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pyreconstruct

https://github.com/synapseweb/pyreconstruct

Science Score: 57.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 6 DOI reference(s) in README
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (13.0%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Basic Info
  • Host: GitHub
  • Owner: SynapseWeb
  • License: gpl-3.0
  • Language: Python
  • Default Branch: main
  • Size: 32.4 MB
Statistics
  • Stars: 11
  • Watchers: 3
  • Forks: 5
  • Open Issues: 2
  • Releases: 0
Created over 3 years ago · Last pushed 7 months ago
Metadata Files
Readme License Citation

readme.md

License: GPL v3

PyReconstruct

PyReconstruct is an actively maintained, extensible version of Reconstruct written in Python in the lab of Kristen Harris at the University of Texas at Austin. Please check out our paper introducing PyReconstruct and feel free to send us a message if you have any questions:

  • Michael Chirillo: michael.chirillo@uri.edu
  • Julian Falco: julian.falco@utexas.edu

Documentation

An installation guide, quickstart, and manuals can be found at our lab's wiki site hosted at UT Austin and at the PyReconstruct repo wiki. A quick launch guide follows below.

Then it would say lanch party, Kevin.

In a virtual environment running Python 3.11, install bleeding-edge PyReconstruct:

pip install git+https://github.com/synapseweb/pyreconstruct

or stable PyReconstruct:

pip install pyreconstruct

then launch PyReconstruct from the command line:

PyReconstruct

To install a dev version of PyReconstruct, see here.

Bug reports / Feature requests

If you notice a problem, would like to suggest a feature, or have ideas on improving our documentation, please submit an issue. We appreciate the help!

Citation

If you use PyReconstruct in published work, please cite our paper:

@article{Chirillo2025, title = {{PyReconstruct}: {A} fully open-source, collaborative successor to {Reconstruct}}, author = {Chirillo, Michael A. and Falco, Julian N. and Musslewhite, Michael D. and Lindsey, Larry F. and Harris, Kristen M.}, journal = {Proceedings of the National Academy of Sciences}, volume = {122}, number = {31}, pages = {e2505822122}, year = {2025}, month = {July}, doi = {10.1073/pnas.2505822122}, url = {https://www.pnas.org/doi/10.1073/pnas.2505822122} }

and this repo if you'd like:

@software{Falco2025, author = {Falco, Julian and Chirillo, Michael}, title = {PyReconstruct}, version = {1.19.0}, month = {May}, year = {2025} url = {https://github.com/synapseweb/pyreconstruct}, }

Owner

  • Name: SynapseWeb
  • Login: SynapseWeb
  • Kind: organization

Citation (CITATION.cff) 

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Chirillo"
  given-names: "Michael"
- family-names: "Falco"
  given-names: "Julian"
title: "PyReconstruct"
version: 1.19.0
date-released: 2025-05-28
url: "https://github.com/synapseweb/pyreconstruct"

GitHub Events

Total
  • Issues event: 15
  • Watch event: 6
  • Delete event: 17
  • Issue comment event: 35
  • Push event: 135
  • Pull request event: 4
  • Fork event: 5
  • Create event: 23
Last Year
  • Issues event: 15
  • Watch event: 6
  • Delete event: 17
  • Issue comment event: 35
  • Push event: 135
  • Pull request event: 4
  • Fork event: 5
  • Create event: 23

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 7
  • Total pull requests: 4
  • Average time to close issues: 4 months
  • Average time to close pull requests: 12 days
  • Total issue authors: 5
  • Total pull request authors: 3
  • Average comments per issue: 1.71
  • Average comments per pull request: 0.5
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 6
  • Pull requests: 4
  • Average time to close issues: 15 days
  • Average time to close pull requests: 12 days
  • Issue authors: 5
  • Pull request authors: 3
  • Average comments per issue: 1.5
  • Average comments per pull request: 0.5
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • AndrewLyon (10)
  • lyndskirk16 (4)
  • fs2dw (2)
  • dustenhubbard (2)
  • Laurenpattillo (1)
  • yyweiling (1)
  • mnahmani1 (1)
  • AgatheChaigne (1)
  • Sydneytu2 (1)
  • jessholz (1)
  • weavejul (1)
Pull Request Authors
  • dustenhubbard (2)
  • weavejul (1)
  • james-labyer (1)
Top Labels
Issue Labels
bug (14) enhancement (11)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • pypi 2,512 last-month
  • Total dependent packages: 0
  • Total dependent repositories: 1
  • Total versions: 55
  • Total maintainers: 1
pypi.org: pyreconstruct

RECONSTRUCT in Python

  • Versions: 55
  • Dependent Packages: 0
  • Dependent Repositories: 1
  • Downloads: 2,512 Last month
Rankings
Downloads: 8.8%
Dependent packages count: 10.0%
Forks count: 14.2%
Average: 15.9%
Dependent repos count: 21.7%
Stargazers count: 25.0%
Maintainers (1)
quasitriestino
Last synced: 7 months ago

Dependencies

src/requirements.txt pypi
  • PySide6 ==6.3.1
  • PySide6-Addons ==6.3.1
  • PySide6-Essentials ==6.3.1
  • asciitree ==0.3.3
  • daisy ==0.2.1
  • entrypoints ==0.4
  • fasteners ==0.17.3
  • lxml ==4.9.1
  • networkx ==2.8.6
  • numcodecs ==0.10.2
  • numpy ==1.23.2
  • opencv-python ==4.6.0.66
  • orjson ==3.8.0
  • pymongo ==4.2.0
  • shiboken6 ==6.3.1
  • tornado ==5.1.1
  • typing_extensions ==4.3.0
  • zarr ==2.12.0