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Evaluation steps error #29

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tutkuyaras opened this issue Dec 19, 2023 · 0 comments
Open

Evaluation steps error #29

tutkuyaras opened this issue Dec 19, 2023 · 0 comments

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@tutkuyaras
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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

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