Codemodder

Fixed

* Fix path inclusion behavior

New

* `remove-debug-breakpoint` codemod
* `combine-startswith-endswith` codemod
* `replace-flask-send-file` codemod
* `fix-deprecated-logging-warn` codemod
* `flask-enable-csrf-protection` codemod
* Update `harden-pyyaml` to fix custom loader classes that inherit unsafe loaders

Fixed

* Add proper inclusion/exclusion filter to codemods that were missing it

New

* `use-set-literal` codemod
* `remove-module-global` codemod
* `subprocess-shell-false` codemod
* Better formatting for dependency updates to `setup.py`
* Add expression propagation to `literal-or-new-object-identity`

Fixed

Fixed
* Fix regression in dependency manager: do not re-add existing dependency

New

* `literal-or-new-object-identity` codemod
* `remove-future-imports` codemod
* `add-requests-timeout` codemod
* `exception-without-raise` codemod
* Better heuristic for detecting which dependency files to update
* Add detailed description to CodeTF about dependency update (or failure)

Fixed

New
* `flask-json-response-type` codemod
* Support for `Popen` in `sandbox-process-creation`

Fixed
* Update example in `url-sandbox` documentation