_table() if not args.test_mode: gemini_loader.build_indices_and_disconnect() if not args.no_genotypes and not args.no_load_genotypes: gemini_loader.store_sample_gt_counts() gemini_annotate.add_extras(args.db, [args.db])
def load_singlecore(args): # create a new geminicassandra loader and populate # the geminicassandra db and files from the VCF gemini_loader = GeminiLoader(args) gemini_loader.connect_to_db() if not args.no_genotypes and not args.no_load_genotypes: gemini_loader._init_sample_gt_counts() gemini_loader.populate_from_vcf() '''if not args.skip_gene_tables and not args.test_mode: gemini_loader.update_gene_table()''' if not args.no_genotypes and not args.no_load_genotypes: gemini_loader.store_sample_gt_counts() if not args.test_mode: gemini_loader.disconnect()