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have you checked if the file is TAB or space separated? I find this is many times the issue. Sambamba will handle both okey but chanjo is stricter and requires TAB separated columns.
If you can provide a sample of the coverage file I will look into it further!
Hi
I am having an error while trying to run
chanjo link
with a Sambamba generated coverage file. Here is the output:The text was updated successfully, but these errors were encountered: