Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

fastStructure does not produce any output #82

Open
arminmm91 opened this issue Aug 20, 2024 · 0 comments
Open

fastStructure does not produce any output #82

arminmm91 opened this issue Aug 20, 2024 · 0 comments

Comments

@arminmm91
Copy link

arminmm91 commented Aug 20, 2024

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,

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant