No valid region pairs found?

[gdolsten]

Hi, I get the following error:

2021-06-04 17:21:41,544 WARNING 26638 region pairs have been dropped, because they involve chromosomes that are not present in the provided contact data.
2021-06-04 17:21:41,544 ERROR No valid region pairs found; aborting.

I think the problem is the default mm10 chromosome that I pass into chess pairs has "chr1, chr2" and so on, but my data is just labelled "1 2 3 ... ". What do you recommend I do to solve this problem?

[nickmachnik]

Hi, that is indeed most likely the problem. If you either remove the 'chr' prefixes in the pairs file or add them in your data, it should work.