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GitHub / higlass/higlass-python issues and pull requests

#189 - chore(deps): bump astral-sh/setup-uv from 5 to 6 in the actions group

Pull Request - State: open - Opened by dependabot[bot] 3 months ago
Labels: dependencies, github_actions

#187 - Add doc for chromsizes grid overlay

Pull Request - State: closed - Opened by pkerpedjiev 4 months ago - 1 comment

#186 - fix: Resolve jupyter server tile sources in combined tracks

Pull Request - State: closed - Opened by pkerpedjiev 4 months ago - 1 comment

#185 - Use biome for JS formatting

Pull Request - State: open - Opened by pkerpedjiev 4 months ago

#183 - Tileset info not found with custom data

Issue - State: open - Opened by yangmu3 over 3 years ago - 24 comments

#181 - feat(widget): Batch tile requests within an animation frame

Pull Request - State: closed - Opened by manzt 5 months ago
Labels: enhancement

#180 - chore: Add dev instructions for JavaScript code

Pull Request - State: closed - Opened by manzt 6 months ago

#179 - refactor(frontend): Custom data fetcher setup

Pull Request - State: closed - Opened by manzt 6 months ago

#178 - feat: Add stub `higlass.server` with deprecation warnings

Pull Request - State: closed - Opened by manzt 6 months ago

#177 - Replace `higlass.tilesets.register` with `higlass.Tileset`

Pull Request - State: closed - Opened by manzt 6 months ago

#176 - chore: Use consistent formatting for configuration

Pull Request - State: closed - Opened by manzt 6 months ago

#175 - feat!: Remove `higlass.fuse`

Pull Request - State: closed - Opened by manzt 6 months ago

#174 - chore: Pin minimum Python version; Upgrade Ruff

Pull Request - State: closed - Opened by manzt 6 months ago

#173 - Remove legacy `HiGlassServer` dependencies

Pull Request - State: closed - Opened by manzt 6 months ago

#172 - Add `higlass.tilesets.register` decorator

Pull Request - State: closed - Opened by manzt 6 months ago
Labels: enhancement

#171 - Remove `HiGlassServer` (and dependency on `servir`)

Pull Request - State: closed - Opened by manzt 6 months ago

#170 - chore: Use PEP 735 dependency groups metadata

Pull Request - State: closed - Opened by manzt 6 months ago

#169 - docs: fix Sphinx warnings and allow scroll for code snippets

Pull Request - State: closed - Opened by manzt 6 months ago

#167 - docs: Hide overflow in code blocks and scale images

Pull Request - State: closed - Opened by pkerpedjiev 6 months ago - 1 comment

#166 - docs: Move pileup example to Examples section

Pull Request - State: closed - Opened by pkerpedjiev 6 months ago

#165 - Backport release notes to `CHANGELOG.md`

Pull Request - State: closed - Opened by manzt 6 months ago

#164 - Document release flow in `README.md`

Pull Request - State: closed - Opened by manzt 6 months ago

#163 - fix: Use deepcopy instead of model_dump to copy view

Pull Request - State: closed - Opened by pkerpedjiev 6 months ago

#162 - chore(deps): bump actions/configure-pages from 4 to 5 in the actions group

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies, github_actions

#161 - Allow file pointers in tileset loaders

Pull Request - State: closed - Opened by pkerpedjiev 6 months ago

#160 - feat(widget): Suppress right-click event propagation

Pull Request - State: closed - Opened by manzt 6 months ago

#159 - Remove legacy checklist steps from PR template

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

#158 - Upgrade higlass front end to v1.13

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

#157 - Shorter automatic uids

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

#156 - Pin higlass-schema version upper bound for <v1.2

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

#155 - Migrate to higlass-schema v0.2.0 (pydantic v2)

Pull Request - State: closed - Opened by manzt 9 months ago - 8 comments

#154 - ci: Switch to Trusted Publishers

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

#153 - Switch to Trusted Publishing

Issue - State: closed - Opened by manzt 9 months ago

#152 - Use uv workspaces and include higlass-schema package

Pull Request - State: closed - Opened by manzt 10 months ago - 1 comment

#151 - chore: Migrate dev from hatch to uv

Pull Request - State: closed - Opened by manzt 10 months ago

#150 - docs: Fix numpy example

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

#149 - Jupyter notebook is not displaying the .mcool file

Issue - State: closed - Opened by narzouni about 1 year ago - 2 comments

#147 - coloring of bigwig tracks

Issue - State: closed - Opened by sfh1111 over 1 year ago - 1 comment

#146 - Can't follow the basic example and load local data

Issue - State: closed - Opened by mcmccon over 1 year ago - 4 comments

#145 - feat: Jupyter comms server

Pull Request - State: closed - Opened by manzt over 1 year ago - 4 comments

#144 - Fully embracing Jupyter Widgets / Jupyter comm

Issue - State: closed - Opened by manzt over 1 year ago - 6 comments

#143 - chore: Upgrade anywidget version

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

#141 - feat: Add devcontainer config

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

#140 - Loading local tilesets: issue with enabling proxy; docs section on enabling proxy

Issue - State: closed - Opened by agalitsyna almost 2 years ago - 3 comments

#139 - Example added for searching using higlass-python

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

#138 - Bedlike file support added

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

#137 - fix: ensure JS is included in PyPI wheel

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

#136 - Load local bed file

Issue - State: open - Opened by smitkadvani almost 2 years ago

#135 - Add Support for Loading Gene-Annotation Files with BigWig Tracks

Issue - State: open - Opened by smitkadvani almost 2 years ago - 1 comment

#134 - Can higlass create a heatmap for a single resolution cool file?

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

#133 - Failed to load model class 'AnyModel' from module 'anywidget'

Issue - State: closed - Opened by pkerpedjiev almost 2 years ago - 4 comments

#132 - Added docs on passing in an auth header

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

#131 - feat: move HiGlassWidget to higlass-python

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

#130 - Pass kwargs to widget

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

#129 - Refactor tileset design / plugins

Issue - State: closed - Opened by manzt almost 2 years ago - 3 comments

#128 - Expose background server to custom interface

Issue - State: closed - Opened by nvictus about 2 years ago - 1 comment

#127 - higlass for Jupyter not installing

Issue - State: closed - Opened by stalyansky about 2 years ago - 4 comments

#126 - No module named 'higlass.client'

Issue - State: closed - Opened by jiangshan529 about 2 years ago - 7 comments

#125 - ValueError: No default track type (linear-heatmap)

Issue - State: open - Opened by LiuJie1117 about 2 years ago - 1 comment

#124 - docs: add note about versioning

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

#123 - chore: Update README.md

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

#122 - AttributeError: module 'higlass' has no attribute 'view'

Issue - State: closed - Opened by LiuJie1117 about 2 years ago - 3 comments

#121 - Added a workflow to push docs to S3

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

#120 - Fix broken link in docs

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

#119 - feat: bump higlass to v1.12

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

#118 - feat: migrate higlass.server to use `servir`

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

#117 - installation--> import error

Issue - State: closed - Opened by gfudenberg over 2 years ago - 6 comments

#116 - chore: move notebooks/ -> examples/ for better gitattributes

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

#115 - chore: update readme and link to docs

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

#114 - chore: rename primary branch from master -> main

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

#113 - feat: temporarily enable a renderer

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

#112 - Fuse unmount

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

#111 - Support (inline) bedlike data

Issue - State: open - Opened by manzt over 2 years ago

#110 - Local BAM files

Issue - State: open - Opened by manzt over 2 years ago - 1 comment

#109 - docs v2: dfpoints tileset

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

#108 - docs v2: custom chrom ordering (bigwig)

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

#107 - chore: touch up release workflow

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

#106 - feat: update linting rules, add __rich_repr__ to hg.Scale

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

#105 - Add partition scale class

Pull Request - State: closed - Opened by nvictus over 2 years ago - 5 comments

#104 - docs v2: Auth header API

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

#103 - docs v2: export png api

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

#102 - fix: serialize hg.Viewconf as dict

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

#101 - docs v2: colormap helper API

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

#100 - docs v2: Search Box

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

#99 - docs v2: Remote Jupyter Notebook section

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

#98 - fix: insert viewconf into HTML repr template

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

#97 - docs: migrate documentation for hg

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

#96 - [WIP] migrate higlass-python to manzt/hg

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

#95 - Opening display from a script

Issue - State: open - Opened by wsnoble almost 3 years ago - 4 comments

#94 - Interasctive HiGlass view not displaying in Jupyter Notebook

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

#93 - Bumped higlass version

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

#92 - support jupyterlab 3

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

#91 - feat: replace widget with higlass-widget

Pull Request - State: closed - Opened by manzt over 3 years ago - 1 comment