nf-core tools issues - Githubissues

nf-core / tools

Python package with helper tools for the nf-core community.

https://nf-co.re

MIT License

241 stars 189 forks source link

issues

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nf-core pipeline lint gives cryptic prettier error message

#3262 marrip opened 17 hours ago
3
create template GENERATE_DOWNSTREAM_SAMPLESHEETS for tools

#3261 Joon-Klaps opened 19 hours ago
0
3257 - Add linkify version to fix bioconda dependencies

#3260 pmoris opened 19 hours ago
2
create template GENERATE_DOWNSTREAM_SAMPLESHEETS for tools

#3259 Joon-Klaps opened 20 hours ago
0
Provide novel tooling for regulatory needs

#3258 apeltzer opened 22 hours ago
1
ModuleNotFoundError for nf-core v3.0.2 installed from bioconda

#3257 pmoris opened 1 day ago
3
1929: local modules use remote format from template

#3256 awgymer opened 1 day ago
2
Template: Add resource limits to Gitpod profile

#3255 mahesh-panchal opened 1 day ago
4
Pipeline creation should specify branch name when initialising git repository

#3254 alexlyttle opened 1 day ago
0
nf-core pipelines bump-versions doesn't update .nf-core.yml

#3253 jfy133 closed 3 days ago
2
Template fails linting/pre-commit

#3252 alexlyttle opened 4 days ago
0
nf-core modules create tool/subtool should make a main.nf in a subfolder of subtool in pipelines

#3251 mahesh-panchal closed 4 days ago
2
Update pre-commit hook astral-sh/ruff-pre-commit to v0.7.1

#3250 renovate[bot] closed 5 days ago
2
chore(deps): update github actions

#3249 renovate[bot] closed 5 days ago
1
Modules meta.yml differentiate between tuple and single element channels

#3248 mirpedrol opened 5 days ago
0
add `--dir/-d` option to schema commands

#3247 mashehu closed 5 days ago
4
Modules: add a panel around diff previews when updating

#3246 mashehu closed 4 days ago
9
nf-core pipelines bump-version doesn't consider skipped features

#3245 mashehu opened 5 days ago
0
Download: Seqera container support - Patch 1

#3244 MatthiasZepper closed 4 days ago
1
Adopt nf-test sharding

#3243 edmundmiller opened 6 days ago
3
Seqera containers example

#3242 pinin4fjords closed 4 days ago
1
Remove defaults conda channel from pipeline template

#3241 ktmeaton closed 6 days ago
3
Add new command nf-core rocrate to create a Research Object (RO) crate for a pipeline (continuation from #2680) [skip changelog]

#3240 mashehu opened 6 days ago
1
Add a separater between each module's set of diffs during 'preview changes' during module updates

#3239 jfy133 opened 6 days ago
1
Revert "Add new command `nf-core rocrate` to create a Research Object (RO) crate for a pipeline" [skip changelog]

#3238 mashehu closed 6 days ago
4
Update GitHub Actions

#3237 renovate[bot] closed 6 days ago
0
Update pre-commit hook pre-commit/mirrors-mypy to v1.13.0

#3236 renovate[bot] closed 6 days ago
0
TEMPLATE: fix worklfow_dispatch trigger and parse more review comments in awsfulltest

#3235 mashehu closed 6 days ago
0
`--dir / -d` argument not available for `pipeplines schema lint, validate, docs`

#3234 nschan closed 5 days ago
0
use correct profile options for sfw test command

#3233 mashehu closed 1 week ago
0
Update python:3.12-slim Docker digest to 032c526

#3232 renovate[bot] closed 1 week ago
1
Fix typos

#3231 mribeirodantas closed 1 week ago
0
Update pre-commit hook pre-commit/mirrors-mypy to v1.12.0

#3230 renovate[bot] closed 1 week ago
1
Update pre-commit hook astral-sh/ruff-pre-commit to v0.7.0

#3229 renovate[bot] closed 1 week ago
0
allow mixed str and dict in lint config

#3228 mashehu opened 1 week ago
1
Fix pydantic dump

#3227 mashehu closed 1 week ago
1
create: add shortcut to toggle all switches

#3226 mashehu closed 2 weeks ago
2
Template: Do not assume pipeline name is url

#3225 maxulysse closed 1 week ago
1
Template: Fix Manifest DOI text

#3224 maxulysse closed 2 weeks ago
0
TEMPLATE: Keep pipeline name in version.yml file

#3223 maxulysse closed 2 weeks ago
2
nf-core pipelines launch CLI issue

#3222 rhassaine opened 2 weeks ago
0
bump version to 3.0.3dev

#3221 mashehu closed 2 weeks ago
1
Include .nf-core.yml in `nf-core pipelines bump-version`

#3220 mashehu closed 2 weeks ago
1
Dev -> main for 3.0.2

#3219 mashehu closed 2 weeks ago
1
Template: fix pre-commit lining failing on pipelines template

#3218 mirpedrol closed 2 weeks ago
0
disable automatic sync on release, fix handling empty pipeline input

#3217 mashehu closed 2 weeks ago
0
bump version to 3.0.2 [skip changelog]

#3216 mirpedrol closed 2 weeks ago
1
Use updated pipeline commands in docstrings

#3215 mashehu closed 2 weeks ago
0
TEMPLATE: Parallelize pipeline GHA tests over docker/conda/singularity

#3214 maxulysse closed 2 weeks ago
7
Linting: Fix bug when linting schema params

#3213 mirpedrol closed 2 weeks ago
0