An installation and dependency system for Python

Pyflow

Simple is better than complex - The Zen of Python
Pyflow manages Python installations and dependencies.

Goals: Make using and publishing Python projects as simple as possible. Actively managing Python environments shouldn't be required to use dependencies safely. We're attempting to fix each stumbling block in the Python workflow, so that it's as elegant as the language itself.

You don't need Python or any other tools installed to use Pyflow.

It runs standalone scripts in their own environments with no config, and project functions directly from the CLI.

It implements PEP 582 -- Python local packages directory and Pep 518 (pyproject.toml), and supports Python ≥ 3.4.

Installation

• Windows - Download and run
  this installer.
  Or, if you have Scoop installed, run scoop install pyflow.

• Ubuntu or Debian - Download and run
  this deb.

• Fedora, CentOs, RedHat, or older versions of SUSE - Download and run
  this rpm.

• A different Linux distro - Download this
  standalone binary
  and place it somewhere accessible by the PATH. For example, /usr/bin.

• Mac - Build from source using the instructions near the bottom of this page,
  or install via cargo. (If able, please PR the binary.)

• If you have Rust installed - Run cargo install pyflow.

Quickstart

• (Optional) Run pyflow init in an existing project folder, or pyflow new projname
  to create a new project folder. init imports data from requirements.txt or Pipfile; new
  creates a folder with the basics.
• Run pyflow install in a project folder to sync dependencies with pyproject.toml,
  or add dependencies to it.
  This file will be created if it doesn't exist.
• Run pyflow or pyflow myfile.py to run Python.

Quick-and-dirty start for quick-and-dirty scripts

• Add the line __requires__ = [numpy, requests] somewhere in your script, where numpy and
  requests are dependencies.
  Run pyflow script myscript.py, where myscript.py is the name of your script.
  This will set up an isolated environment for this script, and install
  dependencies as required. This is a safe way
  to run one-off Python files that aren't attached to a project, but have dependencies.

Why add another Python manager?

Pipenv, Poetry, and Pyenv address parts of
Pyflow's raison d'être, but expose stumbling blocks that may frustrate new users,
both when installing and using. Some reasons why this is different:

• It behaves consistently regardless of how your system and Python installations
  are configured.

• It automatically manages Python installations and environments. You specify a Python version
  in pyproject.toml (if ommitted, it asks), and it ensures that version is used.
  If the version's not installed, Pyflow downloads a binary, and uses that.
  If multiple installations are found for that version, it asks which to use.
  Pyenv can be used to install Python, but only if your system is configured in a certain way:
  I don’t think expecting a user’s computer to compile Python is reasonable.

• By not using Python to install or run, it remains environment-agnostic.
  This is important for making setup and use as simple and decison-free as
  possible. It's common for Python-based CLI tools
  to not run properly when installed from pip due to the PATH or user directories
  not being configured in the expected way.

• Its dependency resolution and locking is faster due to using a cached
  database of dependencies, vice downloading and checking each package, or relying
  on the incomplete data available on the pypi warehouse.
  Pipenv’s resolution in particular may be prohibitively-slow on weak internet connections.

• It keeps dependencies in the project directory, in __pypackages__. This is subtle,
  but reinforces the idea that there's
  no hidden state.

• It will always use the specified version of Python. This is a notable limitation in Poetry; Poetry
  may pick the wrong installation (eg Python2 vice Python3), with no obvious way to change it.
  Poetry allows projects to specify version, but neither selects,
  nor provides a way to select the right one. If it chooses the wrong one, it will
  install the wrong environment, and produce a confusing
  error message. This can be worked around using Pyenv, but this solution isn't
  documented, and adds friction to the
  workflow. It may confuse new users, as it occurs
  by default on popular linux distros like Ubuntu. Additionally, Pyenv's docs are
  confusing: It's not obvious how to install it, what operating systems
  it's compatible with, or what additional dependencies are required.

• Multiple versions of a dependency can be installed, allowing resolution
  of conflicting sub-dependencies. (ie: Your package requires Dep A>=1.0 and Dep B.
  Dep B requires Dep A==0.9) There are many cases where Poetry and Pipenv will fail
  to resolve dependencies. Try it for yourself with a few
  random dependencies from pypi; there's a good chance you'll
  hit this problem using Poetry or Pipenv. Limitations: This will not work for
  some compiled dependencies, and attempting to package something using this will
  trigger an error.

Perhaps the biggest philosophical difference is that Pyflow abstracts over environments,
rather than expecting users to manage them.

My OS comes with Python, and Virtual environments are easy. What's the point of this?

Hopefully we're not replacing one problem with another.

Some people like the virtual-environment workflow - it requires only tools included
with Python, and uses few console commands to create,
and activate and environments. However, it may be tedious depending on workflow:
The commands may be long depending on the path of virtual envs and projects,
and it requires modifying the state of the terminal for each project, each time
you use it, which you may find inconvenient or inelegant.

I think we can do better. This is especially relevant for new Python users
who don't understand venvs, or are unaware of the hazards of working with a system Python.

Pipenv improves the workflow by automating environment use, and
allowing reproducable dependency graphs. Poetry improves upon Pipenv's API,
speed, and dependency resolution, as well as improving
the packaging and distributing process by using a consolidating project config. Both
are sensitive to the Python environment used to run them, and won't work
correctly if it's not as expected.

Conda addresses these problems elegantly, but maintains a separate repository
of binaries from PyPi. If all packages you need are available on Conda, it may
be the best solution. If not, it requires falling back to Pip, which means
using two separate package managers.

When building and deploying packages, a set of overlapping files are
traditionally used: setup.py, setup.cfg, requirements.txt and MANIFEST.in. We use
pyproject.toml as the single-source of project info required to build
and publish.

A thoroughly biased feature table

These tools have different scopes and purposes:

Use

• Optionally, create a pyproject.toml file in your project directory. Otherwise, this
  file will be created automatically. You may wish to use pyproject new to create a basic
  project folder (With a .gitignore, source directory etc), or pyproject init to populate
  info from requirements.txt or Pipfile. See
  PEP 518 for details.

Example contents:

[tool.pyflow]
py_version = "3.7"
name = "runcible"
version = "0.1.0"
authors = ["John Hackworth <[email protected]>"]


[tool.pyflow.dependencies]
numpy = "^1.16.4"
diffeqpy = "1.1.0"

The [tool.pyflow] section is used for metadata. The only required item in it is
py_version, unless
building and distributing a package. The [tool.pyflow.dependencies] section
contains all dependencies, and is an analog to requirements.txt. You can specify
developer dependencies in the [tool.pyflow.dev-dependencies] section. These
won't be packed or published, but will be installed locally. You can install these
from the cli using the --dev flag. Eg: pyflow install black --dev

You can specify extra dependencies, which will only be installed when passing
explicit flags to pyflow install, or when included in another project with the appropriate
flag enabled. Ie packages requiring this one can enable with
pip install -e etc.

[tool.pyflow.extras]
test = ["pytest", "nose"]
secure = ["crypto"]

If you'd like to an install a dependency with extras, use syntax like this:

[tool.pyflow.dependencies]
ipython = { version = "^7.7.0", extras = ["qtconsole"] }

To install from a local path instead of pypi, use syntax like this:

[tool.pyflow.dependencies]
# packagename = { path = "path-to-package"}
numpy = { path = "../numpy" }

To install from a git repo, use syntax like this:

[tool.pyflow.dependencies]
saturn = { git = "https://github.com/david-oconnor/saturn.git" }  # The trailing `.git` here is optional.

gitdependencies are currently experimental. If you run into problems with them,
please submit an issue.

To install a package that includes a . in its name, enclose the name in quotes.

For details on
how to specify dependencies in this Cargo.toml-inspired
semvar format,
reference
this guide.

We also attempt to parse metadata and dependencies from tool.poetry
sections of pyproject.toml, so there's no need to modify the format
if you're using that.

You can specify direct entry points to parts of your program using something like this in pyproject.toml:

[tool.pyflow.scripts]
name = "module:function"

Where you replace name, function, and module with the name to call your script with, the
function you wish to run, and the module it's in respectively. This is similar to specifying
scripts in setup.py for built packages. The key difference is that functions specified here
can be run at any time,
without having to build the package. Run with pyflow name to do this.

If you run pyflow package on on a package using this, the result will work like normal script
entry points for somone using the package, regardless of if they're using this tool.

What you can do

Managing dependencies:

• pyflow install - Install all packages in pyproject.toml, and remove ones not (recursively) specified.
  If an environment isn't already set up for the version specified in pyproject.toml, sets one up. If
  no version is specified, it asks you.
• pyflow install requests - If you specify one or more packages after install, those packages will
  be added to pyproject.toml and installed. You can use the --dev flag to install dev dependencies. eg:
  pyflow install black --dev.
• pyflow install numpy==1.16.4 matplotlib>=3.1 - Example with multiple dependencies, and specified versions
• pyflow uninstall requests - Remove one or more dependencies

Running REPL and Python files in the environment:

• pyflow - Run a Python REPL
• pyflow main.py - Run a python file
• pyflow ipython, pyflow black etc - Run a CLI tool like ipython, or a project function
  For the former, this must have been installed by a dependency; for the latter, it's specfied
  under [tool.pyflow], scripts
• pyflow script myscript.py - Run a one-off script, outside a project directory, with per-file
  package management

Building and publishing:

• pyflow package - Package for distribution (uses setuptools internally, and
  builds both source and wheel.)
• pyflow package --extras "test all" - Package for distribution with extra features enabled,
  as defined in pyproject.toml
• pyflow publish - Upload to PyPi (Repo specified in pyproject.toml. Uses Twine internally.)

Misc:

• pyflow list - Display all installed packages and console scripts
• pyflow new projname - Create a directory containing the basics for a project:
  a readme, pyproject.toml, .gitignore, and directory for code
• pyflow init - Create a pyproject.toml file in an existing project directory. Pull info from
  requirements.text and Pipfile as required.
• pyflow reset - Remove the environment, and uninstall all packages
• pyflow clear - Clear the cache, of downloaded dependencies, Python installations, or script-
  environments; it will ask you which ones you'd like to clear.
• pyflow -V - Get the current version of this tool
• pyflow help Get help, including a list of available commands

How installation and locking work

Running pyflow install syncs the project's installed dependencies with those
specified in pyproject.toml. It generates pyflow.lock, which on subsequent runs,
keeps dependencies each package a fixed version, as long as it continues to meet the constraints
specified in pyproject.toml. Adding a
package name via the CLI, eg pyflow install matplotlib simply adds that requirement before proceeding.
pyflow.lock isn't meant to be edited directly.

Each dependency listed in pyproject.toml is checked for a compatible match in pyflow.lock
If a constraint is met by something in the lock file,
the version we'll sync will match that listed in the lock file. If not met, a new entry
is added to the lock file, containing the highest version allowed by pyproject.toml.
Once complete, packages are installed and removed in order to exactly meet those listed
in the updated lock file.

This tool downloads and unpacks wheels from pypi, or builds
wheels from source if none are availabile. It verifies the integrity of the downloaded file
against that listed on pypi using SHA256, and the exact
versions used are stored in a lock file.

When a dependency is removed from pyproject.toml, it, and its subdependencies not
also required by other packages are removed from the __pypackages__ folder.

How dependencies are resolved

Compatible versions of dependencies are determined using info from
the PyPi Warehouse (available versions, and hash info),
and the pydeps database. We use pydeps, which is built specifically for this project,
due to inconsistent dependency information stored on pypi. A dependency graph is built
using this cached database. We attempt to use the newest compatible version of each package.

If all packages are either only specified once, or specified multiple times with the same
newest-compatible version, we're done resolving, and ready to install and sync.

If a package is included more than once with different newest-compatible versions, but one
of those newest-compatible is compatible with all requirements, we install that one. If not,
we search all versions to find one that's compatible.

If still unable to find a version of a package that satisfies all requirements, we install
multiple versions of it as-required, store them in separate directories, and modify
their parents' imports as required.

Note that it may be possible to resolve dependencies in cases not listed above, instead
of installing multiple versions. Ie we could try different combinations of top-level packages,
check for resolutions, then vary children as-required down the hierarchy. We don't do this because
it's slow, has no guarantee of success, and involves installing older versions of packages.

Not-yet-implemented

• Installing global CLI tools
• The lock file is missing some info like hashes
• Adding a dependency via the CLI with a specific version constraint, or extras.
• Dealing with multiple-installed-versions of a dependency that uses importlib
  or dynamic imports
• Install Python on Mac

Building and uploading your project to PyPi

In order to build and publish your project, additional info is needed in
pyproject.toml, that mimics what would be in setup.py. Example:

[tool.pyflow]
name = "everythingkiller"
py_version = "3.6"
version = "0.1.0"
authors = ["Fraa Erasmas <[email protected]>"]
description = "Small, but packs a punch!"
homepage = "https://everything.math"
repository = "https://github.com/raz/everythingkiller"
license = "MIT"
keywords = ["nanotech", "weapons"]
classifiers = [
    "Topic :: System :: Hardware",
    "Topic :: Scientific/Engineering :: Human Machine Interfaces",
]
python_requires = ">=3.6"
# If not included, will default to `test.pypi.org`
package_url = "https://upload.pypi.org/legacy/"


[tool.pyflow.scripts]
# name = "module:function"
activate = "jeejah:activate"


[tool.pyflow.dependencies]
numpy = "^1.16.4"
manimlib = "0.1.8"
ipython = {version = "^7.7.0", extras=["qtconsole"]}


[tool.pyflow.dev-dependencies]
black = "^18.0"

package_url is used to determine which package repository to upload to. If ommitted,
Pypi test is used (https://test.pypi.org/legacy/).

Building this from source

If you’d like to build from source, download and install Rust,
clone the repo, and in the repo directory, run cargo build --release.

Ie on linux or Mac:

curl https://sh.rustup.rs -sSf | sh
git clone https://github.com/david-oconnor/pyflow.git
cd pyflow
cargo build --release

Updating

• If installed via Scoop, run scoop update pyflow.
• If installed via Snap, run snap refresh pyflow.
• If installed via Cargo, run cargo install pyflow --force.
• If using an installer or
  deb, run the new version's installer or deb. If manually calling a binary, replace it.

Contributing

If you notice unexpected behavior or missing features, please post an issue,
or submit a PR. If you see unexpected
behavior, it's probably a bug! Post an issue listing the dependencies that did
not install correctly.

Why not to use this

• It's adding another tool to an already complex field.
• Most of the features here are already provided by a range of existing packages,
  like the ones in the table above.
• The field of contributers is expected to be small, since it's written in a different language.
• Dependency managers like Pipenv and Poetry work well enough for many cases,
  have dedicated dev teams, and large userbases.
• Conda in particular handles many things this does quite well.

Dependency cache repo:

• Github
  Example API calls: https://pydeps.herokuapp.com/requests,
  https://pydeps.herokuapp.com/requests/2.21.0.
  This pulls all top-level
  dependencies for the requests package, and the dependencies for version 2.21.0 respectively.
  There is also a POST API for pulling info on specified versions.
  The first time this command is run
  for a package/version combo, it may be slow. Subsequent calls, by anyone,
  should be fast. This is due to having to download and install each package
  on the server to properly determine dependencies, due to unreliable information
  on the pypi warehouse.

Python binary sources:

Repo binaries are downloaded from

• Windows: Python official Visual Studio package,
  by Steve Dower.
• Newer linux distros: Built on Ubuntu 18.04, using standard procedures.
• Older linux distros: Built on CentOS 7, using standard procedures.

Gotchas

• Make sure __pypackages__ is in your .gitignore file.

• You may need to set up IDEs to find packages in __pypackages__. If using PyCharm:
  Settings → Project → Project Interpreter → ⚙ → Show All... →
  (Select the interpreter, ie (projname)/__pypackages__/3.x/.venv/bin/python) →
  Click the folder-tree icon at the bottom of the pop-out window →
  Click the + icon at the bottom of the new pop-out window →
  Navigate to and select (projname)/__pypackages__/3.x/lib

• Make sure the pyflow binary is accessible in your path. If installing
  via a deb, msi, or Cargo, this should be set up automatically.

GitHub