* Convert float annotations if possible.
The client converts all arrays to floats.
If a category contains integer labels, and that category is copied, it will contains floats (e.g 1.0 instead of 1).
When that category is put back to the server, it fails in the tiledb code, which does not accept floats.
The solution is to convert a float category to integer, if possible.
#1984
* updates
Previously if the user remove all annotations, the code would still generate a tiledb uri
in the write_labels call, and add that to the database. A tiledb array would not be written in this case.
When the read_labels was then called, it would find the entry in the database, attempt to open
the tiledb array, then fail.
The patch here will set the tiledb_uri to the empty string if all categories are removed.
When read_labels is called, it will see the empty uri and return None.
Furthermore, if the database does have a tiledb_uri that does not exist, or cannot be read,
then the code will now log a warning, and return None (instead of throwing an exception,
which results in a server error).
#1932
* Updates due dependency version changes.
h5py recently changes and now values once returned as str are now returned as bytes.
This would have caused a much larger change, so instead the version is restricted to <3.0.0.
This caused the bulk of the testing failues.
A few other changes were needed to make a few other tests pass.
#1959
* split out config
* add tests for base and app config, refactor client config out of app config
* refactor default config retrieval
* create config test class and helper functions
* move default_config into server to fix import issue
* save tiledb array to s3, dont cache user annotations
* Add option to disable annotation filename prompt (#1787)
Co-authored-by: Madison Dunitz <dunitzm@gmail.com>
* set tiledb default context in cxg_adaptor
Co-authored-by: maniarathi <arathi.mani@chanzuckerberg.com>
Co-authored-by: Severiano Badajoz <sbadajoz@chanzuckerberg.com>
