Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / epruesse/ymp issues and pull requests

#191 - Bump sphinx from 4.0.0 to 6.1.3

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#190 - Bump sphinx from 4.0.0 to 6.1.2

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#189 - Bump sphinx from 4.0.0 to 6.1.1

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#188 - Bump sphinx from 4.0.0 to 6.0.0

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#187 - Bump sphinx from 4.0.0 to 5.3.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments
Labels: dependencies

#186 - Bump sphinx from 4.0.0 to 5.2.3

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments
Labels: dependencies

#185 - Bump sphinx from 4.0.0 to 5.2.2

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments
Labels: dependencies

#184 - Bump sphinx from 4.0.0 to 5.2.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments
Labels: dependencies

#183 - Bump sphinx from 4.0.0 to 5.1.1

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#182 - Bump sphinx from 4.0.0 to 5.1.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#181 - Bump sphinx from 4.0.0 to 5.0.2

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#180 - Bump sphinx from 4.0.0 to 5.0.1

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#179 - Bump sphinx from 4.0.0 to 5.0.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#178 - Bump sphinx from 4.0.0 to 4.5.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#177 - Bump sphinx from 4.0.0 to 4.4.0

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments
Labels: dependencies

#176 - Bump sphinx from 4.0.0 to 4.3.2

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments
Labels: dependencies

#175 - Bump sphinx from 4.0.0 to 4.3.1

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments
Labels: dependencies

#174 - Bump sphinx from 4.0.0 to 4.3.0

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 2 comments
Labels: dependencies

#173 - verify stage name length

Issue - State: open - Opened by epruesse about 3 years ago

#172 - allow copying out built-in stages

Issue - State: open - Opened by epruesse about 3 years ago

#170 - Don't override dict/list with none in config

Issue - State: open - Opened by epruesse about 3 years ago

#169 - Show path in missing path resource exception

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

#168 - Bump sphinx from 4.0.0 to 4.2.0

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 3 comments
Labels: dependencies

#167 - Bump sphinx from 4.0.0 to 4.1.2

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#166 - Bump sphinx from 4.0.0 to 4.1.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#165 - Bump sphinx from 4.0.0 to 4.1.0

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#164 - Bump sphinx from 4.0.0 to 4.0.3

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#163 - Bump sphinx from 4.0.0 to 4.0.2

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#162 - Development

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

#161 - Bump sphinx from 4.0.0 to 4.0.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 3 comments
Labels: dependencies

#160 - Bump sphinx from 3.5.4 to 4.0.0

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#159 - Development

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

#158 - Bump sphinx from 3.3.1 to 3.5.4

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#157 - Upgrade to GitHub-native Dependabot

Pull Request - State: closed - Opened by dependabot-preview[bot] over 3 years ago - 2 comments
Labels: dependencies

#156 - Replace "ALL" with project name

Issue - State: open - Opened by epruesse over 3 years ago

#155 - Development

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

#154 - Bump sphinx from 3.3.1 to 3.5.4

Pull Request - State: closed - Opened by dependabot-preview[bot] over 3 years ago - 3 comments
Labels: dependencies

#153 - Development

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

#152 - Allow capping and scaling resources

Issue - State: closed - Opened by epruesse over 3 years ago - 1 comment

#151 - Add resource limiting config; allow snakemake 6.1.0

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

#150 - Get rid of all_targets.stamp

Issue - State: open - Opened by epruesse over 3 years ago

#149 - Bump sphinx from 3.3.1 to 3.5.3

Pull Request - State: closed - Opened by dependabot-preview[bot] over 3 years ago - 2 comments
Labels: dependencies

#148 - Bump sphinx from 3.3.1 to 3.5.2

Pull Request - State: closed - Opened by dependabot-preview[bot] over 3 years ago - 2 comments
Labels: dependencies

#147 - Bump sphinx from 3.3.1 to 3.5.1

Pull Request - State: closed - Opened by dependabot-preview[bot] over 3 years ago - 2 comments
Labels: dependencies

#146 - Bump sphinx from 3.3.1 to 3.5.0

Pull Request - State: closed - Opened by dependabot-preview[bot] almost 4 years ago - 2 comments
Labels: dependencies

#145 - Ensure that id columns do not contain bad characters

Issue - State: open - Opened by epruesse almost 4 years ago

#144 - Development

Pull Request - State: closed - Opened by epruesse almost 4 years ago - 2 comments

#143 - Bump sphinx from 3.3.1 to 3.4.3

Pull Request - State: closed - Opened by dependabot-preview[bot] almost 4 years ago - 2 comments
Labels: dependencies

#142 - Development

Pull Request - State: closed - Opened by epruesse almost 4 years ago - 1 comment

#141 - Bump sphinx from 3.3.1 to 3.4.2

Pull Request - State: closed - Opened by dependabot-preview[bot] almost 4 years ago - 2 comments
Labels: dependencies

#140 - Development

Pull Request - State: closed - Opened by epruesse almost 4 years ago - 1 comment

#139 - Initial scatter working

Pull Request - State: closed - Opened by epruesse almost 4 years ago - 1 comment

#138 - Bump sphinx from 3.3.1 to 3.4.1

Pull Request - State: closed - Opened by dependabot-preview[bot] almost 4 years ago - 2 comments
Labels: dependencies

#137 - Bump sphinx from 3.3.1 to 3.4.0

Pull Request - State: closed - Opened by dependabot-preview[bot] almost 4 years ago - 2 comments
Labels: dependencies

#136 - Implement scatter

Pull Request - State: closed - Opened by epruesse almost 4 years ago - 1 comment

#135 - Bump sphinx from 3.2.1 to 3.3.1

Pull Request - State: closed - Opened by dependabot-preview[bot] about 4 years ago - 1 comment
Labels: dependencies

#134 - Bump sphinx from 3.2.1 to 3.3.0

Pull Request - State: closed - Opened by dependabot-preview[bot] about 4 years ago - 2 comments
Labels: dependencies

#133 - Add hiding to pipelines

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

#132 - Development

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

#130 - Development

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

#129 - Development

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

#128 - Development

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

#127 - Allow pipeline override of rule parameters

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

#126 - Allow parametrizing pipelines

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

#125 - Allow hiding internal pipeline outputs

Issue - State: closed - Opened by epruesse about 4 years ago

#124 - Allow overriding built-in stages

Issue - State: open - Opened by epruesse about 4 years ago

#123 - Allow capping number of threads

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

#122 - Fix pipeline links are to directories

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

#121 - Fix Python 3.8 compatability

Pull Request - State: closed - Opened by epruesse over 4 years ago - 1 comment

#120 - Finish pipeline feature

Pull Request - State: closed - Opened by epruesse over 4 years ago - 1 comment

#119 - Bump sphinx from 3.2.0 to 3.2.1

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#118 - Prepare for 0.2.0

Pull Request - State: closed - Opened by epruesse over 4 years ago - 1 comment

#117 - Have annotate_blastn run blast in chunks of 1000 queries

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

#116 - Bump sphinx from 1.7.0 to 3.2.0

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago
Labels: dependencies

#115 - Fix pushing to pypi

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

#114 - Fix generating canned environments

Issue - State: closed - Opened by epruesse over 4 years ago

#113 - Validate config

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

#112 - Implement actual pipelines/sub-workflows

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

#111 - Development

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

#110 - Development

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

#109 - Bump sphinx from 1.7.0 to 3.1.2

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#108 - Bump sphinx from 1.7.0 to 3.1.1

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#107 - Bump sphinx from 1.7.0 to 3.1.0

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#106 - Bump sphinx from 1.7.0 to 3.0.4

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#105 - Update to Snakemake 5.20.1

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

#103 - Bump sphinx from 1.7.0 to 3.0.3

Pull Request - State: closed - Opened by dependabot-preview[bot] over 4 years ago - 1 comment
Labels: dependencies

#89 - Error downloading qt5.9.7 when trying to install/make certain stages

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

#86 - Add unicycler

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

#81 - Add scattering stages (MAG generation)

Issue - State: closed - Opened by epruesse over 5 years ago - 1 comment
Labels: enhancement

#80 - Docs failing due to conda out of memory

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

#73 - Build stage in normalized location

Issue - State: open - Opened by epruesse over 6 years ago - 1 comment

#72 - Implement implicit stages

Issue - State: closed - Opened by epruesse over 6 years ago - 1 comment

#51 - Verify installed snakemake version at startup

Issue - State: closed - Opened by epruesse over 6 years ago

#34 - nohup option removes coloring

Issue - State: closed - Opened by epruesse over 6 years ago
Labels: nice to have

#32 - Validate and document config YAML

Issue - State: open - Opened by epruesse over 6 years ago
Labels: docs, CI

#28 - Add MultiQC for multiple processing stages

Issue - State: open - Opened by epruesse almost 7 years ago
Labels: stage

#25 - Add RNA-Seq test case and tests

Issue - State: open - Opened by epruesse almost 7 years ago
Labels: CI

#23 - Parallelize Trinity Stage 2

Issue - State: closed - Opened by epruesse almost 7 years ago
Labels: nice to have, stage