A simple (and still quite hacky) sourmash client/server search.

See sourmash#1484 for some info.

You'll need to have sourmash installed already, using the branch from PR #1644.

Then, run the following.

# install necessary packages
pip install jsonrpcserver
pip install "jsonrpcclient[requests]"

Start a server on localhost:5000, running in the background:

export PYTHONPATH=.
./sourmash-server ./podar-ref/1.sig.gz &

export PYTHONPATH=.
sourmash search ./podar-ref/1.sig.gz http://localhost:5000/

and then you should see

== This is sourmash version 4.1.3.dev16+g9dbd8b5. ==
== Please cite Brown and Irber (2016), doi:10.21105/joss.00027. ==

selecting specified query k=31
loaded query: CP001941.1 Aciduliprofundum bo... (k=31, DNA)
loaded 1 databases.

1 matches:
similarity   match
----------   -----
100.0%       CP001941.1 Aciduliprofundum boonei T469, complete genome

• Over in PR #1644, we inject a "remote index" loader in sourmash_args. That's what handles the http URL on the command line. Ugly, but works for now :).
• The sourmash-server code can serve any sourmash database - so, SBT, LCA, pathlist, zipfile, directory, or signature file. Use a pathlist if you want to serve multiple indexes as a single database.

• Only the 'find' method works, so 'search' and 'gather' and 'prefetch' but not much else.
• Signature retrieval doesn't work, except with search.
• Picklists do not yet work, either.
• One big and invisible gotcha for 'gather' is that the prefetch stage is done remotely, and then the gather is done locally. This is straightforward to fix.
• Only 50 results are returned at the moment.