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I've a problem with ComBat() function from the SVA package of Bioconductor in R.
On my laptop (Latitude 5590 running a Linux Ubuntu 18 operating system), it works well. But if I ran it on a TORQUE cluster, the call to the ComBat() function generates an infinite waiting loop:
> "ComBat()" Found25batches
>
> Note: one batch has only one sample, setting mean.only=TRUE
>
> Adjusting for0covariate(s) or covariate level(s)
>
> Standardizing Data across genes
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
>
> OpenBLAS blas_thread_init: RLIMIT_NPROC 903725 current, 903725 max
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
>
> OpenBLAS blas_thread_init: RLIMIT_NPROC 903725 current, 903725 max
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
>
> OpenBLAS blas_thread_init: RLIMIT_NPROC 903725 current, 903725 max
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
>
> OpenBLAS blas_thread_init: RLIMIT_NPROC 903725 current, 903725 max
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
>
> OpenBLAS blas_thread_init: RLIMIT_NPROC 903725 current, 903725 max
>
> OpenBLAS blas_thread_init: pthread_create: Resource temporarily
> unavailable
Do you know how I can fix it?
I checked online and some people already had that problem, which is related to Python. That sounds weird to me: if it's a Python problem, why does it show up in R? I also asked this question on StackOverflow.com, but nobody was able to help me so far.
Thanks