Model: Outbreak Simulation

[schuelet]

Model Information

Model Name

Outbreak Simulation

References

To the model! Execute uncurated model!

Model Uploaded By admin41

Curation Pipeline

Model Status

• [x] in review (publication pending)
• [x] ready for publication
• [ ] model has been uploaded and published in Zenodo KJ

Basic Quality Control

• By Chair of Curationboard: @Racem-br

General Check

• [x] Online Sanitation Check: validate

MIRARAM Check

• [x] Model Name
• [x] Model ID
• [x] Model Creator (different from author!)
• [x] Creation Date
• [x] License
• [x] Model Execution Metadata (script-language/tool/web-service API)
• [x] Reference Description (URI)
• [x] Scope (any)
• [x] Parameter Metadata (Input/Output)

Code Of Conduct

• [x] In case of re-implementations or re-use of digital objects without changes in the business logic of the model, the person who created the FSKX file is only listed as “Creator”. In cases where the business logic of the existing digital object was significantly modified or the Creator developed the business logic of the model himself the creator can be listed as Author as well.
• [x] The FSKX file Creator confirmed that in case of re-implementations or re-use of digital model objects the main author of the original work was contacted and did not express objections, unless the permissions given by the license of that digital model object already provides such clearance.
• [x] An “Author” of an FSKX model is the person who created the majority of the model code or, in cases where the model code was published in an online repository, the person who is listed there as primary contact person. Other persons who contributed to the model code would be referenced as an additional “Author” in the FSKX file. In those cases where Authors contributed to the FSKX file generation (e.g. by doing quality control), they would also be listed as one of the “Creators”.

Final Step

• [x] Curator assigned to this ticket

Advanced Quality Control

By Curator

• Technical Curation by: @schuelet
• Scientific Curation by: [name]

Technical Curation

• [x] Model does not contain malicious code
• [x] Model metadata validates against FSKX schema
• [x] Model can be executed with KNIME FSK-Lab
• [x] All provided simulation scenarios can be executed
• [x] Model can be executed on RAKIP Model Repository

Scientific Curation

• [x] Default simulation results are in line with reference publication
• [x] User defined simulation settings result in reasonable results
• [x] Model annotation is sufficiently detailed

Report

Changes Made

Changes made to the model in preparation for publication (Zenodo KJ)

Additional notes

Observations or remarks about the model or its curation

[Racem-br]

@OctavioMV the scope is missing

Remarks:

ongoing preparation of the paper describing the model. the listed references are reference of papers used to produce this model. the default simulation results are in line with the proposed reference output proposed by the model creator.

[Racem-br]

@OctavioMV @schuelet the model is generating an error message in the download section (after the results are run) in the server: is it a workflow error or is it coming from the code?

[OctavioCarlos]

@OctavioMV the scope is missing

Scope suggested: This model is used to reflect the dynamics of the spread of food outbreaks as a function of the flow of goods from outlets and population.

Remarks:

ongoing preparation of the paper describing the model. the listed references are reference of papers used to produce this model. the default simulation results are in line with the proposed reference output proposed by the model creator.

[OctavioCarlos]

@OctavioMV @schuelet the model is generating an error message in the download section (after the results are run) in the server: is it a workflow error or is it coming from the code?

@schuelet @Racem-br I run successfully the model in my console in FSK lab. I got only a warning message: WARN FSK Runner 5:10 WARNING: FILE parameter 'print([flowFile,outbreakFile,storesFile,populationFile])' of model '6141cadf-535a-45b9-9e12-46df26c4d100' is not accessible as a filename. Make sure the variable is global and check its value. File parameters should only have their file name + extension as a value. I was not able to reproduce it in my python console (due to changes performed to adapt to FSKX). Therefore, I cannot double check if this warning message is created from FSK lab or from the code. Perhaps, Thomas might support on it.

[schuelet]

@Racem-br : scope added, execution works

okay from my side