infinity_flow error

[SmithMaxine]

Hi,

I was running the infinity flow pipeline, but I keep getting an error message.

I did the sample data and it all worked perfectly. I chose to put 10 FCS files to ensure it would work on my data, the backbone code runs perfectly. When I try running infinity_flow, it gets down to # Exporting results, and then I get the following error;

Error in data.frame(file = unique_pes, target = a[unique_pes], PE_id = seq_len(length(unique_pes))) : row names contain missing values

Any help would be appreciated, thank you.

Max

[ebecht]

Hi Max,

This sounds like a problem with the annotation file.

Could you check that all(names(annotation) %in% list.files(path_to_fcs)) and all(names(isotype) %in% list.files(path_to_fcs)) ?

If you want to test the software on your data, you can also include all the files and input input_events_downsampling = 1000 and prediction_events_downsampling = 100, it should then run fairly quickly !

Hopefully this helps, Etienne

[SmithMaxine]

Hi Etienne,

It was a problem with my annotation file! Everything is now running fine.

Thank you for your help! Maxine

[ebecht]

Hi Maxime,

Great, I am glad to hear this.

I will close this issue but feel free to open another one if you encounter any other problem ! Etienne