Finish quidel geo util refactor

[chinandrew]

Description

For some reason quidel_covidtest was refactored but quidel wasn't finished. Basically just copied the changes from b39d55f

Changelog

Itemize code/test/documentation changes and files added/removed.

• Update geo_map to use geo utils by taking existing code from quidel_covidtest
• Change function calls to match new signature
• Fix tests

Fixes

• Fixes #(issue)

[jingjtang]

@chinandrew I got these for linting. No big problems.

************* Module delphi_quidel.run
delphi_quidel/run.py:7:0: W0611: Unused join imported from os.path (unused-import)
delphi_quidel/run.py:9:0: W0611: Unused pandas imported as pd (unused-import)
************* Module delphi_quidel.pull
delphi_quidel/pull.py:65:0: C0301: Line too long (102/100) (line-too-long)
delphi_quidel/pull.py:314:0: C0301: Line too long (115/100) (line-too-long)
delphi_quidel/pull.py:405:0: C0301: Line too long (117/100) (line-too-long)
************* Module delphi_quidel.data_tools
delphi_quidel/data_tools.py:9:0: C0303: Trailing whitespace (trailing-whitespace)
delphi_quidel/data_tools.py:67:0: C0301: Line too long (109/100) (line-too-long)
delphi_quidel/data_tools.py:122:0: C0301: Line too long (112/100) (line-too-long)
delphi_quidel/data_tools.py:175:0: C0301: Line too long (105/100) (line-too-long)
delphi_quidel/data_tools.py:310:0: C0301: Line too long (102/100) (line-too-long)

Other than these, the logic looks fine. All tests passed

[chinandrew]

@krivard informed me that the run-quidel branch already has these changes and just isn't in main yet, so I guess this may not be needed?

[jingjtang]

@chinandrew Oh, yes. I have finished the geo util refactor in run-quidel branch. Didn't realize that it is not in the main. Sorry about the duplicate work that you did. The work still left for Quidel is:

1. Add megacounties
2. Add HHS and national level data

[krivard]

run-quidel has the merged flu+covid quidel pipeline, which has not been deployed, and iirc is blocked on deletion support since it will also remove a bunch of regions from the historical data record

[chinandrew]

is run-quidel what's currently deployed?

[jingjtang]

@chinandrew quidel_covidtest is the one that is deployed which is for covidtest only. run-quidel is for both covid test and flu test

[chinandrew]

ah, right. in that case I think this PR can be closed and we'll just figure out the run-quidel issue