bug

[lgbTime]

cd ./LOGODetect source ./Code/calculateLD.txt
for chr in $(seq 22) do Rscript ./Code/random_vector_generation.R ${chr} Rscript ./Code/aggregation.R ${chr} done

[ghm17]

Could you let me know what's the error message?

[lgbTime]

cd LOGODetect for chr in $(seq 22) do Rscript ./Code/random_vector_generation.R ${chr} done

| | 0%Error in fread(paste0("Data/LDmatrix/chr", ch, "/LD", 1, "_", 2, ".ld")) : File 'Data/LD_matrix/chr1/LD_1_2.ld' does not exist or is non-readable. getwd()=='/home/luogb/GWAS/LOGODetect' Calls: as.matrix -> fread Execution halted

At 2021-04-10 16:27:14, "ghm17" @.***> wrote:

Could you let me know what's the error message?

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[ghm17]

You will need to run source ./Code/calculateLD.txt first. Specially, you would need to install plink (downloaded here) to calculate LD matrix. And make sure that you have added plink to your environment variables. Hope it works.

[lgbTime]

thank you, I will check it later

At 2021-04-11 21:39:44, "ghm17" @.***> wrote:

You will need to run source ./Code/calculateLD.txt first. Specially, you would need to install plink (downloaded here) to calculate LD matrix. And make sure that you have added plink to your environment variables. Hope it works.

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