Hello! I am currently getting this error message while excecuting runHawk (complete log adjacent file ).
(base) user@DESKTOP-NOLVR42:/mnt/e/TestHAWK/Test2MG/Gwas2$ ./runHawk
fatalx:
(putgtypes)
./runHawk: line 30: 32451 Aborted (core dumped) $eigenstratDir/bin/smartpca -p $hawkDir/parfile.txt > log_eigen.txt
Error while null model optimizing at kmer 0 to 0
singularity error : 0 nan error : 1
Null model optimization has exited early due to singularity error
Achived error 0.0625 , Exited at iteration 0
Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error 0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 0 at thread 0
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 1 at thread 1
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 5 at thread 5
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 4 at thread 4
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 2 at thread 2
alt model : 1 1 1 1
This is happening always while "log_reg_case" is being executed
I am using jelly-fish version present in supplemets folder with 4 samples, two cases and two controls
I will appreciate some help
runHawk_Error.txt
Hello! I am currently getting this error message while excecuting runHawk (complete log adjacent file ).
(base) user@DESKTOP-NOLVR42:/mnt/e/TestHAWK/Test2MG/Gwas2$ ./runHawk
fatalx:
(putgtypes)
./runHawk: line 30: 32451 Aborted (core dumped) $eigenstratDir/bin/smartpca -p $hawkDir/parfile.txt > log_eigen.txt
Error while null model optimizing at kmer 0 to 0
singularity error : 0 nan error : 1
Null model optimization has exited early due to singularity error
Achived error 0.0625 , Exited at iteration 0
Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error Error while alt model optimizing at kmer 0 to 416
singularity error : 0 nan error : 1
Alt model optimization has exited early due to singularity error
Achived error 0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
0.0625 , Exited at iteration 0
Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 0 at thread 0
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 1 at thread 1
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 5 at thread 5
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 4 at thread 4
alt model : Nan error happend or log_likelihood_ratio is <0 while estimating log_liklelihood_ratio at kmer no. 2 at thread 2
alt model : 1 1 1 1
This is happening always while "log_reg_case" is being executed
I am using jelly-fish version present in supplemets folder with 4 samples, two cases and two controls
I will appreciate some help
runHawk_Error.txt