Science Score: 46.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
○.zenodo.json file
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✓DOI references
Found 3 DOI reference(s) in README -
✓Academic publication links
Links to: biorxiv.org -
✓Committers with academic emails
8 of 21 committers (38.1%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (18.6%) to scientific vocabulary
Keywords from Contributors
Repository
Python SDK for interacting with the BossDB REST API
Basic Info
Statistics
- Stars: 22
- Watchers: 10
- Forks: 15
- Open Issues: 8
- Releases: 4
Metadata Files
README.md
intern
intern (Integrated Toolkit for Extensible and Reproducible Neuroscience) is a Python 3 module that enables big-data neuroscience. Currently, it provides an interface to common big-data neuroimaging databases such as BossDB, CloudVolume, DVID, and other standard formats.
Getting Started
To quickly get started with intern, check out the wiki: https://github.com/jhuapl-boss/intern/wiki
Documentation
Full detailed documentation can be found here: https://jhuapl-boss.github.io/intern/
Installation
It's always a good idea to use virtualenv to isolate your work from your system Python installation:
Using virtualenv:
shell
virtualenv intern
. intern/bin/activate
- Using virtualenvwrapper:
shell
mkvirtualenv intern
- (Preferred) Install via pypi
shell
pip install intern
- Install via git
Clone the repository from https://github.com/jhuapl-boss/intern and run
pip install -r requirements.txt from the repository's location on your
system.
Add <repository location> to your PYTHONPATH.
For example, on a *nix system, if intern was cloned to ~/intern:
export PYTHONPATH=$PYTHONPATH:~/intern
For Python 2 support, you will need to install intern v0.10.0 or earlier.
Optional Dependencies
To install depedencies required to use the cloud-volume remote, run the command:
shell
pip install intern[cloudvolume]
Contributing
Please submit bug reports, or get in touch using GitHub Issues.
Citation
If you find this library useful to your work, please consider citing the following:
https://www.biorxiv.org/content/10.1101/2020.05.15.098707v1
@article{intern,
doi = {10.1101/2020.05.15.098707},
url = {https://www.biorxiv.org/content/10.1101/2020.05.15.098707v1},
year = 2020,
month = {may},
publisher = {BiorXiv},
author = {Matelsky, Jordan K and Rodriguez, Luis and Xenes, Daniel and Gion, Timothy and Hider Jr., Robert and Wester, Brock and Gray-Roncal, William},
title = {{intern: Integrated Toolkit for Extensible and Reproducible Neuroscience}},
journal = {BiorXiv}
}
The Boss Legal Notes
Use or redistribution of the Boss system in source and/or binary forms, with or without modification, are permitted provided that the following conditions are met:
- Redistributions of source code or binary forms must adhere to the terms and conditions of any applicable software licenses.
- End-user documentation or notices, whether included as part of a redistribution or disseminated as part of a legal or scientific disclosure (e.g. publication) or advertisement, must include the following acknowledgement: The Boss software system was designed and developed by the Johns Hopkins University Applied Physics Laboratory (JHU/APL).
- The names "The Boss", "JHU/APL", "Johns Hopkins University", "Applied Physics Laboratory", "MICrONS", or "IARPA" must not be used to endorse or promote products derived from this software without prior written permission. For written permission, please contact BossAdmin@jhuapl.edu.
- This source code and library is distributed in the hope that it will be useful, but is provided without any warranty of any kind.
Owner
- Name: The Boss
- Login: jhuapl-boss
- Kind: organization
- Website: https://docs.theboss.io
- Repositories: 23
- Profile: https://github.com/jhuapl-boss
GitHub Events
Total
- Issues event: 1
- Watch event: 2
- Delete event: 4
- Issue comment event: 4
- Push event: 8
- Pull request review event: 3
- Pull request event: 8
- Create event: 5
Last Year
- Issues event: 1
- Watch event: 2
- Delete event: 4
- Issue comment event: 4
- Push event: 8
- Pull request review event: 3
- Pull request event: 8
- Create event: 5
Committers
Last synced: 9 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| Jordan Matelsky | j****8@g****m | 513 |
| Tim Gion | m****l@g****m | 175 |
| aeusman | A****n@g****m | 97 |
| lrodri29 | l****9@g****m | 51 |
| Kleissas, Dean M | d****s@j****u | 34 |
| Sandy Hider | s****r@j****u | 20 |
| Alex Eusman | a****s@j****u | 19 |
| dxenes1 | 3****1 | 9 |
| Will Gray Roncal | w****r@j****u | 7 |
| William Gray | w****y@j****u | 3 |
| Ben Falk | f****n@g****m | 2 |
| Kunal Lillaney | l****y@j****u | 2 |
| Ben Beasley | c****e@m****t | 1 |
| Chris Brozdowski | C****i@y****m | 1 |
| Ian Clester | i****c@i****e | 1 |
| Tori Rose | 4****r | 1 |
| William Silversmith | w****h@g****m | 1 |
| j1c | j****8@g****m | 1 |
| Michael Davis | m****s@j****u | 1 |
| Liuyuan He | h****7@1****m | 1 |
| joshua vogelstein | j****o@j****u | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 7 months ago
All Time
- Total issues: 31
- Total pull requests: 86
- Average time to close issues: 8 months
- Average time to close pull requests: 17 days
- Total issue authors: 13
- Total pull request authors: 13
- Average comments per issue: 1.65
- Average comments per pull request: 0.8
- Merged pull requests: 80
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 1
- Pull requests: 7
- Average time to close issues: N/A
- Average time to close pull requests: 2 days
- Issue authors: 1
- Pull request authors: 2
- Average comments per issue: 0.0
- Average comments per pull request: 0.57
- Merged pull requests: 7
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- j6k4m8 (15)
- william-silversmith (3)
- akshitapanigrahi (2)
- bendichter (2)
- Niuhao1998 (1)
- lrodri29 (1)
- j1c (1)
- stuarteberg (1)
- donglaiw (1)
- dxenes1 (1)
- itsJorgeRivera (1)
- alexbaden (1)
- im-a-jin (1)
Pull Request Authors
- j6k4m8 (49)
- lrodri29 (12)
- dxenes1 (11)
- sandyhider (4)
- movestill (3)
- falkben (2)
- CBroz1 (1)
- ijc8 (1)
- musicinmybrain (1)
- william-silversmith (1)
- heliy (1)
- j1c (1)
- vrose99 (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 2
-
Total downloads:
- pypi 705 last-month
-
Total dependent packages: 3
(may contain duplicates) -
Total dependent repositories: 12
(may contain duplicates) - Total versions: 29
- Total maintainers: 2
pypi.org: intern
Python SDK for interacting with neuroscience data via the Boss API.
- Homepage: https://github.com/jhuapl-boss/intern
- Documentation: https://intern.readthedocs.io/
- License: Apache 2.0
-
Latest release: 1.4.2
published 12 months ago
Rankings
Maintainers (2)
conda-forge.org: intern
- Homepage: https://github.com/jhuapl-boss/intern
- License: Apache-2.0
-
Latest release: 1.2.0
published almost 5 years ago
Rankings
Dependencies
- actions/checkout v2 composite
- actions/setup-python v1 composite
- voxmedia/github-action-slack-notify-build v1 composite
- blosc >=1.4.4
- joblib *
- mock *
- nose2 *
- numpy *
- pillow *
- psutil *
- requests >=2.11.1
- six *
- tqdm *
- x.strip *