OpenMS/pyopenms-docs issues and pull requests

#336 - test blacken

Pull Request - State: closed - Opened by jpfeuffer about 2 years ago - 5 comments

#335 - test blacken

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

#334 - Duplicate introduction!

Issue - State: closed - Opened by jpfeuffer about 2 years ago - 2 comments
Labels: bug, documentation, sprint candidate

#333 - [FIX] blacken and dozens of other warnings. Also parellelize build.

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

#326 - Overwritten/aliased classes not documented correctly

Issue - State: closed - Opened by jpfeuffer about 2 years ago - 4 comments
Labels: bug, sprint candidate

#322 - Update apidoc.rst

Pull Request - State: closed - Opened by poshul about 2 years ago - 8 comments

#320 - Move to conda

Pull Request - State: open - Opened by jpfeuffer about 2 years ago

#316 - Try updating to sphinx 5 or even 6 beta

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

#307 - Lots of warnings and errors in sphinx autodoc

Issue - State: closed - Opened by jpfeuffer over 2 years ago - 4 comments
Labels: minor

#306 - Escape underscores and other special sphinx characters

Issue - State: open - Opened by jpfeuffer over 2 years ago - 5 comments
Labels: sprint candidate

#304 - Find a way to automatically display supported python versions

Issue - State: open - Opened by jpfeuffer over 2 years ago - 3 comments
Labels: sprint candidate

#303 - Update wrap_classes.rst with newest changes in autowrap

Issue - State: open - Opened by jpfeuffer over 2 years ago - 1 comment
Labels: sprint candidate

#293 - 500+ warnings and a few errors on RTD and local

Issue - State: open - Opened by tapaswenipathak over 2 years ago - 1 comment
Labels: sprint candidate

#289 - Add tutorial how to generate modified sequences using ModifiedPeptideGenerator

Issue - State: closed - Opened by timosachsenberg over 2 years ago - 27 comments
Labels: sprint candidate

#288 - Add how to get all modifications from ModificationsDB

Issue - State: closed - Opened by timosachsenberg over 2 years ago - 6 comments
Labels: sprint candidate

#285 - Add furo theme

Pull Request - State: closed - Opened by greengypsy over 2 years ago - 7 comments

#284 - Update pyopenms.readthedocs.io theme to furo

Issue - State: closed - Opened by tapaswenipathak over 2 years ago - 9 comments
Labels: enhancement

#283 - Add tutorial how to load and plot Chromeleon file in pyOpenMS

Issue - State: open - Opened by timosachsenberg over 2 years ago
Labels: documentation

#279 - Pandas export tutorial has warnings

Issue - State: closed - Opened by jpfeuffer over 2 years ago - 5 comments
Labels: minor, first-timers-only, good first issue, sprint candidate

#278 - Explicitly import pyOpenMS

Issue - State: closed - Opened by Kastakin over 2 years ago - 13 comments
Labels: documentation, sprint candidate

#276 - Detect common binder errors automatically

Issue - State: closed - Opened by timosachsenberg over 2 years ago - 9 comments
Labels: CI

#266 - Document how direct infusion data is handled inFeatureFindingMetabo

Issue - State: closed - Opened by bpben almost 3 years ago - 11 comments
Labels: documentation, sprint candidate

#265 - Doc/spectramerger

Pull Request - State: closed - Opened by JangJang3 almost 3 years ago - 6 comments

#260 - Add autosummary for classes

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

#253 - [FEATURE] Add module/class documentation

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

#252 - Link fixin

Pull Request - State: closed - Opened by poshul about 3 years ago - 13 comments

#245 - none of the get_df() functions are working

Issue - State: closed - Opened by chrispook about 3 years ago - 5 comments

#243 - Extend Tutorial on other FeatureFinders

Issue - State: open - Opened by timosachsenberg about 3 years ago - 1 comment
Labels: documentation, sprint candidate

#241 - Add extended text on isotope distributios

Issue - State: closed - Opened by timosachsenberg about 3 years ago - 2 comments
Labels: documentation, sprint candidate

#232 - Add IDFilter example

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 3 comments
Labels: documentation

#231 - Wrap push_back as append

Issue - State: open - Opened by timosachsenberg over 3 years ago - 2 comments
Labels: sprint candidate

#230 - Add example how to filter ConsensusMap and move more C++ code from FileFiltering to library (and expose to python)

Issue - State: open - Opened by timosachsenberg over 3 years ago - 1 comment
Labels: documentation, sprint candidate

#226 - Add example for baseline filtering

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 1 comment
Labels: documentation, hacktoberfest, sprint candidate

#209 - "Import pyopenms" section hierarchy incorrect

Issue - State: closed - Opened by jpfeuffer over 3 years ago - 1 comment
Labels: documentation

#181 - [GH Actions] PR tests: only convert and test changed RSTs

Issue - State: closed - Opened by jpfeuffer over 3 years ago - 4 comments
Labels: documentation

#172 - [WIP] Add repo2docker action

Pull Request - State: closed - Opened by rahul799 over 3 years ago - 2 comments

#164 - Pushes with GitHub tokens do not trigger workflows

Issue - State: closed - Opened by jpfeuffer over 3 years ago - 1 comment
Labels: CI/CD

#162 - Decrease the binder launch time using Docker

Issue - State: closed - Opened by rahul799 over 3 years ago

#155 - Edit and add badges for Build, test and sphinx/RTD

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

#154 - Add branch generation to release job in OpenMS repo

Issue - State: open - Opened by jpfeuffer over 3 years ago - 2 comments
Labels: documentation, sprint candidate

#153 - Add tutorial on spectrum merging (SpectraMerger algorithms)

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 3 comments
Labels: documentation, hacktoberfest

#147 - Double-check case sensitivity of anchor links

Issue - State: closed - Opened by jpfeuffer over 3 years ago - 12 comments
Labels: documentation, hacktoberfest, sprint candidate

#146 - convert more of the existing pyOpenMS tools that use argparse to use CTDopts

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 1 comment
Labels: hacktoberfest

#141 - Add link to jupyter notebook as well (e.g., next to binder button)

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 9 comments
Labels: documentation, hacktoberfest

#135 - Publicly available workflows or building blocks?

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

#134 - iPyNB conversion for code in Notes not working

Issue - State: open - Opened by jpfeuffer over 3 years ago - 4 comments
Labels: hacktoberfest, sprint candidate

#129 - rename folder

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

#123 - Added pandoc filters for a conversion with plain pandoc

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

#122 - algo parameter documentation

Issue - State: open - Opened by timosachsenberg over 3 years ago - 2 comments
Labels: documentation

#115 - Spectrum alignment menu

Issue - State: closed - Opened by timosachsenberg over 3 years ago
Labels: documentation, hacktoberfest

#109 - IsotopeDistribution should provide dict conversion

Issue - State: closed - Opened by timosachsenberg over 3 years ago
Labels: enhancement, sprint candidate

#107 - link to pxd files so users can easier look up all wrapped methods

Issue - State: closed - Opened by timosachsenberg over 3 years ago - 8 comments
Labels: documentation

#106 - Fix peptide search. Use larger data. Add inference.

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

#104 - Code that should be wrapped in PyOpenMS

Issue - State: open - Opened by oliveralka over 3 years ago - 4 comments
Labels: sprint candidate

#83 - Formulate learning goals at top of each topic.

Issue - State: open - Opened by timosachsenberg over 3 years ago - 15 comments
Labels: documentation, hacktoberfest, sprint candidate

#72 - Add basic protein inference example

Issue - State: open - Opened by timosachsenberg over 3 years ago - 4 comments
Labels: documentation, sprint candidate

#26 - change interface of SpectrumBrowser widget

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

#16 - embed python console in GUI app: potentially interesting widget for power users

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

GitHub / OpenMS/pyopenms-docs issues and pull requests