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V0.2.98 upstream3 #222
V0.2.98 upstream3 #222
Commits on Aug 31, 2022
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Bump urllib3 from 1.26.9 to 1.26.12 in /hail/python (hail-is#12140)
Bumps [urllib3](https://github.com/urllib3/urllib3) from 1.26.9 to 1.26.12. - [Release notes](https://github.com/urllib3/urllib3/releases) - [Changelog](https://github.com/urllib3/urllib3/blob/main/CHANGES.rst) - [Commits](urllib3/urllib3@1.26.9...1.26.12) --- updated-dependencies: - dependency-name: urllib3 dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
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[auth] Cache user sessions in memory (hail-is#12122)
* [auth] Cache user sessions in memory * fix * change name * turn auth decorators into methods on an auth client * lint
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[query] Table.write_many (hail-is#12091)
* [query] Table.write_many CHANGELOG: Teach `Table` to `write_many`, which writes one table per provided field. * fix * merge conflict
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Bump importlib-resources from 5.7.1 to 5.9.0 in /hail/python/dev (hai…
…l-is#12141) Bumps [importlib-resources](https://github.com/python/importlib_resources) from 5.7.1 to 5.9.0. - [Release notes](https://github.com/python/importlib_resources/releases) - [Changelog](https://github.com/python/importlib_resources/blob/main/CHANGES.rst) - [Commits](python/importlib_resources@v5.7.1...v5.9.0) --- updated-dependencies: - dependency-name: importlib-resources dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
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Commits on Sep 1, 2022
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[batch] Do not retry pulling images from invalid repositories (hail-i…
…s#12152) * [batch] Do not retry pulling images from invalid repositories * better bad repository name
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Commits on Sep 6, 2022
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Commits on Sep 7, 2022
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Bump filelock from 3.7.1 to 3.8.0 in /hail/python (hail-is#12157)
Bumps [filelock](https://github.com/tox-dev/py-filelock) from 3.7.1 to 3.8.0. - [Release notes](https://github.com/tox-dev/py-filelock/releases) - [Changelog](https://github.com/tox-dev/py-filelock/blob/main/docs/changelog.rst) - [Commits](tox-dev/filelock@3.7.1...3.8.0) --- updated-dependencies: - dependency-name: filelock dependency-type: direct:development update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
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[ggplot] make identity color scale continuous (hail-is#12089)
* [ggplot] make identity color scale continuous * fix
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Commits on Sep 9, 2022
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Bump types-python-dateutil from 2.8.17 to 2.8.19 in /hail/python/dev (h…
…ail-is#12172) Bumps [types-python-dateutil](https://github.com/python/typeshed) from 2.8.17 to 2.8.19. - [Release notes](https://github.com/python/typeshed/releases) - [Commits](https://github.com/python/typeshed/commits) --- updated-dependencies: - dependency-name: types-python-dateutil dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
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Commits on Sep 10, 2022
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[query] Fix handle_randomness for
collect_cols_by_key
(hail-is#12162)CHANGELOG: Fixed crash in `collect_cols_by_key` with preceding random functions
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[query] Stage IndexReader (hail-is#12159)
* [query] Stage IndexReader * support matrix tables * delete the nonsense, woohoo! * oops * fixes * clean up * clean up * fixes for upper * support empty partitions * fixup * address
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Commits on Sep 12, 2022
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Revert "Retry GCS GetOjectStream.read automatically (hail-is#12098)" (h…
…ail-is#12176) This reverts commit 6c57e72.
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Commits on Sep 13, 2022
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[query] implement bit_count operation (hail-is#12168)
* [query] implement bit_count operation * fix test compilation errors * separate handling for bitcount in interpreter * pr feedback * typo
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[query] Fix lowering of aggs to preserve free variables in init args (h…
…ail-is#12092) * [query] Fix lowering of aggs to preserve free variables in init args CHANGELOG: Fixed compiler bug: "NoSuchElementException: Ref with name __iruid_X could not be resolved in env" This is a bad change to a worse problem. The right solution is to redesign the IR so that implicit init eval scopes don't exist -- but the right solution is hard to justify going off to do right now. This change patches the Extract.scala lowering logic to track the variables bound inside a lowered IR and find the highest node that provides all necessary free variables. This change still makes assumptions about the structure of the IR -- namely, it is still invalid to write an IR like: ``` MakeTuple Let initBinding1 <something> ApplyAggOp with ref to initBinding1 Let initBinding2 <something2> ApplyAggOp with ref to initbinding2 ``` However, this fix resolves the case where init args reference a high single binding chain, as in the test added. * no sharing * move requiredness * fix * fails
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Bump black from 22.3.0 to 22.8.0 in /hail/python/dev (hail-is#12174)
Bumps [black](https://github.com/psf/black) from 22.3.0 to 22.8.0. - [Release notes](https://github.com/psf/black/releases) - [Changelog](https://github.com/psf/black/blob/main/CHANGES.md) - [Commits](psf/black@22.3.0...22.8.0) --- updated-dependencies: - dependency-name: black dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
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