Errno 2 in Association test

[dineshpeace]

I am running complete analysis using hg38, but get the following error. Your suggestion will be very useful

....
...
[9] Making reference panel for HLA-AA, SNPS,HLA, and Normal variants (SNPs) is Done!

File not foundError : Errno 2 No such file or directory : '/../../wrkingdir/.Regr.assoc.logistic'

I suppose the above file is created by the software. Can you please suggest what modification I can use

python HATK.py
--hg 38
--hped example/wtccc_filtered_58C_RA.hatk.300+300.hped2
--bfile mydir/test1
--pheno mydir/test1.phe
--pheno-name RA
--imgt 3320
--imgt-dir example/IMGTHLA3320/
--multiprocess 8
--out Results/
--java-mem 4g
--nthreads 4

Thanks for your suggestion and amazing tool.

[dineshpeace]

@WansonChoi Kindly provide your opinion on the missing file "Regr.assoc.logistic"
regards
Dinesh

[jaykim27]

@dineshpeace I think it has to do with your phenotype file. I also had the same problem and simply recoding phenotype as 1 & 2 not 0 & 1 fixed this issue.