Concatenation of h5ad files

[SaraTerzol]

Description of the bug

Hi everyone,
I am using the pipeline with cellranger aligner to generate the count matrix for two samples.
The file "combined_raw_matrix.h5ad" is not concatenated, but only contains cells from one of the two samples.

Command used and terminal output

nextflow run main.nf -profile test,ht_cluster

Relevant files

No response

System information

No response

[grst]

I think this is fixed in dev already via #416.
Could you try with nextflow run ... -r dev?

[saraterzo]

Thank you! It works.