Kaiju database download

Question

[10mz1]

Hi all,

I'm trying to operationalize Kaiju on my local PC. I downloaded the non-redundant database and extracted locally. I am now trying to run and hitting a segmentation fault, which I believe is due to the computer running out of memory. I have 32GB of memory. I see some pretty high RAM requirements listed here, and yet, I think those may only be for building the index locally, and not downloading the prebuilt index. Is this correct?

Is there any way I can run this program with some fastqs without hitting a segmentation fault?

Answer 1

[cfos4698]

The last column denotes the required memory for running Kaiju with the respective index and for creating the index (in brackets).

https://github.com/bioinformatics-centre/kaiju

Looks like 32 GB of RAM simply won't be enough if kaiju works like kraken and loads the database into memory.