Jonathan Karr
Jonathan Karr
I added an example COMBINE archive with a VCML file to help correct this. https://github.com/biosimulators/Biosimulators_test_suite/tree/dev/examples/vcml Issues - `sedmlDataSetIds`, `sedmlDataSetLabels`, `sedmlDataSetNames` are incorrect for reports. These arrays should contain the ids,...
@jmdetloff this is another impactful and comparatively easy place where you could start. This would likely be easier that what we discussed today (because it requires less knowledge of domain...
Presently, algorithms must be described as a single KiSAO term. This creates the need to create additional terms for each hybrid combination. A more flexible approach would be to allow...
The dispatch service is still failing at multiple points. In simulations of BiGG and ModelDB last night, I encountered failures in several places (roughly in descending order of frequency): -...
If a simulation times out, its log may not be available from S3. In that case, it should be read from UConn HPC using SSH. - [ ] Read log...
- [x] Speed up JSON encoding. Done in #4288. - [x] Extract specifications of manifest from manifest file (in S3) rather than COMBINE archive file: ~0.3 s. - [x] Enable...
When multiple runs are executed close in time, Redis can fill up with post-processing data, such as logs. As noticed in #4236, this can overload Redis, resulting in failures in...
Display - [ ] Tasks. For each task - [ ] Model - [ ] Source - [ ] Format - [ ] Changes - [ ] Simulation - [...
Example: https://github.com/biosimulations/biosimulations/blob/6a907085e2c9e8f2ba9a3b10bee7709909cc0aa5/libs/simulation-project-utils/ui/src/lib/create-project/create-project/create-project.component.ts#L701