Release/v0.1.0

[elewis2]

Release/v0.1.0

First release of merged pori_ipr_python and pori_graphkb_python packages as pori_python.

Improvement:

• merge pori_ipr_python and pori_graphkb_python adaptors
• update test suite for use with external PORI deployments; skip tests that will only work on the BCGSC PORI deployment (where possible, replace with tests on other data)
• DEVSU-2348: add function to fetch associated gene list per variant returned by cancer predisposition and pharmacogenomic gene variant functions
• DEVSU-2349: add option to load reports by pori-ipr-api reports-async endpoint
• SDEV-4409: update gene exclude lists
• SDEV-4409: use typing extension > 4.4; remove max version on requests
• KBDEV-1231: add test to ensure no incorrect matches to wildtype

Bugfix:

• DEVSU-2348: fix test of pharmocogenomic gene list
• SDEV-4409: use tqdm for progress bar
• SDEV-4431: update mypy types

[dustinbleile]

I might just go with Release v1.0.0 unless you have some other big milestone in mind.

[codecov-commenter]

Codecov Report

Attention: Patch coverage is 80.78669% with 127 lines in your changes missing coverage. Please review.

Please upload report for BASE (main@c1c0e04). Learn more about missing BASE report.

Files	Patch %	Lines
pori_python/ipr/connection.py	27.27%	40 Missing ⚠️
pori_python/ipr/main.py	60.22%	35 Missing ⚠️
pori_python/ipr/annotate.py	50.84%	29 Missing ⚠️
pori_python/ipr/inputs.py	86.51%	12 Missing ⚠️
pori_python/graphkb/util.py	90.62%	3 Missing ⚠️
pori_python/ipr/util.py	89.65%	3 Missing ⚠️
pori_python/ipr/ipr.py	96.15%	2 Missing ⚠️
pori_python/ipr/summary.py	97.82%	2 Missing ⚠️
pori_python/graphkb/genes.py	98.27%	1 Missing ⚠️

Additional details and impacted files

@@           Coverage Diff           @@
##             main      #24   +/-   ##
=======================================
  Coverage        ?   86.23%           
=======================================
  Files           ?       18           
  Lines           ?     2157           
  Branches        ?        0           
=======================================
  Hits            ?     1860           
  Misses          ?      297           
  Partials        ?        0           

Flag	Coverage Δ
unittests	86.23% <80.78%> (?)

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[dustinbleile]

We'll need some other reviewers, if we are to do a release

[mathieulemieux]

We'll need some other reviewers, if we are to do a release

right @dustinbleile, I'm on it!

[dustinbleile]

We just need one of the reviewers to approve so this can be merged.