show.velocity.on.embedding.cor -error: libgomp: Out of memory allocating

[GhobrialMoheb]

Dear all,

I am trying to run velocity analysis on my sample, following the seurat-wrappers/velocyto.R tutorial.

Everything goes smoothly till the step where I have to plot the velocity vector:

show.velocity.on.embedding.cor(emb = Embeddings(object = bm, reduction = "umap"), vel = Tool(object = bm, slot = "RunVelocity"), n = 200, scale = "sqrt", cell.colors = ac(x = cell.colors, alpha = 0.5), cex = 0.8, arrow.scale = 3, show.grid.flow = TRUE, min.grid.cell.mass = 0.5, grid.n = 40, arrow.lwd = 1, do.par = FALSE, cell.border.alpha = 0.1)

Error I get : delta projections ... sqrt libgomp: Out of memory allocating 463856469312 bytes

Can anyone help me solve this ?

Many thanks.

Best, Moheb

p.s I am running R in windows linux subsystem, R version 3.6.3 (2020-02-29) -- "Holding the Windsock" Platform: x86_64-pc-linux-gnu (64-bit)

[visaxena2870]

same thing happened with me. I had 75 GB hard memory allotted from my institution which was not sufficient to run it. I had to use compute node with higher memory and then it worked just fine.