Open SRSteinkamp opened 4 months ago
This PR should be more a basis for discussion of how to go further - it now creates a report in the outputdir.
As a very small next step, I added some clunky code to use at least some BIDS naming for outputs and removing the hardcoding of subject IDs. It's not yet querying a BIDS dataset and creating a layout etc. - but I think BIDS format is at the very least implied.
Hey @SRSteinkamp ! I would be happy to help on that PR, if you need a second pair of eyes. Would it possible to summarize what needs to be done ?
Just trying to put some life into this.
This PR is basically a prototype, which provides a CLI that can be pointed to a physio data file and to an output directory. It will then save the report (html), figures and metrics to that output directory.
So far it is using pybids to separate fileparts etc.
I think the general question/discussion for this PR is, is this enough for the beginning, then it would need some clean up and improvement. Alternatively, we might want to discuss how the full workflow should look like (i.e. full BIDS-app style, traversing a BIDS etc.).
This PR will implement the basis for creating html output using nireports.
Proposed Changes
Change Type
bugfix
(+0.0.1)minor
(+0.1.0)major
(+1.0.0)refactoring
(no version update)test
(no version update)infrastructure
(no version update)documentation
(no version update)other
Checklist before review