Re: [Seqan-dev] Disk-based index

[John Reid <j.reid@mail.cryst.bbk.ac.uk>]

On 28/08/13 10:46, Siragusa, Enrico wrote:

Hi John,

On Aug 28, 2013, at 10:54 AM, John Reid <j.reid@mail.cryst.bbk.ac.uk>

 wrote:

Hi all,

I would like to index the mouse or human genome with an ESA. I need to do this more than once though and would like to store the ESA on disk as it takes some hours to construct. Is this feasible? Is there any way to do this in SeqAn already?

Sure. To save an index after constructing it, you can call save(index, "/path/to/index"). To load it, call open(index, "/path/to/index"). The path must be given as a C style string, so if you're using a SeqAn String, please use toCString() to convert it.

Enrico, Thanks for the help. Is it possible to save the index into a compressed file(s)? I'm guessing the format SeqAn currently uses is not compressed.

Regards,
John.