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kiosk-client\n\n[![Build Status](https://github.com/vanvalenlab/kiosk-client/workflows/build/badge.svg)](https://github.com/vanvalenlab/kiosk-client/actions)\n[![Coverage Status](https://coveralls.io/repos/github/vanvalenlab/kiosk-client/badge.svg?branch=master)](https://coveralls.io/github/vanvalenlab/kiosk-client?branch=master)\n[![License](https://img.shields.io/badge/License-Apache%202.0-blue.svg)](/LICENSE)\n[![PyPi](https://img.shields.io/pypi/v/kiosk_client.svg)](https://pypi.org/project/Kiosk-Client/)\n[![Python Versions](https://img.shields.io/pypi/pyversions/kiosk_client.svg)](https://pypi.org/project/kiosk_client/)\n\n`kiosk-client` is tool for interacting with the [DeepCell Kiosk](https://github.com/vanvalenlab/kiosk-console) in order to create and monitor deep learning image processing jobs. It uses the asynchronous HTTP client [treq](https://github.com/twisted/treq) and the [Kiosk-Frontend API](https://github.com/vanvalenlab/kiosk-frontend) to create and monitor many jobs at once. Once all jobs are completed, [costs are estimated](./docs/cost_computation_notes.md) by using the cluster's [Grafana API](https://grafana.com/docs/http_api/). An output file is then generated with statistics on each job's performance and resulting output files.\n\nThis repository is part of the [DeepCell Kiosk](https://github.com/vanvalenlab/kiosk-console). More information about the Kiosk project is available through [Read the Docs](https://deepcell-kiosk.readthedocs.io/en/master) and our [FAQ](http://www.deepcell.org/faq) page.\n\n## Installation\n\n### Install with `pip`\n\n```bash\npip install kiosk_client\n```\n\n### Install from source\n\n```bash\n# clone the repository\ngit clone https://github.com/vanvalenlab/kiosk-client.git\n\n# install the package\npip install kiosk-client\n```\n\n## Usage\n\nThe only thing necessary to use the CLI is the image file to process, the type of job, and the IP address or FQDN of the DeepCell Kiosk.\n\n```bash\npython -m kiosk_client path/to/image.png \\\n  --job-type segmentation \\\n  --host 123.456.789.012\n```\n\nIt is also possible to override the default model and post-processing function for a given job type.\n\n```bash\npython -m kiosk_client path/to/image.png \\\n  --job-type segmentation \\\n  --host 123.456.789.012 \\\n  --model ModelName:0 \\\n  --post deep_watershed\n```\n\n### Benchmark Mode\n\nThe CLI can also be used to benchmark the cluster with high volume jobs.\nIt is a prerequisite that the the `FILE` exist in the `STORAGE_BUCKET` inside `UPLOAD_PREFIX` (e.g. `/uploads/image.png`).\nThere are also a number of other benchmarking options including `--upload-results` and `--calculate_cost`.\nA new job is created every `START_DELAY` seconds up to `COUNT` jobs.\nThe upload time can be simulated by changing the start delay.\n\n```bash\n# from within the kiosk-client repository\npython -m kiosk_client path/to/image.png \\\n  --job-type segmentation \\\n  --host 123.456.789.012 \\\n  --model ModelName:0 \\\n  --post deep_watershed \\\n  --start-delay 0.5 \\\n  --count 1000 \\\n  --calculate_cost \\\n  --upload-results\n```\n\n_It is easiest to run a benchmarking job from within the DeepCell Kiosk._\n\n## Configuration\n\nEach job can be configured using environmental variables in a `.env` file. Most of these environment variables can be overridden with command line options. Use `python benchmarking --help` for detailed list of options.\n\n| Name | Description | Default Value |\n| :--- | :--- | :--- |\n| `JOB_TYPE` | **REQUIRED**: Name of job workflow. | `\"segmentation\"` |\n| `API_HOST` | **REQUIRED**: Hostname and port for the *kiosk-frontend* API server. | `\"\"` |\n| `STORAGE_BUCKET` | Cloud storage bucket address (e.g. `\"gs://bucket-name\"`). Required if using `benchmark` mode and `upload-results`. | `\"\"` |\n| `MODEL` | Name and version of the model hosted by TensorFlow Serving (e.g. `\"modelname:0\"`). Overrides default model for the given `JOB_TYPE` | `\"modelname:0\"` |\n| `SCALE` | Rescale data by this float value for model compatibility. | `1` |\n| `LABEL` | Integer value of label type. | `\"\"` |\n| `PREPROCESS` | Name of the preprocessing function to use (e.g. `\"normalize\"`). | `\"\"` |\n| `POSTPROCESS` | Name of the postprocessing function to use (e.g. `\"watershed\"`). | `\"\"` |\n| `UPLOAD_PREFIX` | Prefix of upload directory in the cloud storage bucket. | `\"/uploads\"` |\n| `UPDATE_INTERVAL` | Number of seconds a job should wait between sending status update requests to the server. | `10` |\n| `START_DELAY` | Number of seconds between submitting each new job. This can be configured to simulate upload latency. | `0.05` |\n| `MANAGER_REFRESH_RATE` | Number of seconds between completed job updates. | `10` |\n| `EXPIRE_TIME` | Completed jobs are expired after this many seconds. | `3600` |\n| `CONCURRENT_REQUESTS_PER_HOST` | Limit number of simultaneous requests to the server.  | `64` |\n| `NUM_CYCLES` | Number of times to run the job. | `1` |\n| `NUM_GPUS` | Number of GPUs used during the run. Used for logging. | `0` |\n| `LOG_ENABLED` | Toggle for enabling/disabling logging. | `True` |\n| `LOG_LEVEL` | Level of output for logging statements. | `\"DEBUG\"` |\n| `LOG_FILE` | Filename of the log file. | `\"benchmark.log\"` |\n| `GRAFANA_HOST` | Hostname of the Grafana server. | `\"prometheus-operator-grafana\"` |\n| `GRAFANA_USER` | Username for the Grafana server. | `\"admin\"` |\n| `GRAFANA_PASSWORD` | Password for the Grafana server. | `\"prom-operator\"` |\n\n\n#### Google Cloud Authentication\n\nWhen uploading to Google Cloud, you will need to [authenticate](https://cloud.google.com/docs/authentication/production) using the `GOOGLE_APPLICATION_CREDENTIALS` set to your service account JSON file.\n\n## Contribute\n\nWe welcome contributions to the [kiosk-console](https://github.com/vanvalenlab/kiosk-console) and its associated projects. If you are interested, please refer to our [Developer Documentation](https://deepcell-kiosk.readthedocs.io/en/master/DEVELOPER.html), [Code of Conduct](https://github.com/vanvalenlab/kiosk-console/blob/master/CODE_OF_CONDUCT.md) and [Contributing Guidelines](https://github.com/vanvalenlab/kiosk-console/blob/master/CONTRIBUTING.md).\n\n## License\n\nThis software is license under a modified Apache-2.0 license. See [LICENSE](/LICENSE) for full  details.\n\n## Copyright\n\nCopyright © 2018-2020 [The Van Valen Lab](http://www.vanvalen.caltech.edu/) at the California Institute of Technology (Caltech), with support from the Paul Allen Family Foundation, Google, \u0026 National Institutes of Health (NIH) under Grant U24CA224309-01.\nAll rights reserved.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fkiosk-client","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fvanvalenlab%2Fkiosk-client","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fkiosk-client/lists"}