Fix bugs in automated GDC to CRDCH transformation script #40

gaurav · 2021-11-18T19:45:35Z

We still need to:

Figure out how to determine the associated_project.
Figure out the sample_id.
Figure out the project_id.
Figure out why time_between_excision_and_freezing doesn't work at present.
Figure out the bug in generating the tissue_or_organ_of_origin value.
Figure out the bug preventing us from generating validatable observations (probably the same as Uncomment non-validating data from the CCDH Pilot examples and fix CRDCH model so that they work correctly #39)

TODO: Once PR #22 has been merged, we should add references to the lines of code to this file.

The text was updated successfully, but these errors were encountered:

Adds the CCDH Pilots to the Example Data Repository. Some of these don't work, probably because of bugs in LinkML Runtime (#39). Others either can't be set up with the Python Data Classes or cannot be validated when they are (#40).

gaurav changed the title ~~Improve automated GDC to CRDCH transformation script~~ Fix bugs in automated GDC to CRDCH transformation script Nov 18, 2021

gaurav mentioned this issue Nov 18, 2021

Add CCDH Pilot examples #22

Merged

1 task

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

Fix bugs in automated GDC to CRDCH transformation script #40

Fix bugs in automated GDC to CRDCH transformation script #40

gaurav commented Nov 18, 2021

Fix bugs in automated GDC to CRDCH transformation script #40

Fix bugs in automated GDC to CRDCH transformation script #40

Comments

gaurav commented Nov 18, 2021