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

Error Running CIBERSORT to estimate proportion #13

Open
soleilll opened this issue Aug 27, 2020 · 1 comment
Open

Error Running CIBERSORT to estimate proportion #13

soleilll opened this issue Aug 27, 2020 · 1 comment

Comments

@soleilll
Copy link

Thanks for developing this software!

I have successfully downloaded the test data, but i get an error when i run the pipeline from your tutorial on the sample data sets. It said:
`fit <- bseqsc_proportions(eset, B, verbose = TRUE)

  • Data features: 'A1BG', 'A1CF', ..., 'ZAK' (17,921 total)
  • Basis features: 'GCG', 'TTR', ..., 'CPB1' (62 total)
  • Common features: 'ADCYAP1', 'ANXA2', ..., 'TTR' (60 total)
  • Writing input files ... OK
  • Running CIBERSORT ... Error in normalize.quantiles(Y) :
    ERROR; return code from pthread_create() is 22
    `
    So i wonder if the version of CIBERSORT.R is wrong, but i can't find a latest version on the CIBERSORTx website. Can you help me please?
@peachone
Copy link

I was able to fix this by manually installing the R package "preprocessCore" on the local machine, but the same error is reported on the server.

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

2 participants