Bump nf-core from 2.1 to 2.14.1

[dependabot]

Bumps nf-core from 2.1 to 2.14.1.

Release notes

Sourced from nf-core's releases.

v2.14.1 - Tantalum Toad - Patch

This is a patch release to fix a broken CI action.

Template

• Don't cache pip in linting.yml (#2961)

General

• Fix update github action for components in pipeline template (#2968)
• Run sync after release on self hosted runners (#2970)

v2.14.0 - Tantalum Toad

This release contains some template changes and nf-core/tools updates.

🌟 Highlights 🌟

nf-core/tools functionalities

• We included a new linting test to ensure that nf-test snapshots contain the versions.yml file.
• Components (modules and subworkflows) can now handle more possible git URLs (ssh:// and ftp://).
• The nf-core download command has a new argument --tag, which allows adding additional tags to select particular revisions in the Seqera Platform interface. For example, --tag "3.10=validated"{:bash} would allow you to quickly select the validated version of the pipeline.

Pipeline template

• We updated the GitHub Action which tests that the pipeline can be downloaded correctly (download_pipeline.yml)
• We removed pyproject.toml from the template.
• Pipeline-specific institutional configs support is now activated for all pipelines by default.
• The .nf-core.yml file contains now the version of the pipeline template.

Changelog

Template

• Remove fasta default from nextflow.config (#2828)
• Update templates to use nf-core/setup-nextflow v2 (#2818)
• Link to troubleshooting docs when pipeline fails (#2845)
• Add fallback to download_pipeline.yml in case the pipeline does not support stub runs (#2846)
• Set topic variable correctly in the mastodon announcement (#2848)
• Add a cleanup action to download_pipeline.yml to fix failures caused by inadequate storage space on the runner (#2849)
• Update python to 3.12 (#2805)
• Remove pyproject.toml from template root
• Shorten lines in pipeline template (#2908)
• Add a new hidden --pipelines_testdata_base_path parameter to more easily switch locations of test data in test configs (#2931)[https://redirect.github.com/Adds test data base path to classic test configs for more easily switching between test data location nf-core/tools#2931]
• Permanently activated pipeline-specific institutional configs support for all pipelines without need for manual intervention (#2936)
• Template config: conda.channels, not channels (#2950)
• Handles multiple DOIs + doi.org resolver from manifest.doi (#2946)
• Update included components (#2949)
• Update .editorconfig (#2953)

... (truncated)

Changelog

Sourced from nf-core's changelog.

Commits

• 930ece5 Merge pull request #2971 from nf-core/dev
• 1b7612c Update CHANGELOG.md
• 2d8aa3b Merge pull request #2970 from mashehu/run-release-on-self-hosted
• 1d147cc check first for release trigger
• 1fecdc4 Generate new screengrabs with rich-codex
• 39ce3e7 update changelog
• c2ae96e run sync on self-hosted runners on release
• 53c77dd Generate new screengrabs with rich-codex
• c33f80e Merge pull request #2968 from mashehu/fix-modules-update-action
• c76aa80 Merge branch 'dev' into fix-modules-update-action
• Additional commits viewable in compare view

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