use dorny/paths-filter with git commands instead of GitHub API (#3969)

* use dorny/paths-filter with git commands instead of GitHub API

* detect changes against master branch

* Revert "detect changes against master branch"

This reverts commit 5b6255e.

* try github.ref as base

* testing frouioui's solution to the same problem

* add todo comment

---------

Co-authored-by: Matthias Hörtenhuber <mashehu@users.noreply.github.com>

.github/workflows/test.yml

@@ -56,11 +56,12 @@ jobs:
     steps:
       - uses: actions/checkout@v3
 
-      - uses: dorny/paths-filter@v2
+      # TODO: change back to using dorny/paths-filter when https://github.com/dorny/paths-filter/pull/133 is implemented
+      - uses: frouioui/paths-filter@main
         id: filter
         with:
           filters: "tests/config/pytest_modules.yml"
-          token: "${{ secrets.GITHUB_TOKEN }}"
+          token: ""
 
   nf-core-lint:
     runs-on: ubuntu-20.04
@@ -367,11 +368,12 @@ jobs:
     steps:
       - uses: actions/checkout@v3
 
-      - uses: dorny/paths-filter@v2
+      # TODO: change back to using dorny/paths-filter when https://github.com/dorny/paths-filter/pull/133 is implemented
+      - uses: frouioui/paths-filter@main
         id: filter
         with:
           filters: ".github/modules.yml"
-          token: "${{ secrets.GITHUB_TOKEN }}"
+          token: ""
 
   nf-test:
     runs-on: ubuntu-20.04