Anton Korobeynikov
Anton Korobeynikov
@ASLeonard do you happen to have some small reproducer for me?
@ASLeonard I tried to see if I can spot off-by-one issue to no avail. It must be something special here, as longer hits are definitely drawn correctly. So, any reproducers...
Note that `btree_map` has different iterator invalidation rules as compared to `std::map`. Not sure if it matters, but worth double checking.
Unfortunately, I have not enough time to revamp the documentation. Here is the old one from Bandage: https://github.com/rrwick/Bandage/wiki/CSV-labels Essentially you can label either nodes or whole paths (if your GFA...
> I agree. I don't think `getDeclaration` should promise any ordering. The ordering did probably change in this particular case recently, with reprecement of `ordered_map` by `string_map` in indexed vector....
Hello We need a reproducer to be able to check what the issue is, e.g. - Graph - Any additional metadata / files - Steps to reproduce the issue
You may want to check the assembly graph to see what is around that contigs and why there were not assembled.
Sure. Per SPAdes manual (http://cab.spbu.ru/files/release3.13.0/manual.html): ``` --careful Tries to reduce the number of mismatches and short indels. Also runs MismatchCorrector – a post processing tool, which uses BWA tool (comes...
Does the problem reproduce if you move everything to path w/o spaces?
You are using ancient version of SPAdes. Does the issue reproduce on the latest SPAdes 4.0? Likely your reads contain over-represented k-mer (e.g. an untrimmed adapter or something like this).