I've been wrestling with this issue in fastStructure: installed the application under an environment with Python 2.7 in WSL, while the app works well and produces expected output when I provide the test data, it runs for a while, 10 min, but does not produce anything or log with ped file. Checked the vcf structure, it's correct and .ped generated by plink works well for other downstream analysis. If you have encountered such problem can you please suggest a solution.
The command line I'm using:
python structure.py -K 3 --input=/mnt/e/Hop_germplasm/nugfile --output=/mnt/e/Hop_germplasm/genotypes_output --format=bed --full --seed=4258.
I've been wrestling with this issue in fastStructure: installed the application under an environment with Python 2.7 in WSL, while the app works well and produces expected output when I provide the test data, it runs for a while, 10 min, but does not produce anything or log with ped file. Checked the vcf structure, it's correct and .ped generated by plink works well for other downstream analysis. If you have encountered such problem can you please suggest a solution.
The command line I'm using: python structure.py -K 3 --input=/mnt/e/Hop_germplasm/nugfile --output=/mnt/e/Hop_germplasm/genotypes_output --format=bed --full --seed=4258.
Thanks,