ExperimentDataDictionary

varnerlab / Kwatee-CellFreeModel-Plugin

Kwatee plugin for generating cell free metabolic network models in the Julia programming language

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ExperimentDataDictionary #1

Open Nick-G-Horvath opened 8 years ago

Nick-G-Horvath commented 8 years ago

We should generate DataFile.jl such that it contains the experimental data dictionary.

Nick-G-Horvath commented 8 years ago

We should generate all files to use relative paths.

Nick-G-Horvath commented 8 years ago

In Objective.jl, the reshape on line 10 has a 16 hard coded. Instead of tmp_array = reshape(tmp,16,2);, perhaps num_row = convert(Int64,length(tmp)/2); tmp_array = reshape(tmp,num_row,2);. The same is true of SearchRC.jl, SearchK.jl, and SearchIC.jl.

varnerlab commented 8 years ago

I agree with almost all of the comments with the exception of Objective,jl. Objective,jl is not generated by the plugin (this was hand coded by me). In the future, we would like to generate all the simulation files, and associated objective functions (similar to the BCX package in the old UNIVERSAL system). However, I haven't had time to think about this yet.

Action items

I'll update the delegate method that generates DataFile.jl to use relative paths.
I'll update the README.md file to let users know what files gets generated, and where they are put. Also we should warn them that all files are overwritten when regenerated.