3.1.2

What's Changed

• Remove reference to secondary coordinates by @susannasiebert in #150

Full Changelog: 3.1.1...3.1.2

3.1.1

What's Changed

• Update queries and query parsing to work with new variant coordinate schema by @susannasiebert in #149

Full Changelog: 3.1.0...3.1.1

3.1.0

What's Changed

• fix: stay compatible with pandas >=2.0 by @dameyerdave in #140
• Update graphql queries to work with newly released feature schema by @susannasiebert in #147
• feat: include molecular profile segment data in molecular profile response by @korikuzma in #144
• cicd: update release.yaml to use pypi trusted publisher by @korikuzma in #146

Full Changelog: 3.0.0...3.1.0

3.0.0

What's New

• Update CIViCpy to work with new CIViC Molecular Profile feature by @susannasiebert in #127. See CIViC release notes for more details and a list of breaking changes.

Full Changelog: 2.0...3.0.0

2.0.0

What's Changed

• Use '*' as a wildcard for coordinate exact searches by @susannasiebert in #84
• Add new variant search capabilities by @susannasiebert in #73
• Add command to annotate an existing VCF with CIViC variants by @susannasiebert in #87
• Improve tests coverage by @susannasiebert in #89
• Make CIViCpy Python >=3.5 compatible by @susannasiebert in #91
• Add additional evidence/assertion fields to the CIViC consequence annotation by @susannasiebert in #92
• Add deprecation warnings to civic.get_all_x_ids methods by @susannasiebert in #94
• Throw fatal error when using - as the alt or ref in a coordinate query by @susannasiebert in #95
• Implement variant search by HGVS expression by @susannasiebert in #96
• A few variant coordinate search improvements by @susannasiebert in #97
• Support reference build NCBI36/hg18 by @susannasiebert in #98
• update requirements files by @ahwagner in #99
• Fix import statement by @susannasiebert in #100
• Fix typo in VCF CSQ description by @susannasiebert in #102
• Skip cache creation test because it runs a long time and will freeze up CIViC if run in parallel on travis-ci by @susannasiebert in #105
• Handle = in synonymous variant names by @susannasiebert in #111
• Use the pagination ability of the advanced search endpoint when fetching all records by @susannasiebert in #112
• Convert CIVICPY_CACHE_TIMEOUT_DAYS environment variable to int by @dameyerdave in #123
• Update civicpy to work with the new CIViC API by @korikuzma in #128
• add github action to make pypi release when a release is made on github by @korikuzma in #130
• Make official v2 release + gh action for docker image by @korikuzma in #131

New Contributors

• @dameyerdave made their first contribution in #123
• @korikuzma made their first contribution in #128

Full Changelog: 1.0.1...2.0.0

v2.0.dev0

What's Changed

• Use '*' as a wildcard for coordinate exact searches by @susannasiebert in #84
• Add new variant search capabilities by @susannasiebert in #73
• Add command to annotate an existing VCF with CIViC variants by @susannasiebert in #87
• Improve tests coverage by @susannasiebert in #89
• Make CIViCpy Python >=3.5 compatible by @susannasiebert in #91
• Add additional evidence/assertion fields to the CIViC consequence annotation by @susannasiebert in #92
• Add deprecation warnings to civic.get_all_x_ids methods by @susannasiebert in #94
• Throw fatal error when using - as the alt or ref in a coordinate query by @susannasiebert in #95
• Implement variant search by HGVS expression by @susannasiebert in #96
• A few variant coordinate search improvements by @susannasiebert in #97
• Support reference build NCBI36/hg18 by @susannasiebert in #98
• update requirements files by @ahwagner in #99
• Fix import statement by @susannasiebert in #100
• Fix typo in VCF CSQ description by @susannasiebert in #102
• Skip cache creation test because it runs a long time and will freeze up CIViC if run in parallel on travis-ci by @susannasiebert in #105
• Handle = in synonymous variant names by @susannasiebert in #111
• Use the pagination ability of the advanced search endpoint when fetching all records by @susannasiebert in #112
• Convert CIVICPY_CACHE_TIMEOUT_DAYS environment variable to int by @dameyerdave in #123
• Update civicpy to work with the new CIViC API by @korikuzma in #128
• add github action to make pypi release when a release is made on github by @korikuzma in #130

New Contributors

• @dameyerdave made their first contribution in #123
• @korikuzma made their first contribution in #128

Full Changelog: 1.0.1...v2.0.dev0

VCF bugfix and evidence documentation

This release:

• fixes bugs in VCF indel coordinate retrieval
• moves test cache to CIViC production server
• documents Evidence attributes
• adds synonyms for description attribute in Evidence and Assertion to match CIViC client and docs

CIViCpy 1.0

The CIViCpy 1.0.0 release: the first non-candidate, non-prototype version of CIViCpy!

Coordinate search and GENIE

This release adds variant/assertion coordinate search and the GENIE analysis presented at AACR 2019.

v0.0.2

update version