diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 3036ee62f50466677b8c2b68a0aa15bca953632c..5a7f55a49bbb3bca8afd0fa0a0bdbddda267bf56 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -60,23 +60,3 @@ pol_align:
   stage: integration_test
   script:
     - cwltool --no-container subworkflow/pol_align.cwl test_jobs/pol_align.json
-
-faraday_rotation:
-  stage: integration_test
-  script:
-    - cwltool --no-container --preserve-entire-environment subworkflow/faraday_rotation.cwl test_jobs/faraday_rotation.json
-
-prefactor_calibrator:
-  stage: integration_test
-  script:
-    - cwltool --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH --preserve-environment PYTHONPATH workflows/prefactor_calibrator.cwl test_jobs/integration_test_prefactor_calibrator.json
-
-toil:
-  stage: integration_test
-  script:
-    - toil-cwl-runner --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH --preserve-environment PYTHONPATH --jobStore jobstore --writeLogs logs --workDir workdir workflows/prefactor_calibrator.cwl test_jobs/integration_test_prefactor_calibrator.json
-
-flag_average:
-  stage: integration_test
-  script:
-    - cwltool --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH test_workflow/flag_average.cwl test_jobs/flag_average.json