Ecosyste.ms: Issues

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GitHub / onecodex/taxonomy issues and pull requests

#60 - Build wheels for python 3.13

Issue - State: open - Opened by jchorl 2 months ago

#59 - Fix add_node in readme

Pull Request - State: closed - Opened by audy 4 months ago

#58 - Bugfix: actual Python exception instead of panic

Pull Request - State: closed - Opened by petraszd 9 months ago

#58 - Bugfix: actual Python exception instead of panic

Pull Request - State: open - Opened by petraszd 9 months ago

#56 - Fix Newick format using internal IDs

Pull Request - State: closed - Opened by audy over 1 year ago

#55 - Newick output does not contains TaxIDs or scientific names

Issue - State: closed - Opened by lm-jkominek over 1 year ago - 3 comments

#54 - Fix updating parent_id

Pull Request - State: closed - Opened by audy over 1 year ago

#53 - Update taxonomy package metadata to work with maturin 0.14.0

Pull Request - State: closed - Opened by jairideout almost 2 years ago

#52 - Papercuts

Pull Request - State: closed - Opened by Keats about 2 years ago - 1 comment

#51 - Prepare for 0.10.0

Pull Request - State: closed - Opened by Keats about 2 years ago

#50 - Update deps

Pull Request - State: closed - Opened by Keats about 2 years ago

#49 - Update pyo3

Pull Request - State: closed - Opened by Keats about 2 years ago

#48 - Replace find_by_name with find_all_by_name

Pull Request - State: closed - Opened by audy about 2 years ago
Labels: v0.10.0

#47 - Do not sort nodes in json link format + add internal_index function to Python bindings

Pull Request - State: closed - Opened by audy about 2 years ago
Labels: v0.10.0

#46 - WIP Do not sort nodes upon loading

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

#45 - Add documentation

Pull Request - State: closed - Opened by Keats about 2 years ago

#44 - Taxonomy from python nested dictionary

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

#43 - Add basic support for reading GTDB taxonomy format

Pull Request - State: closed - Opened by jairideout over 2 years ago - 3 comments

#42 - Update README.md Docker maturin commands

Pull Request - State: closed - Opened by jairideout over 2 years ago

#41 - Cannot set parent id to "1" root

Issue - State: closed - Opened by audy over 2 years ago - 1 comment

#40 - Add back generic impl for Taxonomy

Pull Request - State: closed - Opened by Keats over 2 years ago

#39 - Fixes

Pull Request - State: closed - Opened by Keats over 2 years ago - 1 comment

#38 - Make Taxonomy less generic and fix some papercuts

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

#37 - Update all the things

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

#36 - Add missing strain rank

Pull Request - State: closed - Opened by lv43apo91 over 3 years ago - 7 comments

#34 - Panic when adding a node to a child

Issue - State: closed - Opened by simonpenel about 4 years ago - 7 comments
Labels: bug

#33 - Add license scan report and status

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

#32 - Loading UHGG taxonomy fails

Issue - State: open - Opened by Midnighter over 4 years ago - 1 comment

#31 - Remove id-based node/link JSON sub-format support

Pull Request - State: closed - Opened by audy over 4 years ago

#30 - Add new NCBI taxonomy ranks

Pull Request - State: closed - Opened by audy over 4 years ago

#29 - Update pyo3

Pull Request - State: closed - Opened by Keats over 4 years ago

#28 - Release new version

Issue - State: closed - Opened by Keats over 4 years ago - 1 comment

#27 - Tweak function names to be consistent + __repr__ changes

Pull Request - State: closed - Opened by audy over 4 years ago

#26 - Work on the Python API to be more usable

Pull Request - State: closed - Opened by Keats over 4 years ago

#25 - Update pyo3 + test python feature in CI

Pull Request - State: closed - Opened by Keats over 4 years ago - 6 comments

#24 - Fix JSON data format sniffer

Issue - State: closed - Opened by boydgreenfield almost 5 years ago
Labels: bug

#23 - Support getting all data for a node

Issue - State: closed - Opened by audy almost 5 years ago - 1 comment

#22 - Support looking up nodes by name

Issue - State: closed - Opened by audy almost 5 years ago - 1 comment

#21 - Python docs?

Issue - State: closed - Opened by luizirber almost 5 years ago - 1 comment

#20 - Small cleanup

Pull Request - State: closed - Opened by Keats almost 5 years ago

#19 - GeneralTaxonomy.tax_id_lookup should be no copy

Issue - State: open - Opened by bovee about 5 years ago

#18 - Re-rooting

Issue - State: open - Opened by bovee about 5 years ago

#17 - `__getitem__` and `__setitem__` format

Issue - State: open - Opened by bovee about 5 years ago

#16 - Editing Support

Pull Request - State: closed - Opened by bovee about 5 years ago

#15 - NEXUS support

Issue - State: open - Opened by bovee about 5 years ago - 1 comment

#14 - Fast visualization method

Issue - State: open - Opened by bovee about 5 years ago

#13 - Weight Methods and Cleanup

Issue - State: closed - Opened by bovee about 5 years ago

#12 - Expose `maximum_weight_path` in Python API

Issue - State: closed - Opened by bovee about 5 years ago - 1 comment

#11 - Taxonomy merging

Issue - State: open - Opened by bovee about 5 years ago

#10 - Distances in JSON output

Issue - State: open - Opened by bovee about 5 years ago

#9 - Use maturin for build process

Issue - State: closed - Opened by bovee about 5 years ago

#8 - Better editing support

Issue - State: closed - Opened by bovee about 5 years ago

#7 - Newick tree should support Unicode

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

#6 - add a benchmark for prune

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

#5 - Crate v0.3.3 may not install with stable

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

#4 - `traverse` can be slow

Issue - State: closed - Opened by bovee over 5 years ago - 9 comments

#3 - Create Linux wheels

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

#2 - python3 fixes

Pull Request - State: closed - Opened by audy almost 6 years ago

#1 - Import issue breaks mg

Issue - State: closed - Opened by boydgreenfield almost 9 years ago - 1 comment