PyPop 1.0.1rc2

Release candidate 2 for 1.0.1

pip install pypop-genomics==1.0.1rc2

1.0.1rc2 - 2024-01-23

• testing only
• no official release notes

Full Changelog: v1.0.1-rc1...v1.0.1-rc2

PyPop 1.0.1rc1

Release candidate 1 for 1.0.1

pip install pypop-genomics==1.0.1rc1

1.0.1rc1 - 2024-01-18

• testing only
• no official release notes

Full Changelog: v1.0.0...v1.0.1-rc1

PyPop 1.0.0

PyPop 1.0.0 is the first official release of PyPop using Python 3, and the first release to be made as a PyPI package!

Highlights of PyPop 1.0.0

• PyPop now fully ported to Python 3
• Supports a new asymmetric linkage disequilibrium (ALD) calculations
• Improved tab-separated values (TSV) output file handling
• Preliminary support for Genotype List (GL) String (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3715123/)
• Unit tests, new documentation system and continuous integration framework
• And whole lot more minor features and bug fixes... (see NEWS.rst)

Install via PyPI

pip install -U pypop-genomics

Changes

A full history of changes is available in NEWS.rst.

Full Changelog since last official release: PYPOP_SRC-0_7_0...v1.0.0

PyPop 1.0.0rc2

Install via PyPI

pip install -U pypop-genomics

Changes

A full history of changes is available in NEWS.rst.

Bug Fixes

• fix missing data in TSV output, and refactor and add header names by @alexlancaster (#164), thanks to report from @nabil161289

Internal

• Release drafter by @alexlancaster (#165)

Full Changelog: v1.0.0-rc1...v1.0.0-rc2

PyPop 1.0.0rc1 - Release Candidate 1

This is the first release candidate for PyPop 1.0.0. If there are no showstoppers, this will become the 1.0.0 release.

Installation

pip install -U pypop-genomics

What's Changed

• [Documentation]: Clarify unphased nature of data in [Emhaplofreq] section in docs by @alexlancaster in #159
• Fixed generation of 1-locus-genotype.tsv, cleanup TSV unit tests by @alexlancaster in #160
• Enable Zenodo upload support by @alexlancaster in #161

Full Changelog: v1.0.0-b8...v1.0.0-rc1

PyPop 1.0.0b8

Installation

pip install -U pypop-genomics

What's Changed

• Fix CustomBinning filters on Windows and re-enable unit tests by @alexlancaster in #152
• Reimplement drand48() and srand48() on Windows, re-enabling all unit tests on Windows by @alexlancaster in #154
• New issue templates by @alexlancaster in #155
• Output platform and Python version metadata for --version option by @alexlancaster in #158

Full Changelog: v1.0.0-b7...v1.0.0-b8

PyPop 1.0.0b7

Installation

pip install -U pypop-genomics

What's Changed

• Fix unit tests on arm64 architectures, fix some other memory leaks by @alexlancaster in #150

Full Changelog: v1.0.0-b6...v1.0.0-b7

PyPop 1.0.0b6

Installation

pip install -U pypop-genomics

What's Changed

• Cleanup builds, update numpy, force binary dependencies only by @alexlancaster in #148

Full Changelog: v1.0.0-b5...v1.0.0-b6

PyPop 1.0.0b5

Installation

pip install -U pypop-genomics

What's Changed

• remove psutil - only used by a currently skipped unit test by @alexlancaster in #145
• rename unit test gold directory to gold-output by @alexlancaster in #146

Full Changelog: v1.0.0-b4...v1.0.0-b5

PyPop 1.0.0b4

Installation

pip install -U pypop-genomics

What's Changed

• added brief note by @rsingle in #122
• Improve docs by link to actual example files... by @odoublewen in #140
• update links to deleted & ambiguous alleles by @rsingle & @alexlancaster in #141
• Fix arm64 cross-compilation on MacOS by @alexlancaster in #143

New Pull Requests

• @odoublewen made their first pull request in #140

Full Changelog: v1.0.0-b3...v1.0.0-b4