Metadata-Version: 2.1
Name: wholecell-lens
Version: 0.0.5
Summary: UNKNOWN
Home-page: https://github.com/CovertLab/Lens
Author: Eran Agmon, Ryan Spangler
Author-email: eagmon@stanford.edu, spanglry@stanford.edu
License: MIT
Platform: UNKNOWN
Description-Content-Type: text/markdown
Requires-Dist: numpy (==1.14.6)
Requires-Dist: scipy (==1.0.1)
Requires-Dist: pygame (==1.9.6)
Requires-Dist: pymunk (==5.5.0)
Requires-Dist: Unum (==4.1.4)
Requires-Dist: confluent-kafka (==0.11.5)
Requires-Dist: matplotlib (==2.2.2)
Requires-Dist: cvxopt (==1.1.7)
Requires-Dist: cvxpy (==1.0.6)
Requires-Dist: parsimonious (==0.8.1)
Requires-Dist: pymongo (==3.6.1)

# Lens

manage a colony of distributed whole-cell agents

## Usage

1. Install and start your Zookeeper and Kafka servers per instructions in [CovertLab/wcEcoli/agent/README.md](https://github.com/CovertLab/wcEcoli/tree/master/agent/README.md).

2. Start the Shepherd server to manage agent processes:

   `> lein run`

   * You can check its status by opening a web browser onto [http://localhost:41114/status](http://localhost:41114/status).

3. Start the Lens visualization server:

   `> lein run -m shepherd.lens`

4. Open a web browser onto Lens [http://localhost:33332](http://localhost:33332).

   * The Run/Pause button controls the simulation clock.

   * The pop-up menu picks which molecular concentration field to view. "GLC[p]" and "CARBON-MONOXIDE[p]" are the most interesting.

5. Create agents per the instructions in [CovertLab/wcEcoli/environment/README.md](https://github.com/CovertLab/wcEcoli/tree/master/environment/README.md).


## License

Copyright © 2018 Covert Lab

Distributed under the Eclipse Public License either version 1.0 or (at
your option) any later version.


