tskit-dev/tszip issues and pull requests

#92 - ci(mergify): upgrade configuration to current format

Pull Request - State: open - Opened by mergify[bot] 7 days ago - 1 comment

#91 - Make text match code

Pull Request - State: closed - Opened by hannesbecher about 1 month ago - 1 comment

#90 - Consistency, chromosome number

Issue - State: closed - Opened by hannesbecher about 1 month ago - 2 comments

#89 - Deactivate RTD docs build

Issue - State: closed - Opened by jeromekelleher 3 months ago - 1 comment

#88 - Fix python version

Pull Request - State: closed - Opened by benjeffery 3 months ago - 1 comment

#87 - Worse compression in recent versions?

Issue - State: open - Opened by hyanwong 5 months ago - 2 comments

#86 - requires-python should be 3.9

Issue - State: closed - Opened by jeromekelleher 5 months ago - 3 comments

#85 - Fix URLS

Pull Request - State: closed - Opened by benjeffery 5 months ago - 2 comments

#84 - Fix wheel building

Pull Request - State: closed - Opened by benjeffery 5 months ago

#83 - Release prep

Pull Request - State: closed - Opened by benjeffery 5 months ago - 1 comment

#82 - Update actions infra, pin zarr

Pull Request - State: closed - Opened by benjeffery 5 months ago - 2 comments

#81 - Pin zarr<3

Issue - State: closed - Opened by benjeffery 5 months ago - 1 comment

#80 - Documentation out of date

Issue - State: closed - Opened by jeromekelleher 6 months ago - 2 comments

#79 - Switch docs to jupyterbook

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 3 comments

#78 - Move wheel creds to OIDC

Pull Request - State: closed - Opened by benjeffery about 1 year ago

#77 - Support 3.10, 3.11, remove 3.7

Pull Request - State: closed - Opened by benjeffery about 1 year ago

#76 - Fix CI

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 1 comment

#75 - Add tskit.load

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 1 comment

#74 - Update deps

Pull Request - State: closed - Opened by benjeffery about 1 year ago

#73 - Fix test

Pull Request - State: closed - Opened by benjeffery about 1 year ago - 2 comments

#72 - Update pre-commit

Pull Request - State: closed - Opened by benjeffery about 1 year ago

#71 - cannot write to stdout

Issue - State: closed - Opened by ShyamieG over 1 year ago - 5 comments

#70 - Fix codecov

Pull Request - State: closed - Opened by benjeffery over 1 year ago - 2 comments

#69 - Cannot handle columns > 2GiB

Issue - State: open - Opened by ShyamieG over 1 year ago - 8 comments
Labels: bug

#68 - Load from compressed or uncompressed

Issue - State: closed - Opened by jeromekelleher almost 2 years ago

#67 - Docs should be transferred from readthedocs

Issue - State: closed - Opened by hyanwong almost 2 years ago - 6 comments

#66 - Support opening from URLs

Issue - State: open - Opened by benjeffery over 2 years ago - 11 comments

#65 - Edge case of decompressing legacy file with top-level metadata

Issue - State: open - Opened by brianzhang01 over 2 years ago - 3 comments

#64 - Error for more than one file with -c

Pull Request - State: closed - Opened by aabiddanda almost 3 years ago - 2 comments

#63 - Handle multiple input files with compressing to stdout

Issue - State: closed - Opened by jeromekelleher almost 3 years ago - 4 comments
Labels: bug

#62 - Update changelog for 0.2.2

Issue - State: closed - Opened by jeromekelleher almost 3 years ago

#61 - Update changelog

Pull Request - State: closed - Opened by benjeffery almost 3 years ago

#60 - Refactor column transforms

Issue - State: open - Opened by benjeffery almost 3 years ago - 1 comment

#59 - Add support for reference sequences

Pull Request - State: closed - Opened by benjeffery almost 3 years ago - 1 comment

#58 - Fix for time_units in tskit 0.4.1

Pull Request - State: closed - Opened by benjeffery almost 3 years ago - 2 comments

#57 - tskit 0.4 seems to be breaking tszip tests

Issue - State: closed - Opened by brianzhang01 almost 3 years ago - 4 comments

#56 - Update mergify

Pull Request - State: closed - Opened by benjeffery almost 3 years ago

#55 - Fix for time_units in tskit 0.4.1

Pull Request - State: closed - Opened by benjeffery almost 3 years ago - 8 comments

#54 - New time_units field breaks compression

Issue - State: closed - Opened by rwaples almost 3 years ago - 5 comments
Labels: bug

#53 - Compressing tree-sequences to stdout

Pull Request - State: closed - Opened by aabiddanda about 3 years ago - 8 comments

#52 - Changelog

Pull Request - State: closed - Opened by benjeffery about 3 years ago - 1 comment

#51 - Update changelog for 0.2.0

Issue - State: closed - Opened by jeromekelleher about 3 years ago

#50 - Miscellaneous packaging stuff

Pull Request - State: closed - Opened by jeromekelleher about 3 years ago - 2 comments

#49 - Compress to stdout

Issue - State: closed - Opened by jeromekelleher about 3 years ago - 1 comment

#48 - Downgrade h5py, fix pytest.

Pull Request - State: closed - Opened by benjeffery about 3 years ago - 2 comments

#47 - Tests pass in pytest by default but not with -n0

Issue - State: closed - Opened by jeromekelleher about 3 years ago - 3 comments

#46 - h5py issue in tests

Issue - State: closed - Opened by jeromekelleher about 3 years ago

#45 - Require tskit >= 0.3.3 and use flexible file arg

Pull Request - State: closed - Opened by jeromekelleher about 3 years ago - 4 comments

#44 - cli now supports decompressing to stdout

Pull Request - State: closed - Opened by aabiddanda about 3 years ago - 9 comments

#43 - Use setup.cfg

Pull Request - State: closed - Opened by benjeffery over 3 years ago

#42 - Use dict representation for compress and decompress

Pull Request - State: closed - Opened by benjeffery over 3 years ago - 3 comments

#41 - Update badges

Issue - State: closed - Opened by jeromekelleher over 3 years ago

#40 - Update workflow

Pull Request - State: closed - Opened by benjeffery over 3 years ago - 3 comments

#39 - Refactor to use the dict representation of tree sequence

Issue - State: closed - Opened by jeromekelleher over 3 years ago - 2 comments

#38 - Add tests for metadata schemas across tables

Issue - State: closed - Opened by jeromekelleher over 3 years ago

#37 - convert setup.py to setup.cfg

Issue - State: closed - Opened by jeromekelleher over 3 years ago

#36 - Update CI to use github actions

Issue - State: closed - Opened by jeromekelleher over 3 years ago

#35 - Compress top-level metadata

Pull Request - State: closed - Opened by brianzhang01 over 3 years ago - 6 comments

#34 - AttributeError: 'generator' object has no attribute 'head'

Issue - State: closed - Opened by msmscrz about 4 years ago - 1 comment

#33 - Remove (some?) metadata

Issue - State: closed - Opened by hyanwong about 4 years ago - 10 comments

#32 - Fix tskit file not found errors

Pull Request - State: closed - Opened by benjeffery about 4 years ago - 3 comments

#31 - master->main

Pull Request - State: closed - Opened by benjeffery about 4 years ago - 1 comment

#30 - Latest version of numcodecs doesn't build

Issue - State: closed - Opened by gtsambos almost 5 years ago - 4 comments

#29 - ValueError: codec not available: 'blosc'

Issue - State: closed - Opened by gtsambos about 5 years ago - 2 comments

#28 - Correct unfortunate typo

Pull Request - State: closed - Opened by hyanwong about 5 years ago - 1 comment

#27 - Need to set minimum version for numcodecs

Issue - State: closed - Opened by jeromekelleher over 5 years ago

#26 - AttributeError: 'generator' object has no attribute 'tables'

Issue - State: closed - Opened by agladstein over 5 years ago - 4 comments

#25 - AttributeError: module 'numcodecs' has no attribute 'Blosc'

Issue - State: closed - Opened by agladstein over 5 years ago - 4 comments

#24 - Try mocking modules old-skool for RTD.

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#23 - argparse argument not showing up on rtd

Issue - State: closed - Opened by jeromekelleher over 5 years ago - 3 comments

#22 - Add travisCI

Issue - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#21 - Add windows to operating systems in setup.py

Issue - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#20 - Readme updates

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#19 - Added RTD requirements.

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#18 - Fixed issues with RTD.

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#17 - Docs

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#16 - Provenance

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#15 - Work directory not deleted when interupted

Issue - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#14 - Add tsunzip

Issue - State: closed - Opened by jeromekelleher over 5 years ago

#13 - Need to record provenance

Issue - State: closed - Opened by jeromekelleher over 5 years ago

#12 - Compression tweaks

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#11 - Change temporary directory to be hidden

Issue - State: closed - Opened by jeromekelleher over 5 years ago

#10 - More tests

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#9 - Initial appveyor config.

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#8 - Cli tests

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#7 - File handling

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 1 comment

#6 - Test PEP8Speaks

Pull Request - State: closed - Opened by OrkoHunter over 5 years ago - 1 comment

#5 - pep8speaks not working

Issue - State: closed - Opened by jeromekelleher over 5 years ago - 2 comments

#4 - Lossless compression

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#3 - Initial tests

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#2 - Rename tszip

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago

#1 - Initial prototype

Pull Request - State: closed - Opened by jeromekelleher over 5 years ago - 9 comments

GitHub / tskit-dev/tszip issues and pull requests