NVIDIA-Genomics-Research / GenomeWorks

SDK for GPU accelerated genome assembly and analysis
https://clara-parabricks.github.io/GenomeWorks/
Apache License 2.0
286 stars 76 forks source link

[cudamapper] Skip index pair which cause OOM errors #493

Closed mimaric closed 4 years ago

mimaric commented 4 years ago

Some pairs of indices generate so much anchors that the application runs our of memory. Application now skips such pairs and prints the number of skipped pairs so the user can decide if that number is acceptable or the application should be rerun with different parameters.

Closes #489

Application does not print which pairs have been skipped as a PR for #490 will significantly reduce the number of overall pairs which actually get skipped. That PR will include actually printing skipped pairs of indices

mimaric commented 4 years ago

rerun tests