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Recent Releases of cytotable

cytotable - v1.0.0

Changes

  • Bump the python-packages group with 4 updates (@dependabot[bot] via #331)
  • Add a demonstrational notebook and prepare for notebook usage (@d33bs via #328)
  • Bump the python-packages group with 2 updates (@dependabot[bot] via #327)
  • Update docs for note on Parsl's ThreadPoolExecutor (@d33bs via #326)
  • Bump the python-packages group with 3 updates (@dependabot[bot] via #325)
  • Fix for CVE-2024-12797 (@d33bs via #324)
  • Update GH Actions ubuntu version (@d33bs via #320)
  • Update pre-commit-lite conditions (@d33bs via #321)
  • Bump the python-packages group with 4 updates (@dependabot[bot] via #322)
  • Bump the python-packages group with 2 updates (@dependabot[bot] via #317)

- Python
Published by github-actions[bot] 9 months ago

cytotable - v0.0.15

Changes

  • Cleanup parsl executor resources after convert (@d33bs via #315)
  • Bump the python-packages group with 3 updates (@dependabot[bot] via #314)

- Python
Published by github-actions[bot] 10 months ago

cytotable - v0.0.14

Changes

  • Add software DOI and other minor touch-ups (@d33bs via #302)
  • Bump the python-packages group with 2 updates (@dependabot[bot] via #313)
  • Add DeepProfiler Compatibility (@d33bs via #310)
  • Bump the python-packages group with 3 updates (@dependabot[bot] via #312)
  • Bump the python-packages group with 3 updates (@dependabot[bot] via #309)
  • Bump the python-packages group across 1 directory with 7 updates (@dependabot[bot] via #306)
  • Bump jinja2 from 3.1.5 to 3.1.6 (@dependabot[bot] via #307)

- Python
Published by github-actions[bot] 10 months ago

cytotable - v0.0.13

Changes

- Python
Published by github-actions[bot] about 1 year ago

cytotable - v0.0.12

Changes

  • Add image filename columns to CellProfiler presets (@d33bs via #252)
  • Add Python 3.13 compatibility (@d33bs via #244)
  • Bump cytominer-database from 0.3.4 to 0.3.5 (@dependabot via #248)
  • Bump sphinxcontrib-mermaid from 0.9.2 to 1.0.0 (@dependabot via #246)
  • Bump botocore from 1.35.51 to 1.35.54 (@dependabot via #247)
  • Bump sphinx from 6.2.1 to 7.4.7 (@dependabot via #249)
  • Bump pytest from 7.4.4 to 8.3.3 (@dependabot via #245)
  • Update pre-commit hooks and apply linting checks (@d33bs via #242)
  • Remove python 3.8 compatibility (@d33bs via #243)
  • Bump botocore from 1.34.142 to 1.35.51 (@dependabot via #241)
  • Bump dunamai from 1.19.2 to 1.22.0 (@dependabot via #239)
  • Bump myst-parser from 2.0.0 to 3.0.1 (@dependabot via #237)
  • Bump pytest-cov from 4.1.0 to 5.0.0 (@dependabot via #236)
  • Enable Dependabot updates to Poetry (@d33bs via #235)

- Python
Published by github-actions[bot] over 1 year ago

cytotable - v0.0.11

Changes

  • Add tablenumber capabilities to distinguish repeated image numbers from multiple datasets (@d33bs via #188)
  • Add join concatenation parameter distinction (@d33bs via #181)
  • Disable DuckDB progress bars (@d33bs via #233)
  • Format pyproject.toml file with pyproject-fmt using pre-commit (@d33bs via #232)
  • Bump pre-commit/action from 3.0.0 to 3.0.1 (@dependabot via #231)
  • Bump release-drafter/release-drafter from 5 to 6 (@dependabot via #229)
  • Bump actions/setup-python from 4 to 5 (@dependabot via #230)
  • Enable Dependabot updates for GitHub Actions (@d33bs via #228)
  • Bump cryptography from 42.0.5 to 43.0.1 (@dependabot via #225)

- Python
Published by github-actions[bot] over 1 year ago

cytotable - v0.0.10

Changes

  • Move to keyset pagination (@d33bs via #220)
  • Fix dependency resolution issues for non-locked installations of CytoTable in tests (@d33bs via #217)

- Python
Published by github-actions[bot] over 1 year ago

cytotable - v0.0.9

Changes

  • Bump zipp from 3.18.1 to 3.19.1 (@dependabot via #216)
  • Bump certifi from 2024.2.2 to 2024.7.4 (@dependabot via #215)
  • Bump requests from 2.31.0 to 2.32.2 (@dependabot via #213)
  • Use real AWS S3 data tests and apply related fixes (@d33bs via #212)
  • Bump urllib3 from 1.26.18 to 1.26.19 (@dependabot via #210)

- Python
Published by github-actions[bot] over 1 year ago

cytotable - v0.0.8

Changes

  • Increase sorting scalability via CytoTable metadata columns (@d33bs via #204)
  • Bump flask-cors from 4.0.0 to 4.0.1 (@dependabot via #207)
  • Bump werkzeug from 3.0.1 to 3.0.3 (@dependabot via #205)
  • Bump jinja2 from 3.1.3 to 3.1.4 (@dependabot via #206)
  • Enable Parsl app concurrency with futures (@d33bs via #194)
  • Remove SECURITY.md to rely on organization-wide community health file (@d33bs via #184)
  • Use declarative version specification for Ubuntu GitHub Actions runners (@d33bs via #199)
  • Avoid macos-latest Python version compatibility issues in GitHub Actions runner images (@d33bs via #196)

- Python
Published by github-actions[bot] over 1 year ago

cytotable - v0.0.7

Changes

  • Use compartment tables as basis of preset joins (@d33bs via #183)
  • Add order to limit and offset queries for deterministic results (@d33bs via #182)
  • Bump idna from 3.6 to 3.7 (@dependabot via #186)
  • Enable Python 3.12 compatibility through dependency-based updates (@d33bs via #174)
  • Bump scipy from 1.9.3 to 1.10.0 (@dependabot via #173)
  • Add python 3.11 to automated tests (@d33bs via #172)
  • Remove poetry lockfile to better project testing with scheduled trigger (@d33bs via #170)
  • Changing python's upper limit version to python<3.12 (@axiomcura via #158)

- Python
Published by github-actions[bot] almost 2 years ago

cytotable - v0.0.6

Changes

  • Move citation.cff validation to pre-commit check (@d33bs via #165)
  • Remove duplicative all-at-once concatenate with join operations (@d33bs via #168)
  • Add and apply pre-commit poetry checks (@d33bs via #164)

- Python
Published by github-actions[bot] almost 2 years ago

cytotable - v0.0.5

Changes

  • Set upper limit on DuckDB version (<0.10.0) to avoid Arrow errors (@d33bs via #166)
  • Add weekly testing for preventative awareness of external changes (@d33bs via #167)
  • Bump cryptography from 42.0.2 to 42.0.4 (@dependabot via #162)
  • Bump cryptography from 41.0.6 to 42.0.2 (@dependabot via #161)
  • Add pytest warning filters for pkg_resource and sqlalchemy (@d33bs, @kenibrewer via #153)
  • Fix source filename ingest for IN Carta data with spaces and inconsistent casing (@d33bs via #151)
  • Add security community health file (@d33bs via #147)

- Python
Published by github-actions[bot] almost 2 years ago

cytotable - v0.0.4

Changes

  • Add IN Carta preset and related compatibility changes + testing (@d33bs via #145)
  • Move from dev-dependencies to poetry group specification (@d33bs via #146)
  • Define and demonstrate data transform types within documentation (@d33bs via #142)
  • Bump jinja2 from 3.1.2 to 3.1.3 (@dependabot via #144)
  • Add IN Carta test data from Colas Lab (@d33bs via #141)
  • Increase documentation on cloud-based data sources (@d33bs via #138)
  • Move PR template credit to un-rendered HTML comment (@d33bs via #139)
  • Add project title definition (@d33bs via #135)
  • Add version metadata to CytoTable Parquet output (@d33bs via #134)
  • Add poetry dynamic versioning and update release process (@d33bs via #132)
  • Bump paramiko from 3.1.0 to 3.4.0 (@dependabot via #133)
  • Bump cryptography from 41.0.4 to 41.0.6 (@dependabot via #131)
  • Bump werkzeug from 2.2.3 to 3.0.1 (@dependabot via #127)
  • Bump flask from 2.2.3 to 2.2.5 (@dependabot via #130)
  • Bump requests from 2.28.2 to 2.31.0 (@dependabot via #129)
  • Bump cryptography from 40.0.1 to 41.0.4 (@dependabot via #128)
  • Bump certifi from 2022.12.7 to 2023.7.22 (@dependabot via #126)
  • Bump urllib3 from 1.26.15 to 1.26.18 (@dependabot via #125)
  • Bump pygments from 2.14.0 to 2.15.0 (@dependabot via #124)
  • Bump PyArrow dependency for CVE-2023-47248 (@d33bs via #123)

- Python
Published by github-actions[bot] about 2 years ago

cytotable - v0.0.3

Changes

  • Patch v0.0.3 (@d33bs via #121)
  • Add related software + paper references to citations (@d33bs via #120)
  • Update readme with additional installation notes (@d33bs via #119)
  • Move to offset-based joins (@d33bs via #113)
  • Add PR author mentions to release drafts (@d33bs via #118)
  • Fix PyPI readme image reference (@d33bs via #117)
  • Use Parsl NoDataFlowKernelError for detecting existing Parsl configurations (@d33bs via #112)
  • Enable DuckDB >= v0.8.0 (@d33bs via #114)

- Python
Published by github-actions[bot] over 2 years ago

cytotable - v0.0.2

Changes

  • Update to v0.0.2 with related automated workflows (#108)
  • Correct SQL preset join references (#106)
  • Move to Parsl HighThroughputExecutor for default workflow execution (#97)
  • Add exception on existing dest_path to avoid unsafe operation (#104)
  • Fix GitHub Actions version specification typo (#103)
  • Update dependencies (#101)
  • Remove dead code for Dagger-based testing (#99)
  • Update test for pandas 2.0.3 compatibility (#98)
  • Close database connections (#95)
  • Reuse existing Parsl configurations (#93)
  • Update DuckDB to ^v0.8.0 (#92)
  • Add PyArrow memory mapping improvements and allocator documentation (#91)
  • Expand source and destination paths (#89)
  • Move to PyArrow parquet writer for data extraction (#87)
  • Adding Legacy Presets for CytoTable (#46)
  • Add SQLite affinity type synonym matching for sqlitemixedtypequerytoparquet (#84)
  • Resolve testconverts3pathsqlite test failures with explicit localcachedir (#83)
  • Add SQLite mixed-type compatibility for gettablecolumnsand_types (#82)
  • Add macos testing (#80)
  • Change drop_nulls default in convert() to false (#78)
  • Fix testconverts3pathsqlite test failure inconsistencies (#79)
  • Add output data type casting controls for integers and floats (#49)
  • Add SQLite mixed-type data handling capabilities (#50)
  • Add logo png (#73)
  • Fix link in README (#72)
  • logo (#71)
  • Enable preset overrides (#65)

- Python
Published by github-actions[bot] over 2 years ago

cytotable - v0.0.1

An initial release of CytoTable.

- Python
Published by d33bs almost 3 years ago