fetch size limit error with `pairAcrossChr` about bam-js HOT 2 CLOSED

hmm...hard to say. there may be something weird going on or it could be the particular dataset. if you have the file I could check it out

the way viewAsPairs works is

• you request a particular region chr:start-end from a BAM file, and then if the features in that region are paired with another region in the file (RNEXT:PNEXT) then it literally goes and tries to fetch those regions also e.g. RNEXT:PNEXT-PNEXT+1
  that can in some cases lead to a lot of data being fetched especially if you hit a repeat that happens to be paired aberrantly to many places on the genome

note that the viewAsPairs option was developed for jbrowse 1 because we wanted to synthesize a "paired feature" up front when we encounter a pair. there are probably other methods that don't require the viewAsPairs code

from bam-js.

also to be clear, you can override the fetchSizeLimit in the constructor if you want to ignore this! maybe can close for now

from bam-js.