Merge pull request #2696 from mirpedrol/bump-2.12

bump to 2.12 for release [skip changelog]

.gitpod.yml

@@ -1,4 +1,4 @@
-image: nfcore/gitpod:dev
+image: nfcore/gitpod:latest
 tasks:
   - name: install current state of nf-core/tools and setup pre-commit
     command: |

CHANGELOG.md

@@ -1,6 +1,6 @@
 # nf-core/tools: Changelog
 
-# v2.12dev
+# [v2.12 - Aluminium Wolf](https://github.com/nf-core/tools/releases/tag/2.11) - [2024-01-29]
 
 ### Template
 
@@ -15,8 +15,6 @@
 - Add new pipeline error message pointing to docs when 'requirement exceeds available memory' error message ([#2680](https://github.com/nf-core/tools/pull/2680))
 - add 👀👍🏻🎉😕 reactions to fix-linting-bot action ([#2692](https://github.com/nf-core/tools/pull/2692))
 
-### Download
-
 ### Linting
 
 - Fix linting of a pipeline with patched custom module ([#2669](https://github.com/nf-core/tools/pull/2669))
@@ -29,25 +27,22 @@
 
 - Fix empty json output for `nf-core list local` ([#2668](https://github.com/nf-core/tools/pull/2668))
 
-### Subworkflows
-
 ### General
 
 - Run CI-pytests for nf-core tools on self-hosted runners ([#2550](https://github.com/nf-core/tools/pull/2550))
 - Add Ruff linter and formatter replacing Black, isort and pyupgrade ([#2620](https://github.com/nf-core/tools/pull/2620))
-- Update pre-commit hook pre-commit/mirrors-mypy to v1.8.0 ([#2630](https://github.com/nf-core/tools/pull/2630))
-- Update mshick/add-pr-comment action to v2 ([#2632](https://github.com/nf-core/tools/pull/2632))
-- update python image version in docker file ([#2636](https://github.com/nf-core/tools/pull/2636))
 - Set pdiff as nf-test differ in Docker image for Gitpod ([#2642](https://github.com/nf-core/tools/pull/2642))
 - Fix Renovate Dockerfile updating issues ([#2648](https://github.com/nf-core/tools/pull/2648) and [#2651](https://github.com/nf-core/tools/pull/2651))
 - Add new subcommand `nf-core tui`, which launches a TUI (terminal user interface) to intuitively explore the command line flags, built using [Trogon](https://github.com/Textualize/trogon) ([#2655](https://github.com/nf-core/tools/pull/2655))
-- Update pre-commit hook astral-sh/ruff-pre-commit to v0.1.13 ([#2660](https://github.com/nf-core/tools/pull/2660))
 - Add new subcommand: `nf-core logo-create` to output an nf-core logo for a pipeline (instead of going through the website) ([#2662](https://github.com/nf-core/tools/pull/2662))
-- Update actions/cache action to v4 ([#2666](https://github.com/nf-core/tools/pull/2666))
 - Handle api redirects from the old site ([#2672](https://github.com/nf-core/tools/pull/2672))
 - Remove redundanct v in pipeline version for emails ([#2667](https://github.com/nf-core/tools/pull/2667))
 - add function to check `-profile` is well formatted ([#2678](https://github.com/nf-core/tools/pull/2678))
 - Update pre-commit hook astral-sh/ruff-pre-commit to v0.1.14 ([#2674](https://github.com/nf-core/tools/pull/2674))
+- Update pre-commit hook pre-commit/mirrors-mypy to v1.8.0 ([#2630](https://github.com/nf-core/tools/pull/2630))
+- Update mshick/add-pr-comment action to v2 ([#2632](https://github.com/nf-core/tools/pull/2632))
+- update python image version in docker file ([#2636](https://github.com/nf-core/tools/pull/2636))
+- Update actions/cache action to v4 ([#2666](https://github.com/nf-core/tools/pull/2666))
 - Update peter-evans/create-or-update-comment action to v4 ([#2683](https://github.com/nf-core/tools/pull/2683))
 - Update peter-evans/create-or-update-comment action to v4 ([#2695](https://github.com/nf-core/tools/pull/2695))
 

nf_core/lint/files_exist.py

@@ -217,7 +217,6 @@ def pf(file_path: Union[str, Path]) -> Path:
 
     # Files that cause an error if they don't exist
     for files in files_fail:
-        print(files)
         if any([str(f) in ignore_files for f in files]):
             continue
         if any([pf(f).is_file() for f in files]):

setup.py

@@ -2,7 +2,7 @@
 
 from setuptools import find_packages, setup
 
-version = "2.12dev"
+version = "2.12"
 
 with open("README.md") as f:
     readme = f.read()