nf-core tools issues - Githubissues

nf-core / tools

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

https://nf-co.re

MIT License

242 stars 191 forks source link

issues

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build: Setup VS Code tests

#3292 edmundmiller opened 20 hours ago
2
Fix usage of cache path and implement parallized testing

#3291 mashehu opened 1 day ago
0
Add `manifest.contributors` to template

#3289 ewels opened 1 day ago
0
Lint pipelines nextflow schema against the meta schema

#3288 mirpedrol opened 2 days ago
0
Documentation shows the old commands without `pipelines` prefix

#3287 mirpedrol opened 2 days ago
0
Values in comments are read when creating template for meta.yml from input options

#3286 zachary-foster opened 3 days ago
0
download pipelines fails with some seqera containers

#3285 znorgaard opened 3 days ago
3
Update python:3.12-slim Docker digest to 2a6386a

#3284 renovate[bot] closed 3 days ago
1
Update codecov/codecov-action action to v5

#3283 renovate[bot] closed 5 days ago
1
Update pre-commit hook astral-sh/ruff-pre-commit to v0.7.4

#3282 renovate[bot] closed 5 days ago
2
linting fails to execute if "----" present in module patch diff file

#3281 znorgaard opened 6 days ago
0
General: Run pre-commit when testing linting the template pipeline

#3280 mirpedrol closed 1 week ago
0
General: Add hint to solve git errors with a synced repo

#3279 mirpedrol closed 1 week ago
1
Allow skipping linting of specific subworkflows

#3278 mirpedrol opened 1 week ago
0
Lint that module nf-tests use a single config with sourcing the args from params

#3277 mahesh-panchal opened 1 week ago
0
handle new schema structure in `nf-core pipelines create-params-file`

#3276 mashehu closed 1 week ago
1
Update pre-commit hook astral-sh/ruff-pre-commit to v0.7.3

#3275 renovate[bot] closed 1 week ago
1
Gitpod miniforge

#3274 mahesh-panchal closed 1 week ago
2
Single qutation mark ' in a comment makes AWS release full test break

#3273 jannikseidelQBiC opened 2 weeks ago
2
Template: Add `gpu` profile

#3272 mashehu opened 2 weeks ago
12
template: add `gpu` profile

#3271 mashehu closed 2 weeks ago
3
Phase out the `when` directive

#3270 nictru opened 2 weeks ago
0
Update base to use new previous task

#3269 edmundmiller opened 3 weeks ago
0
Fix typo

#3268 SPPearce closed 3 weeks ago
1
Fix logo typo in help message for create logos

#3267 jfy133 closed 3 weeks ago
2
Running prettier on new pipeline during `pipelines create` fails silently

#3266 awgymer opened 3 weeks ago
0
3262 Fix pipeline lint bug for pipelines with minimal template features

#3265 awgymer opened 3 weeks ago
0
CI Runs failing due to (potential) bug in utils method for fetching repo releases

#3264 awgymer opened 3 weeks ago
0
Un-informative error message from strange linting runs

#3263 fasterius closed 1 week ago
1
nf-core pipeline lint gives cryptic prettier error message

#3262 marrip opened 3 weeks ago
7
create template GENERATE_DOWNSTREAM_SAMPLESHEETS for tools

#3261 Joon-Klaps opened 3 weeks ago
1
3257 - Add linkify version to fix bioconda dependencies

#3260 pmoris closed 3 weeks ago
3
create template GENERATE_DOWNSTREAM_SAMPLESHEETS for tools

#3259 Joon-Klaps opened 3 weeks ago
0
Provide novel tooling for regulatory needs

#3258 apeltzer opened 3 weeks ago
1
ModuleNotFoundError for nf-core v3.0.2 installed from bioconda

#3257 pmoris closed 3 weeks ago
4
1929: local modules use remote format from template

#3256 awgymer opened 3 weeks ago
2
Template: Add resource limits to Gitpod profile

#3255 mahesh-panchal closed 3 weeks ago
4
Pipeline creation should specify branch name when initialising git repository

#3254 alexlyttle opened 3 weeks ago
0
nf-core pipelines bump-versions doesn't update .nf-core.yml

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

#3252 alexlyttle closed 1 week ago
1
nf-core modules create tool/subtool should make a main.nf in a subfolder of subtool in pipelines

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

#3250 renovate[bot] closed 4 weeks ago
2
chore(deps): update github actions

#3249 renovate[bot] closed 4 weeks ago
1
Modules meta.yml differentiate between tuple and single element channels

#3248 mirpedrol opened 4 weeks ago
0
add `--dir/-d` option to schema commands

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

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

#3245 mashehu opened 4 weeks ago
0
Download: Seqera container support - Patch 1

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

#3243 edmundmiller opened 4 weeks ago
3
Seqera containers example

#3242 pinin4fjords closed 4 weeks ago
1