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millanek / Dsuite

Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
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When running Dsuite I met a problem #39

Open kuangzhuoran opened 3 years ago

kuangzhuoran commented 3 years ago

Hi！ I met this: What might be causing this？And I use the vcf file from (https://github.com/mmatschiner/tutorials/blob/master/analysis_of_introgression_with_snp_data/README.md#simulation), It works normally. There are 8 sets (excluding the Outgroup) Going to calculate D and f4-ratio values for 56 trios Done permutations The VCF contains 7362509 variants Going to use block size of 368124 variants to get 20 Jackknife blocks /slurmState/slurmSpool/slurmd/job317505/slurm_script: line 9: 414566 Aborted (core dumped) /data/01/user164/workspace/try/Dsuite/Build/Dsuite Dtrios /data/01/user164/workspace/Eospalax/Dsuite/0607.vcf.gz /data/01/user164/workspace/Eospalax/Dsuite/Dtrios_tab

liuxi1998 commented 3 years ago

You need to phase your vcf format file with beagle, and make sure the chr column only containing numbers.