Hello! Love the GenBank parser, but I am struggling to read in larger files.
In my hands, readGenBank works perfectly with smaller GenBank files (<500 KB), but gives me a C stack usage error with anything larger.
In the example below chrI is 442Kb and chrIII is 638Kb.
chrI <- readGenBank("/Users/lauren.neves/Desktop/chrI.gb")
Translation product seems to be missing for 1 of 101 CDS annotations. Setting to ''
No exons read from genbank file. Assuming sections of CDS are full exons
No transcript features (mRNA) found, using spans of CDSs
chrIII <- readGenBank("/Users/lauren.neves/Desktop/chrIII.gb")
Error: C stack usage 7970208 is too close to the limit
I've tried other files as well - larger files always throw this error. Small files work just fine. I am currently running genbankr version 1.20.0 on R version 4.1.2.
Am I doing something wrong and/or do the larger files need some pre-treatment?
Hello! Love the GenBank parser, but I am struggling to read in larger files.
In my hands, readGenBank works perfectly with smaller GenBank files (<500 KB), but gives me a C stack usage error with anything larger.
In the example below chrI is 442Kb and chrIII is 638Kb.
I've tried other files as well - larger files always throw this error. Small files work just fine. I am currently running genbankr version 1.20.0 on R version 4.1.2.
Am I doing something wrong and/or do the larger files need some pre-treatment?
Thanks!