Disabled some pre-commit checks and configured others

.bandit

@@ -1,2 +1,3 @@
 [bandit]
 skips = B101,B102,B105,B301,B303,B310,B318,B401,B403,B404,B405,B408,B314,B602,B603,B604,B606,B607
+exclude = submodules/

.pre-commit-config.yaml

@@ -10,7 +10,8 @@ files:
 exclude:
   (?x)^(
   .*error.*\.yaml|
-  experiments/.*
+  experiments/.*|
+  submodules/.*
   )$
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
@@ -39,14 +40,16 @@ repos:
     hooks:
       - id: yamllint
         args: [-c, .yamllint]
-  - repo: https://github.com/asottile/pyupgrade
-    rev: v2.31.0
-    hooks:
-      - id: pyupgrade
-  - repo: https://github.com/psf/black
-    rev: 22.1.0
-    hooks:
-      - id: black
+# I see no point in making the code more incompatible with older Python
+#  - repo: https://github.com/asottile/pyupgrade
+#    rev: v2.31.0
+#    hooks:
+#      - id: pyupgrade
+# Too intrusive
+#  - repo: https://github.com/psf/black
+#    rev: 22.1.0
+#    hooks:
+#      - id: black
   - repo: https://github.com/Lucas-C/pre-commit-hooks-bandit
     rev: v1.0.5
     hooks:
@@ -55,20 +58,22 @@ repos:
     rev: v0.3.1
     hooks:
       - id: autoflake8
-  - repo: https://github.com/PyCQA/flake8
-    rev: 3.9.2
-    hooks:
-      - id: flake8
-  - repo: https://github.com/PyCQA/isort
-    rev: 5.10.1
-    hooks:
-      - id: isort
+# Flake8 is run outside and here the config doesn't work
+#  - repo: https://github.com/PyCQA/flake8
+#    rev: 3.9.2
+#    hooks:
+#      - id: flake8
+# Sorting imports is dangerous.
+#  - repo: https://github.com/PyCQA/isort
+#    rev: 5.10.1
+#    hooks:
+#      - id: isort
   - repo: https://github.com/codespell-project/codespell
     rev: v2.1.0
     hooks:
       - id: codespell
-  - repo: https://github.com/pre-commit/mirrors-mypy
-    rev: v0.931
-    hooks:
-      - id: mypy
+#  - repo: https://github.com/pre-commit/mirrors-mypy
+#    rev: v0.931
+#    hooks:
+#      - id: mypy
   # TODO:  mdformat --wrap 75 README.md --number