ReconMaps

buildFluxDistLayout(minerva, model, solution, identifier, hexColour, thickness)

Builds a layout for MINERVA from a flux distribution. If a dictionary of identifiers is not provided it is assumed that the map and the COBRA model’s nomenclature is coherent. Sends the layout to the remote MINERVA instance

Usage

[serverResponse] = buildFluxDistLayout( minerva, model, solution, identifier, rxnList)

Inputs

• minerva – Struct with the information of minerva instance: address, login, password and model (map)
• model – COBRA model structure
• solution.v – optimizeCb solution structure with a flux vector
• identifier – Name for the layout in MINERVA

Optional inputs

• hexColour colour of overlay (hex color format) –

  e.g. ‘#009933’ corresponds to http://www.color-hex.com/color/009933

• thickness – maximum thickness

Output

• serverResponse – Response of the MINERVA

changeCbMapOutput(outputFormat)

changeCbMapOutput sets the output format for drawCbMap. Displays outputFormat if no inputs provided.

outputFormatOK = changeCbMapOutput(outputFormat)

Optional input

• outputFormat drawCbMap render format –

  {‘svg’, ‘matlab’, ‘java’} (java not implemented)

Output

• outputFormatOK True if output format set properly, else false.

generateSubsystemLayouts(minerva, cobra_model, color)

Generates subsystem layouts

Usage

generateSubsystemLayouts( minerva, cobra_model, color )

Inputs

• minerva – Struct with the information of minerva instance: address, login, password and model (map)
• cobra_model – COBRA model structure
• color – Color

generateSubsytemsLayout(minerva, cobra_model, subsystem, color)

Generates subsystem layouts

Usage

generateSubsytemsLayout(minerva, cobra_model, subsystem, color)

Inputs

• minerva – Struct with the information of minerva instance: address, login, password and model (map)
• cobra_model – COBRA model structure
• subsystem – Subsystem
• color – Color

postMINERVArequest(login, password, map, googleLicenseContent, identifier, content)

Sends a new layout to a MINERVA instance

Usage

[response] = postMINERVArequest(minerva_servlet, login, password, map, identifier, content)

Inputs

• minerva_servlet – URL
• login – MINERVA username
• password – MINERVA password
• map – MINERVA map

. googleLicenseContent: True if user agreed to Google Maps terms of use: https://cloud.google.com/maps-platform/terms/

identifier: Layout name content: Content of the layout

Output

• response – MINERVA’s response - cell array index 1 - 0/1 whether the overlay was successfully uploaded. index 2 - success or error message