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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Lint for pipeline nf-test contents

#3065 adamrtalbot opened 3 months ago
0
Lint for tests/nextflow.config contents

#3064 adamrtalbot opened 3 months ago
0
Lint contents of nf-test.config

#3063 adamrtalbot opened 3 months ago
0
Remove Azure specific documentation which is no longer required

#3062 adamrtalbot closed 3 months ago
0
handle new jsonschema error type

#3061 mashehu closed 3 months ago
0
Update dependency textual to v0.72.0

#3060 renovate[bot] closed 3 months ago
0
Update pre-commit hook astral-sh/ruff-pre-commit to v0.5.4

#3059 renovate[bot] closed 3 months ago
2
Update to pytest v8 and move it to dev dependencies

#3058 mashehu closed 3 months ago
0
Lint unused import

#3057 LouisLeNezet opened 3 months ago
0
modules test on a private modules server requires --git-remote

#3056 SPPearce opened 3 months ago
0
template: Use filename in code block for `params.yml`

#3055 mashehu closed 3 months ago
0
update api docs to new structure

#3054 mashehu closed 3 months ago
0
Action Required: Fix Renovate Configuration

#3053 renovate[bot] closed 3 months ago
0
Update pre-commit hook astral-sh/ruff-pre-commit to v0.5.1

#3052 renovate[bot] closed 3 months ago
0
update output_dir for api docs to new website structure

#3051 mashehu closed 3 months ago
0
Update python:3.12-slim Docker digest to d5f1674

#3050 renovate[bot] closed 3 months ago
0
linting for nf-test snapshot

#3049 maxulysse opened 3 months ago
1
Update gitpod/workspace-base Docker digest to 0f38224

#3048 renovate[bot] closed 3 months ago
1
add flagg limit_output for modules update

#3047 Joon-Klaps closed 3 months ago
4
Remove deprecated syntax

#3046 maxulysse closed 3 months ago
4
Add flag to limit diff output of modules update

#3045 Joon-Klaps closed 3 months ago
0
Subworkflow install failure still results in a 0 exit code

#3044 jvfe opened 4 months ago
2
Non-CLI usage of nf-core download

#3043 seedgeorge opened 4 months ago
3
Template: Run awsfulltest on PRs to `master` with two PR approvals

#3042 mashehu closed 3 months ago
1
Update python:3.12-slim Docker digest to da2d7af

#3041 renovate[bot] closed 4 months ago
1
Update pre-commit hook astral-sh/ruff-pre-commit to v0.5.0

#3040 renovate[bot] closed 4 months ago
1
move pipeline commands to functions to avoid duplication

#3039 mirpedrol closed 3 months ago
0
Create app: display input textbox with equally spaced grid

#3038 mirpedrol closed 3 months ago
0
Replace check_max function with resourceLimits directive

#3037 jfy133 closed 1 month ago
8
Add warning deprecation message to top-level commands

#3036 mirpedrol closed 4 months ago
0
Revert "move pipeline subcommands for v3.0"

#3035 mirpedrol closed 4 months ago
1
Download CI erroring since is using development version of tools

#3034 JoseEspinosa closed 3 months ago
1
Update pre-commit hook pre-commit/mirrors-mypy to v1.10.1

#3033 renovate[bot] closed 4 months ago
1
Modules meta.yml ontology

#3032 mirpedrol closed 1 month ago
3
Update pre-commit hook astral-sh/ruff-pre-commit to v0.4.10

#3031 renovate[bot] closed 4 months ago
0
`nf-core schema build` uses old schema in json file

#3030 SimonDMurray closed 4 months ago
2
Linting: Remove 'defaults' from conda environment.yml file.

#3029 ewels closed 2 months ago
2
Module meta.yml restructure

#3028 mirpedrol closed 1 month ago
3
CLI helper to select EDAM ontologies for module inputs / outputs

#3027 ewels opened 4 months ago
0
Fetch bio.tools identifiers for module YAML file

#3026 ewels opened 4 months ago
0
pytest

#3025 muffato closed 4 months ago
1
Remove release announcement from non nf-core pipelines

#3024 LaurenceKuhl closed 4 months ago
1
Update python:3.12-slim Docker digest to 2fba8e7

#3023 renovate[bot] closed 4 months ago
0
Update pre-commit hook astral-sh/ruff-pre-commit to v0.4.9

#3022 renovate[bot] closed 4 months ago
0
Lint for correct `meta.yml` tuple structure in modules and subworkflows

#3021 mirpedrol closed 6 days ago
0
Update python:3.12-slim Docker digest to e3ae8cf

#3020 renovate[bot] closed 4 months ago
0
Support NXF_SINGULARITY_LIBRARYDIR in `nf-core download`

#3019 muffato opened 4 months ago
4
ci: Run checks on renovate branches to avoid creating and merging PRs

#3018 edmundmiller opened 4 months ago
1
Update pre-commit hook astral-sh/ruff-pre-commit to v0.4.8

#3017 renovate[bot] closed 4 months ago
0
Update dawidd6/action-download-artifact action to v6

#3016 renovate[bot] closed 4 months ago
0

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