A test suite for SED-ML, modeled after the SBML test suite.
The test suite contains of two main parts:
- archives: combine archives containing SED-ML bases simulation experiments
- cases: individual test cases similar to the SBML test suite
Each test is in a numbered directory in the cases/ directory. When possible, both SBML and CellML versions are present; the focus being on the SED-ML itself rather than the modeling language it points to. Each directory may contain the following files, where xxxxx is the number of the directory (i.e. 00001):
| file | description |
|---|---|
xxxxx-info.txt |
Information about the test itself, including a summary of what is being tested (see below). |
xxxxx-sedml-cellml.xml |
The version of the SED-ML test that points to the CellML model |
xxxxx-sedml-sbml.xml |
The version of the SED-ML test that points to the SBML model |
xxxxx-results.csv |
The output from any <report> element in the SED-ML |
xxxxx-cellml[xx].xml |
Any CellML models |
xxxxx-sbml[xx].xml |
Any SBML models |
The format of the info file is as follows:
| title | description |
|---|---|
category: |
Test Not sure if this is needed--taken from the SBML test suite, and they're all 'test' there |
synopsis: |
A short text description of the test. |
sbml: |
xxxxx-sedml-sbml.xml The version of the test that points to SBML |
cellml: |
xxxxx-sedml-cellml.xml The version of the test that points to CellML |
componentTags: |
A list of the actual SED-ML classes used in the file |
testTags: |
A list of particular SED-ML interactions or uses that cannot be summarized by simply listing the components |
testType: |
TimeCourse Not sure if this is needed either--might be covered by the componentTags? |
description: |
A longer description of the test. May include an Antimony version of the model, and a phraSED-ML version of the SED-ML, if people don't think it's too cheesy to include my own stuff here ;-) This is exactly the sort of context where those languages are particularly useful, though. |
The contributions folder is for people to upload SED-ML files or Combine Archives they think might be useful to add to the suite proper.