diff --git a/app/build_containers.py b/app/build_containers.py
index abe909ac..90b0515b 100644
--- a/app/build_containers.py
+++ b/app/build_containers.py
@@ -22,7 +22,6 @@
 
 import os
 import sys
-import argparse
 from decouple import config
 import subprocess
 import click
@@ -31,6 +30,7 @@ from .util import include_exclude_check
 # TODO: find a place for this
 #    epilog="Config provided either in .env or settings.ini or env vars: CERC_REPO_BASE_DIR (defaults to ~/cerc)"
 
+
 @click.command()
 @click.option('--include', help="only build these containers")
 @click.option('--exclude', help="don\'t build these containers")
@@ -44,7 +44,7 @@ def command(ctx, include, exclude):
     local_stack = ctx.obj.local_stack
 
     if local_stack:
-        dev_root_path = default=os.getcwd()[0:os.getcwd().rindex("stack-orchestrator")]
+        dev_root_path = default = os.getcwd()[0:os.getcwd().rindex("stack-orchestrator")]
         print(f'Local stack dev_root_path (CERC_REPO_BASE_DIR) overridden to: {dev_root_path}')
     else:
         dev_root_path = os.path.expanduser(config("CERC_REPO_BASE_DIR", default="~/cerc"))
@@ -53,7 +53,7 @@ def command(ctx, include, exclude):
         print(f'Dev Root is: {dev_root_path}')
 
     if not os.path.isdir(dev_root_path):
-        print(f'Dev root directory doesn\'t exist, creating')
+        print('Dev root directory doesn\'t exist, creating')
 
     with open("container-image-list.txt") as container_list_file:
         containers = container_list_file.read().splitlines()
@@ -64,7 +64,7 @@ def command(ctx, include, exclude):
     def process_container(container):
         if not quiet:
             print(f"Building: {container}")
-        build_script_filename = os.path.join("container-build",container.replace("/","-"),"build.sh")
+        build_script_filename = os.path.join("container-build", container.replace("/", "-"), "build.sh")
         if verbose:
             print(f"Script: {build_script_filename}")
         if not os.path.exists(build_script_filename):
@@ -72,7 +72,7 @@ def command(ctx, include, exclude):
             sys.exit(1)
         if not dry_run:
             # We need to export CERC_REPO_BASE_DIR
-            build_result = subprocess.run(build_script_filename, shell=True, env={'CERC_REPO_BASE_DIR':dev_root_path})
+            build_result = subprocess.run(build_script_filename, shell=True, env={'CERC_REPO_BASE_DIR': dev_root_path})
             # TODO: check result in build_result.returncode
             print(f"Result is: {build_result}")
         else:
diff --git a/app/deploy_system.py b/app/deploy_system.py
index d779bef9..ace747ca 100644
--- a/app/deploy_system.py
+++ b/app/deploy_system.py
@@ -16,18 +16,18 @@
 # Deploys the system components using docker-compose
 
 import os
-import argparse
-from decouple import config
 from python_on_whales import DockerClient
 import click
 from .util import include_exclude_check
 
+
 @click.command()
-@click.option('--include', help="only start these components")
-@click.option('--exclude', help="don\'t start these components")
-@click.argument('command') # help: command: up|down|ps
+@click.option("--include", help="only start these components")
+@click.option("--exclude", help="don\'t start these components")
+@click.option("--score", help="read list of components from file")
+@click.argument('command')  # help: command: up|down|ps
 @click.pass_context
-def command(ctx, include, exclude, command):
+def command(ctx, include, exclude, score, command):
     '''deploy a stack'''
 
     # TODO: implement option exclusion and command value constraint lost with the move from argparse to click
diff --git a/app/setup_repositories.py b/app/setup_repositories.py
index ead3631d..634fff33 100644
--- a/app/setup_repositories.py
+++ b/app/setup_repositories.py
@@ -18,22 +18,23 @@
 
 import os
 import sys
-import argparse
 from decouple import config
 import git
 from tqdm import tqdm
 import click
 
+
 class GitProgress(git.RemoteProgress):
     def __init__(self):
         super().__init__()
-        self.pbar = tqdm(unit = 'B', ascii = True, unit_scale = True)
+        self.pbar = tqdm(unit='B', ascii=True, unit_scale=True)
 
     def update(self, op_code, cur_count, max_count=None, message=''):
         self.pbar.total = max_count
         self.pbar.n = cur_count
         self.pbar.refresh()
 
+
 def is_git_repo(path):
     try:
         _ = git.Repo(path).git_dir
@@ -42,10 +43,11 @@ def is_git_repo(path):
         return False
 
 # TODO: find a place for this in the context of click
-#parser = argparse.ArgumentParser(
+# parser = argparse.ArgumentParser(
 #    epilog="Config provided either in .env or settings.ini or env vars: CERC_REPO_BASE_DIR (defaults to ~/cerc)"
 #   )
 
+
 @click.command()
 @click.option('--check-only', is_flag=True, default=False)
 @click.option('--pull', is_flag=True, default=False)
@@ -71,7 +73,7 @@ def command(ctx, check_only, pull, branches_file):
     local_stack = ctx.obj.local_stack
 
     if local_stack:
-        dev_root_path = default=os.getcwd()[0:os.getcwd().rindex("stack-orchestrator")]
+        dev_root_path = default = os.getcwd()[0:os.getcwd().rindex("stack-orchestrator")]
         print(f'Local stack dev_root_path (CERC_REPO_BASE_DIR) overridden to: {dev_root_path}')
     else:
         dev_root_path = os.path.expanduser(config("CERC_REPO_BASE_DIR", default="~/cerc"))
@@ -81,14 +83,14 @@ def command(ctx, check_only, pull, branches_file):
 
     if not os.path.isdir(dev_root_path):
         if not quiet:
-            print(f'Dev root directory doesn\'t exist, creating')
+            print('Dev root directory doesn\'t exist, creating')
         os.makedirs(dev_root_path)
 
     with open("repository-list.txt") as repository_list_file:
         repos = repository_list_file.read().splitlines()
 
     if verbose:
-        print (f'Repos: {repos}')
+        print(f'Repos: {repos}')
 
     def process_repo(repo):
         full_github_repo_path = f'git@github.com:{repo}'
@@ -96,7 +98,8 @@ def command(ctx, check_only, pull, branches_file):
         full_filesystem_repo_path = os.path.join(dev_root_path, repoName)
         is_present = os.path.isdir(full_filesystem_repo_path)
         if not quiet:
-            present_text = f'already exists active branch: {git.Repo(full_filesystem_repo_path).active_branch}' if is_present else 'Needs to be fetched'
+            present_text = f'already exists active branch: {git.Repo(full_filesystem_repo_path).active_branch}' if is_present \
+                else 'Needs to be fetched'
             print(f'Checking: {full_filesystem_repo_path}: {present_text}')
         # Quick check that it's actually a repo
         if is_present:
@@ -110,7 +113,7 @@ def command(ctx, check_only, pull, branches_file):
                     if not check_only:
                         git_repo = git.Repo(full_filesystem_repo_path)
                         origin = git_repo.remotes.origin
-                        origin.pull(progress = None if quiet else GitProgress())
+                        origin.pull(progress=None if quiet else GitProgress())
                     else:
                         print("(git pull skipped)")
         if not is_present:
@@ -118,8 +121,9 @@ def command(ctx, check_only, pull, branches_file):
             if verbose:
                 print(f'Running git clone for {full_github_repo_path} into {full_filesystem_repo_path}')
             if not dry_run:
-                git.Repo.clone_from(full_github_repo_path, full_filesystem_repo_path, 
-                progress = None if quiet else GitProgress())
+                git.Repo.clone_from(full_github_repo_path,
+                                    full_filesystem_repo_path,
+                                    progress=None if quiet else GitProgress())
             else:
                 print("(git clone skipped)")
         # Checkout the requested branch, if one was specified
@@ -134,8 +138,6 @@ def command(ctx, check_only, pull, branches_file):
                         print(f"checking out branch {branch_to_checkout} in repo {repo}")
                         git_repo = git.Repo(full_filesystem_repo_path)
                         git_repo.git.checkout(branch_to_checkout)
-                    
-
 
     for repo in repos:
         process_repo(repo)
diff --git a/app/util.py b/app/util.py
index 48381bf0..bbf84398 100644
--- a/app/util.py
+++ b/app/util.py
@@ -14,11 +14,11 @@
 # along with this program.  If not, see <http:#www.gnu.org/licenses/>.
 
 def include_exclude_check(s, include, exclude):
-    if include == None and exclude == None:
+    if include is None and exclude is None:
         return True
-    if include != None:
+    if include is not None:
         include_list = include.split(",")
         return s in include_list
-    if exclude != None:
+    if exclude is not None:
         exclude_list = exclude.split(",")
         return s not in exclude_list
diff --git a/cli.py b/cli.py
index 04cde0ce..06c4aa7e 100644
--- a/cli.py
+++ b/cli.py
@@ -21,6 +21,7 @@ from app import deploy_system
 
 CONTEXT_SETTINGS = dict(help_option_names=['-h', '--help'])
 
+
 class Options(object):
     def __init__(self, quiet, verbose, dry_run, local_stack):
         self.quiet = quiet
@@ -33,13 +34,13 @@ class Options(object):
 @click.option('--verbose', is_flag=True, default=False)
 @click.option('--dry-run', is_flag=True, default=False)
 @click.option('--local_stack', is_flag=True, default=False)
-
 # See: https://click.palletsprojects.com/en/8.1.x/complex/#building-a-git-clone
 @click.pass_context
 def cli(ctx, quiet, verbose, dry_run, local_stack):
     """Laconic Stack Orchestrator"""
     ctx.obj = Options(quiet, verbose, dry_run, local_stack)
 
-cli.add_command(setup_repositories.command,"setup-repositories")
-cli.add_command(build_containers.command,"build-containers")
-cli.add_command(deploy_system.command,"deploy-system")
+
+cli.add_command(setup_repositories.command, "setup-repositories")
+cli.add_command(build_containers.command, "build-containers")
+cli.add_command(deploy_system.command, "deploy-system")
diff --git a/setup.py b/setup.py
index d302ee4f..88e10155 100644
--- a/setup.py
+++ b/setup.py
@@ -5,24 +5,24 @@ with open("README.md", "r", encoding="utf-8") as fh:
 with open("requirements.txt", "r", encoding="utf-8") as fh:
     requirements = fh.read()
 setup(
-    name = 'laconic-stack-orchestrator',
-    version = '0.0.5',
-    author = 'Cerc',
-    author_email = 'info@cerc.io',
-    license = 'GNU Affero General Public License',
-    description = 'Orchestrates deployment of the Laconic stack',
-    long_description = long_description,
-    long_description_content_type = "text/markdown",
-    url = 'https://github.com/cerc-io/stack-orchestrator',
-    py_modules = ['cli', 'app'],
-    packages = find_packages(),
-    install_requires = [requirements],
+    name='laconic-stack-orchestrator',
+    version='0.0.5',
+    author='Cerc',
+    author_email='info@cerc.io',
+    license='GNU Affero General Public License',
+    description='Orchestrates deployment of the Laconic stack',
+    long_description=long_description,
+    long_description_content_type="text/markdown",
+    url='https://github.com/cerc-io/stack-orchestrator',
+    py_modules=['cli', 'app'],
+    packages=find_packages(),
+    install_requires=[requirements],
     python_requires='>=3.7',
     classifiers=[
         "Programming Language :: Python :: 3.8",
         "Operating System :: OS Independent",
     ],
-    entry_points = {
+    entry_points={
         'console_scripts': ['laconic-so=cli:cli'],
     }
 )
diff --git a/tox.ini b/tox.ini
new file mode 100644
index 00000000..342e57b0
--- /dev/null
+++ b/tox.ini
@@ -0,0 +1,6 @@
+[flake8]
+extend-ignore = E203
+exclude = .git,__pycache__,docs/source/conf.py,old,build,dist,venv
+max-complexity = 10
+max-line-length = 132
+