Bus error when writing concatenated adata

Help anndata
1

Hi,

When I try to write my concatenated adata (adata.write_h5ad(filename='10x_outer.h5ad')), I run into Bus error. For the concatenation, I use join=‘outer’. When I use join=‘inner’, I get no problems.

The dataset is n_obs × n_vars = 3599109 × 34512 and I use 1024GB. Please advise.

Thanks and good day.

2

Are the objects are different sizes when you use “outer” vs “inner”, could you share that?

Also what types of matrices do you have in this object? Anything dense?