refactor: update setup.py, delete files

• Updated setup.py
• Removed unused nf, docker and env files
• Restructured and added tests

.gitlab-ci.yml

@@ -23,15 +23,6 @@ unit-test-job:   # This job runs in the test stage.
     - coverage run --source sequence_extractor -m pytest
     - coverage report -m
 
-unit-test-job:   # This job runs in the test stage.
-  stage: test    # It only starts when the job in the build stage completes successfully.
-  script:
-    - pip install -r requirements.txt
-    - pip install -r requirements_dev.txt
-    - pip install -e .
-    - coverage run --source sequence_extractor -m pytest
-    - coverage report -m
-
 lint-test-job:   # Test Stage
   stage: test    # Deploys and runs all 3 linters.
   script: