Hi everyone,
While using HAPNEST, I could obtain genotype and phenotype files, but during the validation step,
When i run this command
"docker run -v /archive/yarast/HAPNEST/data:/data -it sophiewharrie/intervene-synthetic-data validate data/config_9.yaml"
I encounter the error:
"ERROR: LoadError: failed process: Process(king -b data/outputs/test6/reference/reference1.bed,data/outputs/test6/test_chr-1.bed --pca --projection --prefix data/outputs/test6/evaluation/test_chr-1_proj, ProcessSignaled(4)) [0]."
I have checked the files, and King works in other steps. Since it gives an error only in the PCA part, I cannot obtain GWAS summary statistics.
Any idea on what might be causing this and how can i fix this problem?
Hi everyone, While using HAPNEST, I could obtain genotype and phenotype files, but during the validation step, When i run this command "docker run -v /archive/yarast/HAPNEST/data:/data -it sophiewharrie/intervene-synthetic-data validate data/config_9.yaml" I encounter the error: "ERROR: LoadError: failed process: Process(king -b data/outputs/test6/reference/reference1.bed,data/outputs/test6/test_chr-1.bed --pca --projection --prefix data/outputs/test6/evaluation/test_chr-1_proj, ProcessSignaled(4)) [0]." I have checked the files, and King works in other steps. Since it gives an error only in the PCA part, I cannot obtain GWAS summary statistics. Any idea on what might be causing this and how can i fix this problem?
Best, Tutku