v0.2.1

v0.2.1 (2024-10-22)

Bug Fixes

• fix: fix bad file path concat (#221)

• fix: fix bad file path concat

• fix: update version (c067bb1)

Documentation

• docs: Adds testing notes (9a3cc63)

Unknown

• Merge pull request #217 from UCSD-E4E/dependabot/github_actions/dot-github/workflows/actions/download-artifact-4.1.7

Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows (d3fa499)

• Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows

Bumps actions/download-artifact from 3 to 4.1.7.

• Release notes
• Commits

---

updated-dependencies:

• dependency-name: actions/download-artifact
  dependency-type: direct:production
  ...

Signed-off-by: dependabot[bot] [email protected] (25aa905)

• Merge pull request #219 from UCSD-E4E/198-document-running-local-tests (53fb813)

• Merge pull request #213 from UCSD-E4E/dependabot/pip/setuptools-70.0.0

Bump setuptools from 68.2.2 to 70.0.0 (e4789bf)

• Bump setuptools from 68.2.2 to 70.0.0

Bumps setuptools from 68.2.2 to 70.0.0.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: setuptools
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] [email protected] (ac4d61e)

• Merge pull request #211 from UCSD-E4E/dependabot/pip/certifi-2024.7.4

Bump certifi from 2023.7.22 to 2024.7.4 (f394ee9)

• Bump certifi from 2023.7.22 to 2024.7.4

Bumps certifi from 2023.7.22 to 2024.7.4.

• Commits

---

updated-dependencies:

• dependency-name: certifi
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] [email protected] (5de9375)

v0.2.0

v0.2.0 (2024-06-01)

Feature

• feat: fix workflow error for dependabot secrets issue (#206)

• feat: fix workflow error for dependabot secrets issue

• fix: update them so they run on peotry.lock and pyproject.toml

• fix: adjust so human changes can work

• test: secret issues

• Update conftest.py

• fix: remove bad chaining

• Update pyproject.toml

• fix: indent error

• Update pyproject.toml

• Update env_test.yml

• Update pyproject.toml

• fix: cleanup (c727366)

Unknown

• Create Automatic Releases (#189)

• test build a wheel

• test auto create issue

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• Update test_gh_cli.yml

• testing releases

• test creating a wheel

• Update create_release.yml

• Update create_release.yml

• Update create_release.yml

• Update create_release.yml

• Update pyproject.toml

feat(package): add semantic verisioning

• feat: added semantic releases

• fix: test semantic versioning on test branch

• fix: again attempt to get sv to run on test branch

• fix:

• test new message

• fix: add wheel to build

• test new message

• Update test.txt

• fix: update name of release

• test new message

• fix: run only on main

• fix: address changes to actions and pyproject.toml

• fix: update matrix to stay within project supported versions

• fix: fix python version again

• fix: test why python 3.12 keeps being activated

• Update pyproject.toml

• fix: remake github actions to mirror e4e deduplicate action

• fix: change ref

• fix: remove build command

• Update create_release.yml

• Update create_release.yml

• 0.1.0-rc.4

Automatically generated by python-semantic-release

• fix: remove commit message

• fix: disable changelog

• Create TEST.txt

• feat: test

• feat: TEST

• fix: update release conditions

• Update create_release.yml

• test: update test

• fix: adjust release output

• test: try out how to send data over

• test: remove changelog

• fix: test again

• 0.1.0-rc.10

Automatically generated by python-semantic-release

• fix: revert release change

• 0.1.0-rc.11

Automatically generated by python-semantic-release

• fix: return it to how it is in dedup example, and hope

• fix: fix refs

• doc: remove extra comments

• fix: swap back to main

• Delete TEST.txt

---

Co-authored-by: github-actions <[email protected]>
Co-authored-by: semantic-release <semantic-release> (59e89ef)

• Bump jupyter-server from 2.10.0 to 2.11.2 (#173)

Bumps jupyter-server from 2.10.0 to 2.11.2.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: jupyter-server
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (dfc0d7e)

• Bump requests from 2.31.0 to 2.32.2 (#207)

Bumps requests from 2.31.0 to 2.32.2.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: requests
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (c2915f3)

• Bump pillow from 10.1.0 to 10.3.0 (#195)

Bumps pillow from 10.1.0 to 10.3.0.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: pillow
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (868710a)

• Bump jinja2 from 3.1.2 to 3.1.4 (#194)

Bumps jinja2 from 3.1.2 to 3.1.4.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: jinja2
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (d5ddc66)

• Bump werkzeug from 3.0.1 to 3.0.3 (#196)

Bumps werkzeug from 3.0.1 to 3.0.3.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: werkzeug
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (a2f104f)

• Bump jupyterlab from 4.0.8 to 4.0.11 (#182)

Bumps jupyterlab from 4.0.8 to 4.0.11.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: jupyterlab
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (d629418)

• Bump notebook from 7.0.6 to 7.0.7 (#181)

Bumps notebook from 7.0.6 to 7.0.7.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: notebook
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (ca3ed8a)

v0.1.0

v0.1.0 (2024-05-16)

Ci

• ci: Updates to checkout@v4 (c40c196)

• ci: Switches to latest OSes (b203185)

• ci: Fixes workflow due to limited space, switches to JSON creds (589be8c)

• ci: Fixes matrix (2f97086)

• ci: Optimizes workflow (27533ce)

• ci: Fixes env test to only execute on env changes (8cb235d)

Feature

• feat: Updated documentation for template matching and FG-BG util.py files

Added descriptions of the util.py files for template matching and BirdNET FG-BG Separation (8300796)

• feat: Updated documentation for IsoAutio.py and isolation_parameters

Added descriptions of isolation parameters for template matching and FG-BG
Updated IsoAutio.py documentation with descriptions of write_confidence and template matching/FG-BG functions (1d6ac39)

Fix

• fix: Fixes env variable (a6b7094)

• fix: Reset tutorial to microfaune, updated env_test with changes from main

• Set the default isolation_parameters in the tutorial notebook to microfaune parameters
• Updated environment test yaml file based on most recent changes from main (b05a555)

Unknown

• Merge pull request #200 from UCSD-E4E/ci/optimized_workflow

ci: Optimized workflow (dea0c07)

• Bump idna from 3.4 to 3.7 (#193)

Bumps idna from 3.4 to 3.7.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: idna
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Sean Perry <[email protected]> (355e93f)

• Fix: fixed test file paths (#197)

Changes where we tell the tests where the audio files are to be correct

namely from /temp/pyha_test to /temp/TEST (5e6a2bc)

• Bump jupyter-lsp from 2.2.0 to 2.2.2 (#180)

Bumps jupyter-lsp from 2.2.0 to 2.2.2.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: jupyter-lsp
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> (adaf991)

• Update README.md for New Google Storage (#188) (2900fa2)

• Merge pull request #192 from UCSD-E4E/template-matching

Template Matching and FG-BG Separation added as new WTS pipelines. Furthermore, added in a "CONFIDENCE" column option. Small bug fixes related to logging were added as well. (5d1fae8)

• Merge pull request #191 from UCSD-E4E/local_score_confidene

First pass of confidence column from max local score array values (510aa0b)

• First pass of confidence column from max local score array values

• Demonstrated in tutorial notebook
• added into IsoAutio
• Handled in annotation_chunker() (cec1213)

• Fixed order of operations on mean and standard deviation calculations on template spectrogram (42da684)

• Bug Fixes

• addressed threshold min handling when key isn't used by user
• Added back in try-catch block when generating local score arrays (5b43c74)

• Added in template matching pipeline

• Fixed a threshold min bug in steinberg isolate
• still need to do docstrings on added functions
• will need to change the PyHa tutorial back to Microfaune
• will need to update the readme
• will need to run all of the other techniques again to verify I didn't break anything (a6686e0)

• Added in first draft of BirdNET Foreground-Background Separation Local Score Generation technique

• Added in some additional bug fixes related to threshold mins in some of the isolation techniques
• Added a modification to the Jupyter notebook tutorial to include the new technique, make sure to change it back before pushing to main (dc38e79)

• Added in new folder with helper functions for foreground-background separation (ee8f529)

• Poetry Environment (#159)

• feat: Adds poetry

• feat: Adds workflow

• feat: Adds testing

• chore: Removes conda

• Replaced .append with pd.concat for pandas upgrade

Co-authored-by: Nathan Hui <[email protected]>
Co-authored-by: Sean Perry <[email protected]>
Co-authored-by: TQ Zhang <[email protected]>
Co-authored-by: Samantha Prestrelski <[email protected]> (c991cda)

• update 0 predictions in tweetynet, fix error messages (#157) (4b27fa6)

• Add torch to conda installation (#156)

Torch was not listed on Conda yaml when installed
Ran pip install torch to install torch and cuda tools
Exported to environment_Ubuntu20.04.yml
Copied the changed pip dependencies into other environments
Confirmed that Ubuntu20.04 environment worked by recreating env
Other environments should work accordingly (b3e3e43)

• Merge pull request #150 from UCSD-E4E/ctrl_c_exception_handling

Ctrl c exception handling (858714b)

• Delete unnecessary .swp and .un files (f317877)

• Delete unnecessary copy of IsoAutio.py (c0a684a)

• Merge branch 'ctrl_c_exception_handling' of https://github.com/UCSD-E4E/PyHa into ctrl_c_exception_handling (a0e362b)

• Add KeyboardInterrupt to "analyze" for BirdNET

also only import exit from sys in IsoAutio (417de3a)

• remove pycache files and reorganize gitignore

https://stackoverflow.com/questions/56309100/how-to-ignore-the-same-name-directory-pycache-in-a-project (cc82dab)

• moved KeyboardInterrupt before BaseException

just for the only try-except block that needs it. (f85d2ba)

• Added verbose key to tutorial isolation parameters (1bbf05e)

• fixed missing verbose key in jupyter notebook (5673e2e)

• Added import sys

• also noticed a resampling typo that was deprecated due to the use of resampling rather than just downsampling (c22a9c8)

• Merge branch 'main' into ctrl_c_exception_handling (e72e8e2)

• Moved KeyboardInterrupt exceptions

Moved KeyboardInterrupt exception before BaseException. Also added second "r" in "interrupt." (cef7156)

• Keyboard interupt & checkVerbose assertions

KeyboardInterupt exceptions added to try-except blocks.

addition of assertions for checkVerbose (fcd8627)

• Update IsoAutio.py

Added assert statements to checkVerbose function. ([0f2ccb6](0f2ccb6d0949466a710934...

v0.1.0-rc.9

v0.1.0-rc.9 (2024-05-16)

Test

• test: try out how to send data over (14c15ef)

v0.1.0-rc.8

v0.1.0-rc.8 (2024-05-16)

Fix

• fix: adjust release output (154f8a1)

v0.1.0-rc.7

v0.1.0-rc.7 (2024-05-16)

Test

• test: update test (1813498)

Unknown

• Update create_release.yml (07f547f)

v0.1.0-rc.6

v0.1.0-rc.6 (2024-05-16)

Fix

• fix: update release conditions (026b3d6)

v0.1.0-rc.5

v0.1.0-rc.5 (2024-05-16)

Feature

• feat: TEST (e0c7598)

• feat: test (7e0052d)

Fix

• fix: disable changelog (42dc8c2)

• fix: remove commit message (5132d9c)

Unknown

• Create TEST.txt (29d1a8a)

• Merge branch 'test-python-package-prep' of https://github.com/UCSD-E4E/PyHa into test-python-package-prep (6ef7be0)

v0.1.0-rc.4

v0.1.0-rc.4 (2024-05-16)

Fix

• fix: remove build command (f652e07)

• fix: change ref (2c21723)

• fix: remake github actions to mirror e4e deduplicate action (e11a0d3)

• fix: test why python 3.12 keeps being activated (038a66c)

• fix: fix python version again (37ff6c5)

• fix: update matrix to stay within project supported versions (7263317)

• fix: address changes to actions and pyproject.toml (00ad77d)

• fix: run only on main (16b09a9)

Unknown

• Update create_release.yml (7cbe33f)

• Update create_release.yml (a5cc246)

• Update pyproject.toml (39eb298)

• Merge branch 'main' into test-python-package-prep (d10aedd)

• Bump idna from 3.4 to 3.7 (#193)

Bumps idna from 3.4 to 3.7.

• Release notes
• Changelog
• Commits

---

updated-dependencies:

• dependency-name: idna
  dependency-type: indirect
  ...

Signed-off-by: dependabot[bot] <[email protected]>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Sean Perry <[email protected]> (355e93f)

• Fix: fixed test file paths (#197)

Changes where we tell the tests where the audio files are to be correct

namely from /temp/pyha_test to /temp/TEST (5e6a2bc)

v0.1.0-rc.11

v0.1.0-rc.11 (2024-05-16)

Fix

• fix: revert release change (8e60639)

Unknown

• Merge branch 'test-python-package-prep' of https://github.com/UCSD-E4E/PyHa into test-python-package-prep (42634d5)