Haowen Zhang

It would be helpful for me to understand the problem if you can add one line of the code and then run `make clean` and then `make`. After that you...

This is so weird. We have no idea why this happened. And we could not reproduce the error which made it hard for us to debug. In rare case, it...

Currently Chromap sorts the output mappings by default. We didn't leave an option to turn it off, which means we cannot do this right now without changing the code. We...

The mappings are sorted by mapping positions. You may try `-o /dev/stdout` and see if the mappings are output into stdout. If yes then you might be able to pipe...

It seems that deeptools only support SAM/BAM input. One possible solution is to convert the bed files to bam files using bedtools. You may have to add the header to...

What is the size of your genome? It is known from previous issue #9 that when your genome is huge (e.g., 17GB), it could fail. In most cases, it should...

It should work if the max chromosome length is less than 4GB. You may give it a try.

`Loaded all sequences successfully in 3.18s, number of sequences: 0, number of bases: 0.` This is weird. It looks like your ref file is empty. Is there a way for...

Thank you. I will try a genome >2GB. Can you post your error message for those two genomes here? The max of uint32_t is actually around 4GB. That's why I...

This issue should get fixed in the v0.2.2. You can try it.