Codecov fix (#9)

* collapsed 2 codecov jobs into 1

* commented out with statments in CI.yaml to match Codecov instructions exactly

* moved env token argument into with

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

* moved init to sub-directory in src, added CI badge to replace Github Actions Build Status badge, added README.md in src folder

* [pre-commit.ci] auto fixes from pre-commit.com hooks

for more information, see https://pre-commit.ci

---------

Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

.github/workflows/CI.yaml

@@ -59,9 +59,12 @@ jobs:
       - name: Upload coverage reports to Codecov
         uses: codecov/codecov-action@v4.0.1
         with:
+          fail_ci_if_error: false # optional (default = false)
           file: ./coverage.xml
-          flags: unittests
+          flags: unittests # optional
           name: codecov-${{ matrix.os }}-py${{ matrix.python-version }}
-        env:
-          token: ${{ secrets.CODECOV_TOKEN }}
-          slug: choderalab/missense-kinase-toolkit
+          # https://github.com/codecov/codecov-action
+          token: ${{ secrets.CODECOV_TOKEN }} # required
+          verbose: true # optional (default = false)
+        # env:
+        #   slug: choderalab/missense-kinase-toolkit

README.md

@@ -1,7 +1,7 @@
 missense-kinase-toolkit
 ==============================
 [//]: # (Badges)
-[![GitHub Actions Build Status](https://github.com/choderalab/missense_kinase_toolkit/workflows/CI/badge.svg)](https://github.com/choderalab/missense_kinase_toolkit/actions?query=workflow%3ACI)
+[![CI](https://github.com/choderalab/missense-kinase-toolkit/actions/workflows/CI.yaml/badge.svg)](https://github.com/choderalab/missense-kinase-toolkit/actions/workflows/CI.yaml)
 [![codecov](https://codecov.io/gh/choderalab/missense-kinase-toolkit/branch/main/graph/badge.svg)](https://codecov.io/gh/choderalab/missense-kinase-toolkit/branch/main)
 [![pre-commit.ci status](https://results.pre-commit.ci/badge/github/choderalab/missense-kinase-toolkit/main.svg?badge_token=dufHMzu_RH2VGGToCgvtcQ)](https://results.pre-commit.ci/latest/github/choderalab/missense-kinase-toolkit/main?badge_token=dufHMzu_RH2VGGToCgvtcQ)
 

src/README.md

@@ -0,0 +1 @@
+#TODO

src/missense_kinase_toolkit/__init__.py

@@ -0,0 +1,3 @@
+from importlib.metadata import version
+
+__version__ = version("missense-kinase-toolkit")