chromvar from signac wrapper is stuck (not progressing)

[Dena2021]

Hello,
I would really appreciate your help. I am running chromvar from a Seurat object on 29K cells and 192K peaks.
R version 4.1.1 (2021-08-10)
chromVAR version 1.16.0
Signac version 1.6.0
Seurat version 4.1.0

It starts running fine:

register(MulticoreParam(10, progressbar = TRUE))
mySeurat <- RunChromVAR(

• object = mySeurat,
• genome = BSgenome.Mmusculus.UCSC.mm10,
• verbose=TRUE
• )
  Computing GC bias per region
  Selecting background regions
  Computing deviations from background
  | | 0%

Basically, it gets stuck at this stage forever.
Any suggestions?
Thanks in advance

[hsriniva1104]

Hi, I'm facing the same issue. I let my job run for almost 4 days and still nothing changed. I'd love some help here.

[Dena2021]

Before chromvar command run register(SerialParam()) From: hsriniva1104 ***@***.***> Sent: Friday, August 12, 2022 9:30 PM To: GreenleafLab/chromVAR ***@***.***> Cc: Dena Leshkowitz ***@***.***>; Author ***@***.***> Subject: Re: [GreenleafLab/chromVAR] chromvar from signac wrapper is stuck (not progressing) (Issue #98) Hi, I'm facing the same issue. I let my job run for almost 4 days and still nothing changed. I'd love some help here. — Reply to this email directly, view it on GitHub<#98 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ASREESF6HWMMYY5URDYLIS3VY2JZNANCNFSM5US3ZYEQ>. You are receiving this because you authored the thread.Message ID: ***@***.******@***.***>>