increase highest possible Q value to comply with Aviti high quality data

[splaisan]

Dear John,

When I run ngmerge on Element Biosciences Aviti data I get the error

Error! Quality scores outside of set range

This is due to the extra quality of the Element Biosciences Aviti which exceeds the classical 0:40 range for Illumina data Could it please add code to ignore all Qvalues 40+ and set them instead to 40 or enlarge the authorised range to match Aviti data (up to 56! https://docs.elembio.io/docs/bases2fastq/outputs/#quality-scores).

I am now parsing my fastq and downgrading Qvalues to 40 but it would be better to fix NGmerge instead as Aviti is there to stay.

I see a file ngmerge.h with large matrices but do not know what to do with them to add scores up to at least 46 which is my highest measured value on the current data.

Thanks in advance