From 4d36da2ff951324ad34bdf41893acd6c2e070aa1 Mon Sep 17 00:00:00 2001
From: mschwoerer <82171591+mschwoer@users.noreply.github.com>
Date: Fri, 17 Jan 2025 15:58:15 +0100
Subject: [PATCH] run also slow tests

---
 .github/workflows/fdr_performance.yml  |  2 +-
 .github/workflows/pip_installation.yml |  4 ++--
 tests/run_unit_tests.sh                | 17 ++++++++++++-----
 3 files changed, 15 insertions(+), 8 deletions(-)

diff --git a/.github/workflows/fdr_performance.yml b/.github/workflows/fdr_performance.yml
index 6ce844a5..0fbafaea 100644
--- a/.github/workflows/fdr_performance.yml
+++ b/.github/workflows/fdr_performance.yml
@@ -35,7 +35,7 @@ jobs:
         shell: bash -l {0}
         run: |
           cd misc
-          . ./pip_install.sh stable,tests alphadia 3.11 True
+          . ./pip_install.sh stable,tests alphadia 3.11 true
       - name: Run legacy classifier
         env: # Or as an environment variable
           NEPTUNE_API_TOKEN: ${{ secrets.NEPTUNE_FDR_TOKEN }}
diff --git a/.github/workflows/pip_installation.yml b/.github/workflows/pip_installation.yml
index 66b7fa81..fac121ae 100644
--- a/.github/workflows/pip_installation.yml
+++ b/.github/workflows/pip_installation.yml
@@ -29,7 +29,7 @@ jobs:
       python-version: ${{ matrix.python-version }}
       os: ${{ matrix.os }}
       install-script: ./pip_install.sh stable,tests
-      test-script: ./run_unit_tests.sh
+      test-script: ./run_unit_tests.sh true
 
   run-unit-tests-loose:
     name: Test 'loose' on ${{ matrix.os }}
@@ -43,4 +43,4 @@ jobs:
       python-version: ${{ matrix.python-version }}
       os: ${{ matrix.os }}
       install-script: ./pip_install.sh tests
-      test-script: ./run_unit_tests.sh
+      test-script: ./run_unit_tests.sh true
diff --git a/tests/run_unit_tests.sh b/tests/run_unit_tests.sh
index 81ff4727..4236efa2 100755
--- a/tests/run_unit_tests.sh
+++ b/tests/run_unit_tests.sh
@@ -1,7 +1,14 @@
-conda activate alphadia
-#python -m unittest unit_tests/test_cli.py
-#python -m unittest unit_tests/test_gui.py
-coverage run --source=../alphadia -m pytest -k 'not slow'
+#!/bin/bash
+
+ENV_NAME=alphadia
+
+INCLUDE_SLOW_TESTS=${1:-false}
+
+if [ "$INCLUDE_SLOW_TESTS" == "true" ]; then
+  conda run -n $ENV_NAME --no-capture-output coverage run --source=../alphadia -m pytest
+else
+  conda run -n $ENV_NAME --no-capture-output coverage run --source=../alphadia -m pytest -k 'not slow'
+fi
+
 # coverage run --source=../alphadia -m pytest && coverage html && coverage-badge -f -o ../coverage.svg
 # coverage run --source=../alphadia -m pytest -k 'not slow' && coverage html && coverage-badge -f -o ../coverage.svg
-conda deactivate