CHANGELOG

build: Add development branch to CI/CD workflow (6ff1e96)
build: Add timeout for Unit-Tests job and checkout code with tag in Continuous-Deployment job (2f85826)

Chore

chore(sem-ver): 1.2.0 (e2e9b74)

Feature

feat: release on development (b813e2a)
feat: release on development (71e68e0)

Unknown

Merge remote-tracking branch ‘origin’ into development (2ed6d37)

v1.1.0 (2024-04-01)

Build

build: Update Codecov job name (0b513e8)
build: remove 3.9 (ddff0b6)
build: improve gha for cleaner tree (aa9499d)

Chore

chore(sem-ver): 1.1.0 (c41b230)
chore: Update README: 1.0.1 (1b7508f)

Documentation

docs: updateREADME (6bec040)
docs: add some public devnotes (6192cb4)

Feature

feat: add refseries query to nbia client (ebbfc85)
feat: Add new functions and tests for DICOM sequence tags (e85819b)
feat: add 3.9 to python versions (3bb78f2)
feat: Add functions to query a dicomtags dataframe from NBIA (49af730)

Fix

fix: Fix string formatting in version function (dc4bbd7)
fix: python 3.9 only on ubuntu (1adb7b8)
fix: Update GitHub Actions workflow to include Ubuntu 3.9 only (8d376d3)
fix: Refactor DICOM tag conversion functions and add test cases (d6094bb)

Unknown

Merge pull request #129 from jjjermiah/development

feat: adding manipulation of tags (a826122)

Merge remote-tracking branch ‘origin’ into development (b831c04)
Merge pull request #127 from jjjermiah/development

Development (5944ed0)

Refactor: DICOM tags module (154daad)
merge: Merge remote-tracking branch ‘origin’ into development (872a23e)
remove old gha (990a14e)
dont run (489b7d8)
dont run (ae629dd)

v1.0.1 (2024-03-16)

Chore

chore(sem-ver): 1.0.1 (a99f101)
chore: Update README: 0.35.0 (74ece8e)

Fix

fix: Remove loading animation from cli_wrapper function (b550404)

Unknown

Merge pull request #126 from jjjermiah/development

fix: Minor fixes in build and documentation (59c896c)

Merge remote-tracking branch ‘origin’ into development (911ca73)
Merge branch ‘main’ into development (f63fc51)

v1.0.0 (2024-03-16)

Build

build: fix tag reference (89402d8)

Chore

chore(sem-ver): 1.0.0 (d34b5a1)
chore: Update README: 0.35.0 (0696a22)

Unknown

update README and only gha on pull requests (282b2fb)

v0.35.0 (2024-03-16)

Build

build: update main branch name in semver (4e96310)

Chore

chore(sem-ver): 0.35.0 (1b9cb08)

Documentation

docs: updateReadme (3b28958)
docs: Add download API documentation (83a4ed3)

Feature

feat: progressBar option (2c04044)

Unknown

Merge pull request #125 from jjjermiah/development

Development (07edf93)

fixes Fix ‘unresolved comment '# TODO:: describe error 204'’ issue in src\nbiatoolkit\utils\parsers.py #112 (2740cb9)
Merge branch ‘development’ of https://github.com/jjjermiah/NBIA-toolkit into development (875fd16)

v0.34.0 (2024-03-16)

Build

build: try using release output version (2d7508a)

Chore

chore(sem-ver): 0.34.0 (bd0ebcc)
chore: Update README: 0.33.0 (24b90c3)
chore: Update README: 0.33.0 (adcfde5)

Documentation

docs: improve documentation structure (1404c10)

Feature

feat: add counts to getModality and update docs for modality methods (54874a3)

Fix

fix: update changelog path (768124a)
fix: semver temp (5ff0550)
fix: semver temp (d378670)
fix: remove if context (6221885)
fix: context variable (e7b630e)
fix: branch name formatting in CI/CD workflow (e38de75)

Refactor

refactor: Fix formatting issues and import statements (b5f5cb4)
refactor: Refactor code formatting (f8b8ab8)
refactor: Add conv_response_list utility function (1aa0ad1)

v0.33.0 (2024-02-25)

Chore

chore(sem-ver): 0.33.0 (d0304cf)
chore: Update README: 0.32.1 (d9ef88b)

Documentation

docs: Merge branch ‘development’ into docs and add more collections documentation (edaaa11)
docs: add for collection methods (b4da201)
docs: update (4a7e891)
docs: add some more detail on initialize client (1c75711)
docs: fix a few cells (214151e)

Feature

feat: Add logger configuration options (80785ac)

Fix

fix: bug causing duplicate instantiations (44d56b5)
fix: Update NBIA toolkit dependencies and fix base URL references. (f0f8824)
fix: return type in patientCount and Refactor response parsing in NBIAClient class (b119d93)

Refactor

refactor: Merge remote-tracking branch ‘origin’ into docs (5c3fa28)

Unknown

Merge pull request #123 from jjjermiah/development

docs: Start building better documentation. feat: Enhance logging functionality (5bb80c3)

Merge pull request #122 from jjjermiah/88-logger-functionality

88 logger functionality (ac21134)

Merge pull request #121 from jjjermiah/docs

Docs (9b936fd)

Merge pull request #120 from jjjermiah/119-fix-patientcount-return

fix: return type in patientCount and Refactor response parsing (f0a7e11)

Merge branch ‘development’ into docs (398b88c)

v0.32.1 (2024-02-19)

Chore

chore(sem-ver): 0.32.1 (7105864)
chore: Update README: 0.32.0 (f053d10)

Refactor

refactor: Remove downloadSingleSeries command and replace Figlet with hard-coded ASCII art (b9fd89a)
refactor: improve dockerfile by removing caches and comment blocks (b8ed8b0)

Unknown

Merge pull request #117 from jjjermiah/development

merge: small fixes #114 #113 #96 (679fa31)

Merge pull request #116 from jjjermiah/main

merge w main (4f79f98)

v0.32.0 (2024-02-18)

Chore

chore(sem-ver): 0.32.0 (ce8c8ce)
chore: Update README: 0.31.0 (799667e)

Feature

feat: Refactor workflows and update test case (e111fb2)
feat: refactor return_type test (f2058e8)

v0.31.0 (2024-02-18)

Build

build: docker build (fc6fd28)

Chore

chore(sem-ver): 0.31.0 (f8b2253)
chore: Update README: 0.30.1 (ec7c9d3)

Feature

feat: Update version to 0.31.1 and upgrade pip (12c5018)

v0.30.1 (2024-02-18)

Chore

chore(sem-ver): 0.30.1 (b4ef0c7)

Fix

fix: Fix import statements in nbia.py and nbia_cli.py (14816f1)

Unknown

Merge pull request #111 from jjjermiah/development

fix cli (b044404)

Merge remote-tracking branch ‘origin’ into development (7cf41c4)

v0.30.0 (2024-02-18)

Chore

chore(sem-ver): 0.30.0 (aae2d61)
chore: Update README: 0.29.2 (c7d69ec)

Ci

ci: Update branch filter in CI/CD workflow (a276105)

Feature

feat: implement download (9ac6b8d)
feat: added dataframe to all, missing download (9b637f3)

Fix

fix: ci verbose output (6874a3d)
fix: tests Add error handling for response code 204 and fix typo in test_getDICOMTags (c8968da)
fix: Fix base URL assignment in test_break function (fab5dcc)
fix: shortened default pattern (04892b4)

Style

style: clean some stuff (876edf5)
style: Remove unnecessary code and imports (8db7a7f)
style: black (4c5ba94)
style: remove line (e012b2b)
style: trailing line spaces (0847cd9)

Unknown

Merge pull request #110 from jjjermiah/development

add return_types and new abstraction for requests to be made (f943a05)

tests: add (17df239)
tests: Add test cases for new functions (9fc3c36)
tests: add getSeries test (51f19e8)
tests: add context manager test (c14bd6f)
tests: fix breaking and turn that into new test (4bf9d3b)
Add log_level parameter to NBIAClient constructor (9d1144d)
tests: add a few tests (4cfd83f)
Add test for NBIA series functions (67777ef)
tests: add a few tests (4073918)
tests: Refactor test_auth.py and test_new_query_functionality.py (d206256)
tests: new tests (2e7afc6)
merge: Merge branch ‘development’ of https://github.com/jjjermiah/NBIA-toolkit into development (8c9470b)
Merge pull request #109 from jjjermiah/pre-commit

work on development (e71eac1)

feature: Add pandas and pyarrow dependencies, and update utils/parsers.py and new return_type (10ffe0d)
Merge remote-tracking branch ‘origin’ into docs (1c1f9b6)
Merge branch ‘docs’ of https://github.com/jjjermiah/NBIA-toolkit into docs (e58fd7b)

v0.29.2 (2024-02-12)

Chore

chore(sem-ver): 0.29.2 (9ad625d)
chore: Update README: 0.29.1 (385d972)

Documentation

docs: rename file for readthedocs (0b8197c)

Unknown

Merge pull request #107 from jjjermiah/docs

docs: merge with main (86621f1)

Merge pull request #106 from jjjermiah/main

merge_fix (57b64ae)

Merge remote-tracking branch ‘origin’ into docs (ee04533)

v0.29.1 (2024-02-12)

Build

build: docker file cleanup (34a6942)

Chore

chore(sem-ver): 0.29.1 (8d67efc)
chore: Update README: 0.29.0 (d10a38d)

Documentation

docs: added some more details on initializing client (abc2dc1)
docs: Update CI/CD workflow and documentation (8b8c7f8)

Unknown

Merge remote-tracking branch ‘origin’ into docs (3163edb)
Merge pull request #105 from jjjermiah/95-chore-removere-organize-files

fiz #95 chore removere organize files (3d00000)

Remove unnecessary files and update autoapi_dirs (96cb669)
ierge remote-tracking branch ‘origin’ into docs (ad0ec3a)

v0.29.0 (2024-02-12)

Build

build: Add conditional upload of coverage report artifact (972c785)

Chore

chore(sem-ver): 0.29.0 (8b67ab0)
chore: Update README: 0.28.0 (92ff4eb)

Documentation

docs: add tutorial back (7625694)
docs: rearrange (750e4fd)

Feature

feat: Add getDICOMTags method to NBIAClient class (18b6625)

Fix

fix: remove err (58a9ada)
fix: remove extra files (91b277b)
fix: Update pydicom version to 2.4.0 (b78edd8)
fix: merge (544c682)
fix: Fix encryption key in OAuth2 class (1082e47)

Refactor

refactor: clean, lint (688a1a6)

Unknown

Merge pull request #104 from jjjermiah/dicomtags

feat: Dicomtags (25760ef)

Merge remote-tracking branch ‘origin’ into docs (c8ffa76)
update git ignore (734cf19)
Merge pull request #103 from jjjermiah/devel

refactor: clean, lint (f9ab11e)

remove unused lines (c1dc231)
Merge pull request #102 from jjjermiah/19-authpy-logout-functionality

19 authpy logout functionality (fee4ee0)

tests: remove main code in md5 (2972b5f)
tests: add more coverage for logger (b90c74c)
Merge pull request #101 from jjjermiah/19-authpy-logout-functionality

19 authpy logout functionality (a6f40cc)

tests: fix small error (977df6c)
Merge pull request #100 from jjjermiah/main

merge (d2a6f55)

tests: add tests and Update user authentication logic (bf4b8d8)

v0.28.0 (2024-02-05)

Chore

chore(sem-ver): 0.28.0 (4f78b7a)
chore: Update README: 0.27.0 (79f7eda)

Feature

feat: Implement logout functionality and add context manager support (67968fc)

Unknown

Merge pull request #99 from jjjermiah/19-authpy-logout-functionality

feat: Implement logout functionality and add context manager support (528d1a7)

v0.27.0 (2024-02-05)

Chore

chore(sem-ver): 0.27.0 (dfd1fa7)
chore: Update README: 0.26.0 (d063000)

Feature

feat: Add encryption and decryption functions for credentials (bbbd1d2)

Unknown

Merge pull request #98 from jjjermiah/20-authpy-username-and-password-encryption

feat: Add encryption and decryption functions for credentials (e08caa0)

v0.26.0 (2024-02-05)

Chore

chore(sem-ver): 0.26.0 (e60590e)
chore: Update README: 0.25.4 (289f846)

Documentation

docs: Add programmatic access to NBIA and TCIA databases (82542b1)

Feature

feat: implement better Oauth algorithm graph and refresh token (3d81d2b)

Unknown

Merge pull request #97 from jjjermiah/18-authpy-accessrefresh-token-+-error-handling

18 authpy accessrefresh token + error handling (c2fcdb2)

Fix error handling in OAuth2 class (67140b7)
Add iframe for test setup (5d02ba1)

v0.25.4 (2024-02-04)

Chore

chore(sem-ver): 0.25.4 (edd1104)
chore: Update README: 0.25.3 (7e6803d)

Documentation

docs: added cool functionality for documentation (39c7994)
docs: add example initialization (1f242d5)
docs: update (26092e0)

Unknown

Merge pull request #93 from jjjermiah/docs

Docs (d649614)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (7aaa06b)
dont use poetry for build (579b621)

v0.25.3 (2024-02-04)

Chore

chore(sem-ver): 0.25.3 (5e8af2d)

Documentation

docs: looks like it works? (3abd131)

Fix

fix: bring it all back (cf9b3f5)
fix: any (2fd37bc)
fix: try sphinx 3.10 (afaf6b5)
fix: 3.10.4 (bd36124)
fix: 3.10.1 (88574f1)
fix: change python (e1bc9b3)
fix: turn all again (3394798)
fix: trying diff versions (a1e493a)
fix: turn off other gha (19cbf0e)

Unknown

try (22ee493)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (8ad996c)
add sphinx-tabs to poetry (9718ab7)

v0.25.2 (2024-02-04)

Build

build: test variable usage (d954905)

Chore

chore(sem-ver): 0.25.2 (ba27a61)
chore: Update README: 0.25.1 (ab85e2e)

Documentation

docs: Add new files and update index.md (861cb37)

Fix

fix: added sphinx-tabs requirement for docs and changed changelog name (e321180)

Unknown

Merge pull request #92 from jjjermiah/read_the_docs_organization

Read the docs organization (f4f5cac)

Merge remote-tracking branch ‘origin’ into read_the_docs_organization (e391dc4)

v0.25.1 (2024-02-04)

Chore

chore(sem-ver): 0.25.1 (4c33957)
chore: Update README: 0.25.0 (44c5032)

Documentation

docs: Update file paths and fix formatting in README and Tutorial (b69480f)

Fix

fix: remove LiteralString so works with python3.10 (e04d367)

Unknown

Merge pull request #90 from jjjermiah/read_the_docs_organization

Read the docs organization (aa5cf67)

Merge remote-tracking branch ‘origin’ into read_the_docs_organization (5d94bba)

v0.25.0 (2024-02-04)

Chore

chore(sem-ver): 0.25.0 (475cb57)
chore: Update README: 0.24.0 (a6b23ea)

Feature

feat: added base_url setter if user wants to use NLST. added properties for logger and base_url. (5a992df)

Refactor

refactor: Refactor OAuth2 class to support configurable base URL, added some types (c1e8f3d)

Unknown

Merge pull request #89 from jjjermiah/52-feature-add-nslt-endpoint

52 feature add nslt endpoint (682e50e)

v0.24.0 (2024-02-04)

Chore

chore(sem-ver): 0.24.0 (589f2c4)
chore: Update README: 0.23.0 (0223550)

Feature

feat: Add getSeriesMetadata method to NBIAClient class (31211a6)

Unknown

Merge pull request #87 from jjjermiah/61-feature-getseriesmetadata

feat: Add getSeriesMetadata method to NBIAClient class (c516f96)

v0.23.0 (2024-02-04)

Build

build: Update pytest parallelism and add Codecov artifact upload (77dc291)
build: Add labels and update maintainer information in Dockerfile (68e8831)

Chore

chore(sem-ver): 0.23.0 (b1d4c3b)

Feature

feat: add getStudies and getNewSeries CLI tools (99c5777)
feat: retrieve new series after a given date, +docs +tests (c6a506d)

Fix

fix: remove sem-ver commit message (ccd44bb)
fix: Update .gitignore and build documentation (1cf31bb)
fix: fix error from getCollections conflicting -prefix argument (4a7d242)

Unknown

Merge pull request #84 from jjjermiah/49-feature-getupdatedseries

49 feature getupdatedseries (440d9b4)

separate build documentation to prevent running it on every machine (473c5a7)
Update README with latest version: 0.22.1 (67fb6e4)

v0.22.1 (2024-02-04)

Chore

chore(release): 0.22.1 (8eae5fc)

Documentation

docs: Update README.md (2326b43)

Unknown

Merge pull request #83 from jjjermiah/updateREADME

Update readme [skip ci] –no-verify (69fa813)

Update README.md (0d46ccf)
Update README.md (5ac465d)
Update README with latest version: 0.22.0 (95ef0a9)

v0.22.0 (2024-02-03)

Chore

chore(release): 0.22.0 (623c467)

Feature

feat: add username and password parameters to CLI (83421a3)
feat: Add getNewPatients_cli command to pyproject.toml and nbia_cli.py (fc40dec)

Unknown

Merge pull request #82 from jjjermiah/70-feat-implement-user-and-password-for-clie

70 feat implement user and password for cli (40aca34)

Update README with latest version: 0.21.1 (5d0a69b)
Update README with latest version: 0.21.1 (64afa17)

v0.21.1 (2024-02-03)

Chore

chore(release): 0.21.1 (d6c673d)

Fix

fix: force require CD (0039c67)
fix: add CD back (8c2367f)

Unknown

add CD back (be48bb9)
Update README with latest version: 0.21.0 (15083ff)
Merge pull request #80 from jjjermiah/development

test: (ee9720a)

test: (b28afe7)

v0.21.0 (2024-02-03)

Chore

chore(release): 0.21.0 (53459d9)

Feature

feat: try again (ef5a0d4)

Unknown

Merge pull request #79 from jjjermiah/development

Development (90ad78d)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into development (ea39ee4)

v0.20.0 (2024-02-03)

Chore

chore(release): 0.20.0 (0c69c5c)

Feature

feat: testing (3062c12)
feat: Update NBIA client to include new method getNewPatients() (22895a4)
feat: Add convertDateFormat function to utils module (5d77524)

Fix

fix: add everything back (9cc6cd4)
fix: ff? (4f3e144)
fix: change to head_ref (2e1fcf5)
fix: still tryin (3e3a647)
fix: gha readme issue (027ed36)
fix: trying to fix gha readme issue (9ab5f78)

Test

test: still trying (49831c9)
test: trying (caca5db)
test: no ref (8460f3b)

Unknown

Merge pull request #78 from jjjermiah/development

Development (94ae9aa)

Merge branch ‘development’ of https://github.com/jjjermiah/NBIA-toolkit into development (11a0c89)
Update README with latest version: 0.19.2 (b85bd78)
Fix diverged branch by fetching and checking out the head_ref (06fd2e3)
trying again (e1d0e39)
test (792ef68)
test (4d18a86)
Merge pull request #77 from jjjermiah/50-feature-getnewpatientsincollection

50 feature getnewpatientsincollection (ef7db33)

rip (8125642)
Auto commit: Sat Feb 3 18:10:07 UTC 2024 (0050eda)

v0.19.2 (2024-02-03)

Chore

chore(release): 0.19.2 (157cab6)

Fix

fix: added git config email and user (978808f)

v0.19.1 (2024-02-03)

Chore

chore(release): 0.19.1 (8c37bf8)

Fix

fix: add beautifulsoup4 dependency (e6f7162)
fix: remove numpy in test_parsers (f56b0bc)

v0.19.0 (2024-02-03)

Chore

chore(release): 0.19.0 (51b679f)

Feature

feat: add getCollectionDescriptions method, with tests, and updated docs. Also includes helper functions for parsing output. (8617395)

Unknown

Merge pull request #75 from jjjermiah/46-feature-get_collection_descriptions

feat: add getCollectionDescriptions method, with tests, and updated d… (89133ac)

v0.18.1 (2024-02-03)

Build

build: only push README changes if anything actually changes (bf78f94)

Chore

chore(release): 0.18.1 (0edfd89)

Unknown

added unit tests back (ff9cf33)
Update README with latest version (60dba1e)

v0.18.0 (2024-02-03)

Chore

chore(release): 0.18.0 (3911d8d)

Feature

feat: added git pull to update-readme (9038ad8)

Unknown

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (6145f1f)

v0.17.0 (2024-02-03)

Chore

chore(release): 0.17.0 (9568607)

Feature

feat: use gha to update README (ae50777)

Test

test: include python (9ad2cd6)
test: build update README (b44996b)

Unknown

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (2d7bc57)
Update README with latest version (406d824)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (11a8803)
Update README with latest version (8dd8046)

v0.16.0 (2024-02-03)

Chore

chore(release): 0.16.0 (bc51c37)
chore: Refactor code formatting and improve readability (8bcdfa4)

Documentation

docs: update notebook to fix #71 and add getStudies function (958d603)
docs: Update README code block to include NBIAToolkit version and test new gha (3dc1996)

Feature

feat: Update DICOMSorter command line interface (6b6a2a8)

Fix

fix: Update imports and add version attribute (daad13e)

Unknown

Merge pull request #73 from jjjermiah/development

Development (1a0c816)

Merge pull request #72 from jjjermiah/48-feature-getstudy

48 feature getstudy (9552b6c)

added getStudies and tests (6e9138a)
Update main.yml (e4df33e)

v0.15.1 (2024-02-02)

Build

build: add install with pypi test (648ea4f)

Chore

chore(release): 0.15.1 (37fb393)

v0.15.0 (2024-02-01)

Chore

chore(release): 0.15.0 (0b6c7f1)

Documentation

docs: Add NBIAToolkit CLI usage to README (4cd3785)
docs: adding requirements.txt back just for the build docs requirements (22ccb4c)
docs: trying pip install instead of requirements file (c258223)
docs(README): re-structure (9a836e5)

Feature

feat: Update dependencies and add CLI tool help messages (658b59d)
feat(build): add python 3.10 (86db037)

Fix

fix: Update pyproject.toml (b0b0f0a)
fix: add setup.py back (f7394be)
fix: Update version number in pyproject.toml and nbia.py (63cf16e)

Refactor

refactor: CLI code to improve performance and readability (d5bd973)

Unknown

Merge pull request #69 from jjjermiah/development

Add CLI commands (1d77ea1)

generalized arg parse (58cb470)
testing macOS M1 and python 3.10 (a507597)

v0.14.0 (2024-01-30)

Chore

chore(release): 0.14.0 (67233c5)

Feature

feat: Add new CLI commands and improve error handling in DICOMSorter and NBIAClient (83fd4de)
feat(cli): Add CLI commands for querying NBIA database (5d9e2d7)
feat(dicomsorter): Refactor DICOMSorter class and CLI arguments

This commit refactors the DICOMSorter class and CLI arguments to improve code readability and maintainability. The DICOMSorter class now has a separate method for sorting DICOM files, and the CLI arguments have been organized and documented for better usability. (3c027dc)

Fix

fix(tests): missing os (90e8e2f)

Unknown

Merge pull request #66 from jjjermiah/development

Development (b05f2fa)

refactor(styling):Refactor code formatting and style (6d6da1b)
add os to import (2d5bf9e)

v0.13.0 (2024-01-30)

Chore

chore(release): 0.13.0 (5880609)
chore: add pre-commit hook (1913844)

Feature

feat(dicomsort): add command line script to build (bb0e687)

Fix

fix: change back to codecov 3 (103f727)
fix: add pytest xdist to dev dependencies (e406587)
fix: added pytest-cov to toml (997bb50)
fix: add dev to normal dependencies (32aca9c)
fix: poetry run command (6659b4f)
fix: use poetry run pytest (3c5b60c)
fix: install pytest manually (cecafd7)
fix: removing requirements.txt (171bc02)

Refactor

refactor: add version() function (ad549dc)

Unknown

Merge pull request #65 from jjjermiah/development

Development (6383868)

remove windows test (0d293c7)
fix code-cov (0bcf004)
fix poetry run pytest command (cd179b9)
update index (e6ca7be)
add requirements.txt back (af18bc6)
Merge pull request #64 from jjjermiah/typing-dicomsort

Typing dicomsort (3f1218b)

feature(nbia): Add pyfiglet package and display NBIAToolkit version (0007ca0)
fix typing errors (ab50dac)

v0.12.1 (2024-01-28)

Documentation

docs: add total downloads (6ed7cde)

Unknown

0.12.1

Automatically generated by python-semantic-release (d1726bf)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (bad151e)

v0.12.0 (2024-01-28)

Build

build: add 3.11 (73fa198)

Feature

feat: Update Python versions to accept 3.11 (34137fd)

Unknown

0.12.0

Automatically generated by python-semantic-release (4a7139e)

v0.11.2 (2024-01-28)

Fix

fix: build (4408840)

Test

test: build (657c44c)
test: build (20c8595)
test: build (248d7c3)

Unknown

0.11.2

Automatically generated by python-semantic-release (b5c5cb7)

fix:build (7ef92dc)
fix:build (7fec918)
test:build (01e82b1)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (951f89c)

v0.11.1 (2024-01-28)

Build

build: fix env latest tag error (1989d7b)

Unknown

0.11.1

Automatically generated by python-semantic-release (58e3edf)

v0.11.0 (2024-01-28)

Build

build(GHA): fix issue with test_image needs (1bdd456)
build(GHA): fix issue with test_image needs (023ac12)

Documentation

docs: “fix badges” (d10dff2)
docs: add milestone to readme (7b8c3d5)
docs: add milestone to readme (3dc3eae)
docs: test adding hide-output (037d737)
docs: test adding hide-output (cb82e5a)

Feature

feat: add getModalityValues and refactor getPatients for getPatientsByCollection (d8d2062)

Fix

fix: add better type checks to fix #22 (f8aaa61)
fix(logger): parameter type error (1d9fd26)

Test

test(nbia): fix downloadSeries patientId error that propagates from getPatient funciton update (101e1be)

Unknown

0.11.0

Automatically generated by python-semantic-release (f61c53a)

Merge pull request #60 from jjjermiah/development

Development (2b2808c)

Merge pull request #59 from jjjermiah/47-feature-refactor-getpatients-and-add-getpatient

47 feature refactor getpatients and add getpatient (4898f86)

Refactor: generateFilePathFromDICOMAttributes method (d1a437e)
Merge remote-tracking branch ‘origin/main’ into 46-feature-refactor-getpatients-and-add-getpatient (518ffe3)
Merge pull request #58 from jjjermiah/example_notebook

Example notebook (4eb377f)

Merge branch ‘development’ into example_notebook (68ddb13)
Update README.md (be0f3e3)
Merge pull request #57 from jjjermiah/example_notebook

documentation for notebook and readme (f477c4a)

Merge remote-tracking branch ‘origin/development’ into example_notebook (9ef2623)

v0.10.9 (2024-01-28)

Build

build(GHA): separate Codecov (9368df9)

Chore

chore: remove excess comments (2e52ef4)

Fix

fix(gha): invalid workflow error (1ba3d1e)

Unknown

0.10.9

Automatically generated by python-semantic-release (0428016)

Merge pull request #56 from jjjermiah/development

Development (fb09228)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into development (a7c7518)

v0.10.8 (2024-01-28)

Build

build(GHA): also tag images with latest (d3e47e2)

Chore

chore(format): format scripts with Black (1686564)
chore(NBIA_ENDPOINTS): add some endpoints and general documentation (208034a)

Documentation

docs: update README (1056284)

Fix

fix(tests): remove api_headers from being acces (95dd5a3)
fix(tests): remove api_headers from being acces (06e6d42)

Refactor

refactor(nbia): use headers property instead of api_header attribute (c3b0940)

Unknown

0.10.8

Automatically generated by python-semantic-release (e20d4af)

Merge pull request #55 from jjjermiah/development

Development (5cb0b70)

Merge branch ‘development’ of https://github.com/jjjermiah/NBIA-toolkit into development (ccda4f3)
Merge pull request #54 from jjjermiah/organize_project_todo

Organize project todo (5841645)

add changes from upstream Merge remote-tracking branch ‘origin/development’ into organize_project_todo (d101597)

v0.10.7 (2024-01-22)

Documentation

docs: Update badges in README.md (2046e8e)

Unknown

0.10.7

Automatically generated by python-semantic-release (fe9a82b)

v0.10.6 (2024-01-22)

Build

build: Remove unused label from Dockerfile (ef29360)

Unknown

0.10.6

Automatically generated by python-semantic-release (b9dd9d1)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (9ed72d1)

v0.10.5 (2024-01-22)

Ci

ci: Update permissions in Continuous-Deployment job (2bd552c)
ci: test ghcr container (d2b186a)

Unknown

0.10.5

Automatically generated by python-semantic-release (aecc545)

v0.10.4 (2024-01-22)

Documentation

docs: add link to docker pulls badge (03d69a3)

Unknown

0.10.4

Automatically generated by python-semantic-release (7679997)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (610967b)

v0.10.3 (2024-01-22)

Documentation

docs: Add Docker Pulls badge to README (d6943d7)

Unknown

0.10.3

Automatically generated by python-semantic-release (1d38ac5)

v0.10.2 (2024-01-22)

Ci

ci: combine deployment (67c17f4)

Unknown

0.10.2

Automatically generated by python-semantic-release (ce32c63)

v0.10.1 (2024-01-22)

Ci

ci: test docker pipeline (20a43ad)

Documentation

docs: Add Example.ipynb to docs folder (0a41b96)
docs: Add GitHub repo size badge (3b1ab49)
docs: Update contributing.md, badges, and pyproject.toml (15cba32)

Unknown

0.10.1

Automatically generated by python-semantic-release (e3fc18c)

Merge pull request #45 from jjjermiah/devel

Devel (2b33361)

Refactor Docker image build workflow (5bce197)
Add support for multiple platforms in Docker build (86d12cd)
Remove unnecessary “-it” flag in docker run command (53ce267)
Refactor Docker run command in build.yml (55e1322)
Add Docker build and test workflow (14c0749)
Update build workflow to set docker image tag based on branch or latest tag (97eb2a8)
Remove unused step in build workflow (17cce65)
trying new method (4c7a592)
Update Get latest tag name step in build.yml (f4420b6)
Merge pull request #44 from jjjermiah/update-README-badges

docs: Add GitHub repo size badge (0ff2ded)

Merge pull request #43 from jjjermiah/update-README-badges

docs: Update contributing.md, badges, and pyproject.toml (581834b)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into update-README-badges (aa1715d)

v0.10.0 (2024-01-21)

Build

build: Update Codecov action and add coverage badge (c89f010)

Ci

ci: Update dependencies in main.yml and requirements.txt (76d9fa8)
ci: Update pytest command in GitHub Actions workflow (5ca643e)
ci: use poetry to run pytest (4894aec)
ci: install pytest and pytest-cov (1f2df96)

Fix

fix: Refactor imports in nbia.py (9bf0f13)

Test

test: Update pytest coverage command in GitHub workflow

Add source directory for coverage in pyproject.toml

Fix import statements in test files (f72c7d8)

Unknown

0.10.0

Automatically generated by python-semantic-release (1714978)

Merge pull request #42 from jjjermiah/39-add-code-coverage-to-gha

build: Update Codecov action and add coverage badge (2114f3b)

v0.9.0 (2024-01-21)

Documentation

docs: Update execution counts in Tutorial.ipynb (ca80e28)

Fix

fix(md5): Add MD5HashMismatchError class and update validateMD5 function (c854242)

Refactor

refactor: Refactor NBIAClient’s _downloadSingleSeries method

This commit refactors the _downloadSingleSeries method in the NBIAClient class. The changes include:

Reformatting the method signature for better readability
Adding exception handling for MD5 hash validation
Commenting out a line of code that is not currently being used
Adding error handling and logging for sorting DICOM files (ff11711)

refactor(nbia): remove unused logger method (50916a4)

Test

test: Add unit tests for MD5 validation (539f8b0)
test: Refactor temporary directory variable name in test_nbia.py (3cdeb4a)

Unknown

0.9.0

Automatically generated by python-semantic-release (3bb7fc2)

Merge pull request #41 from jjjermiah/27-md5pyadd-tests-and-logging-+-error-handling-for-non-existent-files

27 md5pyadd tests and logging + error handling for non existent files (c1ed27b)

refactor(dimsort):Refactor DICOMSorter class and add new method to get DICOM file paths (573978e)

v0.8.0 (2024-01-21)

Build

build: update python version in cicd (2aea484)

Ci

ci: switch python back (dd0d2f4)

Feature

feat: add package version (fa583dd)

Fix

fix: update path in toml for package version (f6db43e)

Unknown

0.8.0

Automatically generated by python-semantic-release (7401362)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit (76b0b50)

v0.7.1 (2024-01-21)

Chore

chore: update toml (b00036a)
chore: update pyproject (ecd79be)

Unknown

0.7.1

Automatically generated by python-semantic-release (5307e12)

Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit ops (559a980)

v0.7.0 (2024-01-21)

Build

build(Continuous-Deployment): Only push to PyPi if semantic release updates (8adc4e1)

Documentation

docs: import changelog for readthedocs (3c650be)
docs: Update dependencies and fix code execution counts (68e67e0)
docs: update documentation for new features and changelog to readthedocs (4a2af47)

Feature

feat(nbia): add prefix option to get Collections methods (0f95c89)

Test

test(nbia): added test for downloadSeries (0f502ce)

Unknown

0.7.0

Automatically generated by python-semantic-release (4175fb0)

Merge pull request #40 from jjjermiah/updateDocumentation

Update documentation (c58ad3d)

Merge pull request #38 from jjjermiah/37-fix-ghacd-to-not-fail-if-version-isnt-bumped

build(Continuous-Deployment): Only push to PyPi if semantic release updates (b6e3126)

Merge pull request #36 from jjjermiah/25-nbiapyadd-tests-for-download-series (f0f3781)

v0.6.0 (2024-01-07)

Documentation

docs: re-run with new adds (36410f2)

Feature

feat(downloadSeries): add parallel download option (b697aa9)

Fix

fix(nbia): add error handling for downloadSeries (c6ab72b)

Unknown

0.6.0

Automatically generated by python-semantic-release (c2b70b3)

Merge pull request #35 from jjjermiah/24-nbiapyhandle-error-case-of-if-resposne-is-not-bytes-for-downloadseries

fix(nbia): add error handling for downloadSeries (1f0a499)

fix:Update .gitignore file to include docs/data/ directory (e6cc91e)
add parallel documentation and info on filepatterns (48174bd)
new run (e94e356)
add tqdm to dependency (fce0a42)

v0.5.0 (2023-12-17)

Feature

feat: add publish package to gha (11e223e)

Unknown

0.5.0

Automatically generated by python-semantic-release (b2e56fe)

Merge branch ‘main’ of github.com:jjjermiah/NBIA-toolkit (1aabe13)
test (39a39f3)

v0.4.4 (2023-12-17)

Fix

fix: manual publish (929313c)
fix: publish error (134d9ca)

Unknown

0.4.4

Automatically generated by python-semantic-release (9363654)

test (7edd936)
test (76fd46f)
Merge branch ‘main’ of github.com:jjjermiah/NBIA-toolkit (64980a1)

v0.4.3 (2023-12-16)

Fix

fix: add poetry build (ef91e27)

Test

test: gha (a218529)

Unknown

0.4.3

Automatically generated by python-semantic-release (32d86d3)

test (5919b9c)
Merge pull request #34 from jjjermiah/development

small fixes (216af35)

Merge branch ‘main’ into development (21867d7)
update gha to push to pypi and add absolute path in docs conf (fdc07b4)
Merge pull request #33 from jjjermiah/development

Development (f7a2f2a)

Merge remote-tracking branch ‘origin’ into development (a0acbb4)
Merge branch ‘main’ into development (74041f4)
change to only pull requests (955832e)
change version_variables after reading documentation (3cece12)
add push to pypi as an option (4bccff9)
Merge pull request #32 from jjjermiah/development

test: gha (92e90e2)

v0.4.2 (2023-12-16)

Fix

fix: error (b0f945c)
fix: forgot to install package (52804f4)
fix: error in gha (80afb8d)
fix: need to install poetry first (b8a0040)
fix: error in cicd (e090a83)
fix: add dist to cicid (44be192)

Unknown

0.4.2

Automatically generated by python-semantic-release (5ef4130)

test (a49288f)
use poetry run semantic-release publish (459efa9)
fix:add dist to cicid (cc40a71)
add dist to cicid (6cd902e)

v0.4.1 (2023-12-16)

Fix

fix: error in gha (6e3ac11)

Unknown

0.4.1

Automatically generated by python-semantic-release (a4da20e)

v0.4.0 (2023-12-16)

Feature

feat: add setup.py (09c4ffc)

Unknown

0.4.0

Automatically generated by python-semantic-release (113eada)

fix cicd (9db8a2e)

v0.3.2 (2023-12-16)

Fix

fix: error in gha (472a2f6)

Unknown

0.3.2

Automatically generated by python-semantic-release (69a2860)

fix:update version and changelog (be7ce6f)
update gha (1b6b8fc)

v0.3.1 (2023-12-16)

Chore

chore(release): release 0.3.1 (8a3aef7)

Fix

fix: error in gha (e1caac2)

v0.3.0 (2023-12-16)

Chore

chore(release): release 0.3.0 (d71f1b8)

Feature

feat: add pre-commit hook (42354b0)

v0.2.0 (2023-12-16)

Build

build: add CD workflow (06e8401)

Documentation

docs(auth): add some documentation (017bfae)
docs: Remove empty usage section and extra line breaks in README (f9c1c8a)

Feature

feat: add headers property to nbia client (52dafe8)
feat(auth): added property decorators for token and headers (d4e914b)

Fix

fix(gha): fix CD to activate on pull too (5141005)
fix(tutorial): remove pip install (1ef5a0e)
fix(tutorial): add pip install (c1a36fa)

Unknown

0.2.0

Automatically generated by python-semantic-release (0f0b86f)

Update pyproject.toml (b9727a6)
Merge pull request #31 from jjjermiah/docs/updateDocs

Docs/update docs (359a30d)

docs(auth):Add requests module and update test cases (43197fa)
Update version number in pyproject.toml (c71ce49)

v0.1.0 (2023-12-16)

Feature

feat(nbia.py): add docstring (ffaa2f3)

Unknown

0.1.0

Automatically generated by python-semantic-release (af73148)

v0.0.1 (2023-12-16)

Fix

fix(nbia.py): add basic docstring (aad5eaa)

Unknown

0.0.1

Automatically generated by python-semantic-release (b276ff1)

v0.0.0 (2023-12-16)

Documentation

docs: add package for version bumping (efbed0f)

Unknown

0.0.0

Automatically generated by python-semantic-release (03aacd6)

Update example notebook and package initialization (b940a6f)
convert readme into issues (0fe7583)
Update README.md to include TCIA database access (973590a)
Update logging setup (09d323a)
Update GitHub Actions workflow and README.md (1c80e8d)
Fix capitalization of parameters in nbia_client.getPatients() and nbia_client.getBodyPartCounts() (773955e)
Merge pull request #17 from jjjermiah/jjjermiah-patch-1

Update README.md (8fb1c95)

Update README.md (792f287)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into main (f909a44)
add to gitignore (9cc6722)
Merge pull request #16 from jjjermiah/development

Development (f68181a)

Add pydicom package and update dependencies (3f15108)
Delete unnecessary code for downloading series from NBIA (afb0cef)
add dicomsort back (d512b0b)
Merge pull request #14 from jjjermiah/jjjermiah-patch-1

Delete driver.py (66705e6)

lint nbia class and add baseURL to nbiaEndpoints (9d85950)
added dicomSort functionality to downloadSeries (a229025)
Delete driver.py (2c51fba)
Merge pull request #13 from jjjermiah/development

refactor dicomsorter class and add some tests (7e51e20)

refactor dicomsorter class and add some tests (b5cf783)
Merge pull request #12 from jjjermiah/development

Development (931eb4a)

refactor nbia client and add tests (b199a83)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into development (709551d)
added more examples (3a2fca2)
add mac-OS (eb038d4)
Add validateMD5 function and update NBIA_ENDPOINTS (2a16f72)
Merge pull request #11 from jjjermiah/development

add todos and rearrange md5 function (0d638cb)

add todos and rearrange md5 function (2c70522)
Merge pull request #10 from jjjermiah/development

Refactor code and implement TODOs (32fe6ee)

Refactor code and implement TODOs (4aac4e4)
Merge pull request #9 from jjjermiah/development

Development (442d675)

Merge pull request #8 from jjjermiah/main

merge from main (201dda7)

Add documentation status badge (f7474f0)
add wiki page on NBIA (ccb6bb1)
Merge pull request #7 from jjjermiah/development

Update GitHub Actions workflow and add documentation generation (05965e3)

Update GitHub Actions workflow and add documentation generation (5a285e8)
Merge pull request #6 from jjjermiah/development

Update ReadTheDocs (4d08cc7)

Update .readthedocs.yml configuration (e372b3a)
add build os (fd5dbc1)
Remove unnecessary Sphinx configuration (3ebe543)
update read the docs yaml (0f2d01b)
Merge pull request #5 from jjjermiah/development

Development (95afa63)

update docs (65ba441)
Merge pull request #4 from jjjermiah/main

merge with main (e591acd)

add download Image (f6860b8)
started sphinx documentation. doesnt work yet (fd36a2d)
improve auth documentation (ebc3d3b)
Merge pull request #3 from jjjermiah/development

Development (d9386db)

poetry add –group dev pytest (71f6960)
test (fdc7cd5)
add dependencies (eba1556)
test cicd (7ba0324)
pytest only auth (74aa4ad)
add pytest (ff55df7)
enforce python 3.12 only (bf6ea55)
testing GHA fix (b776c53)
rearrange and add better intra-package references (f861774)
add pypackage stuff (1c3e285)
Merge pull request #2 from jjjermiah/development

modify auth (5181e17)

modify auth (04b0c30)
Merge branch ‘main’ of https://github.com/jjjermiah/NBIA-toolkit into main (c2b0119)
basic linting (8525b23)
Update main.yml (2065a3d)
testing only with 3.10 onwards (0a50629)
modify tests for mac windows python versions (f1c2364)
fix badge (c60a1e6)
add gha badge (86f375c)
add ruff linter (19edd29)
add coverage test (f9afee3)
add requirements.txt (ea4c4f9)
modify worflow (957ca1a)
add requirements.txt (2075f9e)
Update main.yml (58a75cf)
Update main.yml (3809f3a)
Update main.yml (dea0182)
Create main.yml (bbd0660)
added jsondecode Error Handling (b7a4cee)
added functions, created tests (3c1c031)
add README (68d67ad)
first commit (11f25c0)