fastFVA

[laurentheirendt]

Integration of (internal) fastFVA version that has been adapted from original version:

• user-friendly MEX file generation on UNIX and Windows systems
• dynamic parameters
• parallel computation tracking
• distribution strategies
• test & documentation
• integration with CI

I hereby confirm that I have:

• Tested my code on my own machine
• Followed the guidelines in the Contributing Guide
• Selected develop as a target branch (top left drop-down menu)

cc: @ithiele, @stefaniamagg , @maikeaurich, @marouenbg

[laurentheirendt]

Closing temporarily for further changes.

[codecov-io]

Codecov Report

Merging #560 into develop will increase coverage by 1.01%.
The diff coverage is 71.09%.

@@             Coverage Diff             @@
##           develop     #560      +/-   ##
===========================================
+ Coverage    24.89%   25.91%   +1.01%     
===========================================
  Files          621      611      -10     
  Lines        38008    37486     -522     
===========================================
+ Hits          9463     9714     +251     
+ Misses       28545    27772     -773

Impacted Files	Coverage Δ
src/modelAnalysis/FVA/fastFVA/cleanFilesFastFVA.m	0% <0%> (ø)
src/base/solvers/changeCobraSolver.m	76.36% <100%> (+4.93%)	⬆️
src/modelAnalysis/sampling/chrrSampler.m	75% <100%> (+11.36%)	⬆️
src/base/solvers/getCPLEXversion.m	72.22% <72.22%> (ø)
src/modelAnalysis/FVA/fastFVA/fastFVA.m	75.09% <75.09%> (ø)
src/base/setWorkerCount.m	76.92% <76.92%> (ø)
src/modelAnalysis/sampling/sampleCbModel.m	73.23% <0%> (-5.17%)	⬇️
src/base/io/utilities/convertOldStyleModel.m	77.96% <0%> (-1.73%)	⬇️
src/base/solvers/solveCobraNLP.m	37.34% <0%> (-1.17%)	⬇️
...Analysis/multiSpecies/createMultipleSpeciesModel.m	91.13% <0%> (-0.91%)	⬇️
... and 42 more

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[syarra]

Waooo 🎆 Great job @laurentheirendt!
It's awesome to have fastFVA in The COBRA Toolbox!

[marouenbg]

nice catch @laurentheirendt !! 🐲