Merge pull request #1196 from nf-core/dev

Dev -> Master for 2.0.1 release

.github/workflows/sync.yml

@@ -63,7 +63,7 @@ jobs:
         run: |
           git config --global user.email "[email protected]"
           git config --global user.name "nf-core-bot"
-          nf-core --log-file sync_log_${{ matrix.pipeline }}.txt sync nf-core/${{ matrix.pipeline }} \
+          nf-core --log-file sync_log_${{ matrix.pipeline }}.txt sync -d nf-core/${{ matrix.pipeline }} \
             --from-branch dev \
             --pull-request \
             --username nf-core-bot \

CHANGELOG.md

@@ -1,5 +1,15 @@
 # nf-core/tools: Changelog
 
+## [v2.0.1 - Palladium Platypus Junior](https://github.com/nf-core/tools/releases/tag/2.0.1) - [2021-07-13]
+
+### Template
+
+* Critical tweak to add `--dir` declaration to `nf-core lint` GitHub Actions `linting.yml` workflow
+
+### General
+
+* Add `--dir` declaration to `nf-core sync` GitHub Actions `sync.yml` workflow
+
 ## [v2.0 - Palladium Platypus](https://github.com/nf-core/tools/releases/tag/2.0) - [2021-07-13]
 
 ### :warning: Major enhancements & breaking changes

nf_core/pipeline-template/.github/workflows/linting.yml

@@ -127,7 +127,7 @@ jobs:
           GITHUB_COMMENTS_URL: ${{ github.event.pull_request.comments_url }}
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
           GITHUB_PR_COMMIT: ${{ github.event.pull_request.head.sha }}
-        run: nf-core -l lint_log.txt lint ${GITHUB_WORKSPACE} --markdown lint_results.md
+        run: nf-core -l lint_log.txt lint --dir ${GITHUB_WORKSPACE} --markdown lint_results.md
 
       - name: Save PR number
         if: ${{ always() }}

setup.py

@@ -2,7 +2,7 @@
 
 from setuptools import setup, find_packages
 
-version = "2.0"
+version = "2.0.1"
 
 with open("README.md") as f:
     readme = f.read()