Version 0.6.3

This release contains major and minor fixes (especially regarding the malformed spreadsheet issue #27) and a black/isort-automated code refactoring. Also, the iJO* examples can now be executed directly from the autopacmen main folder.

What's Changed

• Version 0.6.3 by @Paulocracy in #30

Full Changelog: v0.6.2...v0.6.3

0.6.2

This is a bug fixing release incorporating all problems that were found in the last couple of years.

Also, be aware of file name problems as mentioned by @FraserAndrews7 in #23 :-)

What's Changed

• Fix for bug in organism name parsing by @voidsailor in #18
• Fix typo thanks to @emikar ; see #13 by @Paulocracy in #19
• fix/word_vardec by @arendma in #21
• UniProt API Update by @yaccos in #25

Full Changelog: v0.6.1...v0.6.2

Version 0.6.1 of AutoPACMEN

• Fixing several bugs (#8, #9) thanks to the help of @yaccos

Release 0.6.0 of AutoPACMEN

• The repository's structure is reorganized: Now, only the core modules of autopacmen-Paulocracy are in the "autopacmen" subfolder, the MATLAB Model Calibrator is in "AutoPACMEN_Model_Calibrator_MATLAB", and iJO1366*'s generation is in "iJO1366star". This change fixes several potential problems (as mentioned in issue #4) in which AutoPACMEN's modules are not correctly referenced and cannot be imported, especially if it is used as a pip-installed Python module.
  Note: This reorganization could break existing usages of AutoPACMEN, i.e., for the user, it may be neccessary to change the way how AutoPACMEN's modules are called.
• The HTML source code docs are updated.

Release 0.5.6 of AutoPACMEN

• Bug-fixing release addressing issues #4, #5, #6 and #7

Release 0.5.5 of AutoPACMEN

• Fixes bugs mentioned in issue #3

Release 0.5.4 of AutoPACMEN

• Adding console output to "create_smoment_model_reaction_wise" which shows, reaction-wise, the selected kcat as well as the selected molecular weight (with regard to the internal single enzyme stoichiometries)
• Extended GECKO model and sMOMENT model comparison output
• Minor comment fixes

v0.5.3

Addressing issue #1

Version 0.5.2 of AutoPACMEN

• Updated publication information about Bekiaris & Klamt, 2020

Release 0.5.1 of AutoPACMEN

• Minor documentation and README fixes and updates
• Updated flux variability figure