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# SciUnit: A Test-Driven Framework for Formally Validating Scientific Models Against Data

## Concept
[The conference paper](https://github.com/cyrus-/papers/raw/master/sciunit-icse14/sciunit-icse14.pdf)

## Documentation
[![Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/scidash/sciunit/blob/master/docs/chapter1.ipynb) <br>
[Jupyter Tutorials](https://scidash.org/sciunit/README.html)<br>
[API Documentation](http://sciunit.rtfd.io)

## Installation
```python
pip install sciunit
```
or
```python
conda install -c conda-forge sciunit
```

## Basic Usage
```python
my_model = MyModel(**my_args) # Instantiate a class that wraps your model of interest.  
my_test = MyTest(**my_params) # Instantiate a test that you write.  
score = my_test.judge() # Runs the test and return a rich score containing test results and more.  
```

## Domain-specific libraries and information
[NeuronUnit](https://github.com/scidash/neuronunit) for neuron and ion channel physiology<br>
See others [here](https://github.com/scidash/sciunit/network/dependents?dependent_type=REPOSITORY)

## Mailing List
There is a [mailing list](https://groups.google.com/forum/?fromgroups#!forum/sciunit) for announcements and discussion.
Please join it if you are at all interested!

## Contributors
 * [Rick Gerkin](http://rick.gerk.in), Arizona State University (School of Life Science)
 * [Cyrus Omar](http://cs.cmu.edu/~comar), Carnegie Mellon University (Dept. of Computer Science)

## Reproducible Research ID
RRID:[SCR_014528](https://scicrunch.org/resources/Any/record/nlx_144509-1/3faed1d9-6579-5da6-b4b4-75a5077656bb/search?q=sciunit&l=sciunit)

## License
SciUnit is released under the permissive [MIT license](https://opensource.org/licenses/MIT), requiring only attribution in derivative works. See the LICENSE file for terms.


A test-driven framework for formally validating scientific models against data. 

sciunit

A test-driven framework for formally validating scientific models against data.

cyrus2

rgerkin

(Experimental) An ambiguous license classifier was found.

What is an ambiguous license classifier?

Ambiguous License Classifier

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What is bad text encoding?

Bad text encoding

Package version is not a valid semantic version (semver).

What is bad semver?

Bad semver

Package has dependencies with an invalid semantic version. This could be a sign of beta, low quality, or unmaintained dependencies.

What is bad dependency semver?

Bad dependency semver

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What are bidirectional unicode control characters?

Bidirectional unicode control characters

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What is bin script confusion?

Bin script confusion

This Chrome extension includes content scripts that execute JavaScript on specified websites.

What are Chrome extension content scripts?

Chrome Extension Content Script

This Chrome extension requests host permissions to access specific websites or domains.

What are Chrome extension host permissions?

Chrome Extension Host Permission

This Chrome extension requests permissions to access browser APIs, user data, or system features.

What are Chrome extension permissions?

Chrome Extension Permission

This Chrome extension requests wildcard host permissions that grant broad access to websites.

What are Chrome extension wildcard host permissions?

Chrome Extension Wildcard Host Permission

Semantic versions published out of chronological order.

What is a chronological version anomaly?

Chronological version anomaly

Project maintainer's SSH key has been compromised.

What is a compromised SSH key?

Compromised SSH key

(Experimental) Copyleft license information was found.

What do I need to know about license files?

Copyleft License

Contains a Critical Common Vulnerability and Exposure (CVE).

What is a critical CVE?

Title

Critical CVE

Contains a high severity Common Vulnerability and Exposure (CVE).

What is a CVE?

High CVE

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What is debug access?

Debug access

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What is a deprecated package?

Deprecated

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What is a deprecated SPDX exception?

Deprecated SPDX exception

(Experimental) License is deprecated which may have legal implications regarding the package's use.

What is a deprecated license?

Deprecated license

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Possible typosquat attack

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What is dynamic require?

Dynamic require

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What is an empty package?

Empty package

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What is environment variable access?

Environment variable access

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What are extraneous dependencies?

Name

Extraneous dependency

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What are file dependencies?

File dependency

Accesses the file system, and could potentially read sensitive data.

What is filesystem access?

Filesystem access

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What are wildcard dependencies?

Wildcard dependency

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Alert title

Generic alert

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What are git dependencies?

Git dependency

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What are GitHub dependencies?

GitHub dependency

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AI-detected potential malware

AI has determined that this package may contain potential security issues or vulnerabilities.

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AI-detected potential security risk

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Why is native code a concern?

Native code

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High entropy strings

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What are unicode homoglyphs?

Unicode homoglyphs

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What are http dependencies?

HTTP dependency

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What is an install script?

Install scripts

Package has an invalid manifest file and can cause installation problems if you try to use it.

What is an invalid manifest file?

Invalid manifest file

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What are invisible characters?

Invisible chars

(Experimental) Package license has recently changed.

What is a license change?

License change

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What is a license exception?

License exception

This package is not allowed per your license policy. Review the package's license to ensure compliance.

What is a license policy violation?

License Policy Violation

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What's wrong with long strings?

Long strings

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Major refactor

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Known malware

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Manifest confusion

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Medium CVE

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Low CVE

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sciunit

SciUnit: A Test-Driven Framework for Formally Validating Scientific Models Against Data

Concept

Documentation

Installation

Basic Usage

Domain-specific libraries and information

Mailing List

Contributors

Reproducible Research ID

License

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