limit query size and customize /tmp dir

wurmlab / sequenceserver

Intuitive graphical web interface for running BLAST bioinformatics tool (i.e. have your own custom NCBI BLAST site!)

https://sequenceserver.com

GNU Affero General Public License v3.0

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limit query size and customize /tmp dir #535

Open billzt opened 3 years ago

billzt commented 3 years ago

We set up a sequenceserver app for public and usually the /tmp dir would ran out of disk storage because of long DNA query sizes resulting in large temporary files.

Therefore two configs are needed: (1) an option that limits the maxium input sequence lengths (2) an option that customize a directory for temporary files.

billzt commented 3 years ago

Still need this feature since our server has been damaged for many times

yannickwurm commented 3 years ago

Hi @billzt

IIRC we do have a limit of 10mb on query size.
if you set $TMPDIR to something else, the data should go elsewhere
Regarding data filling up - the way we usually set it up is to have a cron job deleting old things after a while

I hope this helps, Yannick

billzt commented 3 years ago

Thanks. Would you be pleased to give a cron example on how to delete long running blast jobs from SequenceServer, while keeping other local blast jobs unaffected?