Info: Zenodo’s user support line is staffed on regular business days between Dec 23 and Jan 5. Response times may be slightly longer than normal.

There is a newer version of the record available.

Published April 28, 2021 | Version 0.22.0
Software Open

opencobra/cobrapy: 0.22.0

Creators

  • 1. @UnseenBio
  • 2. Humboldt University
  • 3. Utah State University
  • 4. @NREL
  • 5. University of California, San Diego
  • 6. DTU Bioengineering
  • 7. @computer-aided-biotech
  • 8. Cederstrand IT ApS
  • 9. @medlocklab
  • 10. @ParkerLab
  • 11. @DD-DeCaF

Description

Release notes for cobrapy 0.22.0 New features

  • Add support for the OSQP and COIN-OR CBC solvers (#946)
Fixes
  • Fix the Reaction.compartments attribute not updating after metabolite changes (#1055)
  • Lots of syntax, annotation, and docstring fixes (#1058, #1059, #1060, #1063, #1065, #1066, #1076, #1077, #1080)
  • Multiprocessing on windows now sends data to processes via a pickle file which should speed up any multiprocessing initialization (#1070)
  • Upgrade optlang and fix some tolerance issues (#1011)
  • Enable Python 3.9 (#1082)
Documentation
  • Document boundary reactions (#1038)
  • Documentation is now built again on each release (#1047)
  • Clarify pfba in the documentation (#1049)
Other
  • COBRApy source code releases are now deposited on Zenodo which provides a citeable DOI (#1061)
  • COBRApy creates automatic releases to BioSimulators (#1064)
  • Fix deployment of releases to the website (#1068)
  • Improve the pyproject.toml config (#1067)
Backwards incompatible changes
  • Remove some particular cobra.Reaction.lower_bound and .upper_bound behaviour that has been deprecated for a long time.

Files

opencobra/cobrapy-0.22.0.zip

Files (2.7 MB)

Name Size Download all
md5:a95742c5c58acb4aa8b47a97afa7c897
2.7 MB Preview Download

Additional details

Related works

Is supplement to
https://github.com/opencobra/cobrapy/tree/0.22.0 (URL)