Distribute data files with Python package as optional dependency with `setuptools` - python

I am releasing an open-source Python package, built with setuptools. I want to include some example datasets that the end user can download & use to test out the package. They are rather large (>1GB) so I would like to make them available optionally.
One way would be to package them in a separate git LFS repository which the user may clone if they want to.
It seem it should also be possible to include these in the main repository using git LFS support & then include them in the installation only if the user has opted to include some extras, e.g. as pip install mypkg[datasets].
What is best practice for distributing larger sample datasets associated with a package?
Is it possible to use setuptools to include certain local files only if they are explicitly requested as extras? If so, how?

Related

Is it Possible to Install Part of Python Package Via Pip?

I have an internal utility library that is used by many projects. There is quite a bit of overlap between the projects in the code they pull from the utility library, but as the library grows, so does the amount of extra stuff any individual project gets that it won't be using. This wouldn't be an issue if the library consisted of only python, but the library also bundles in binaries.
Example-
psycopg2 is used in a handful of places within the utility library, but not all projects need db access. Because the development environment isn't the same as the production environment, the utility library also includes psycopg2 binaries for the prod environment.
This grows with openssl libraries, pandas, numpy, scipy, pyarrow, etc. The result is that a small, 50 line, single purpose script that may need db access is bundled into a 100mb+ deployment package.
So what I'd like to do is carve up the utility library into pieces where the projects down stream can choose which pieces to pull in, but keep the utility library code in one easy-to-manage place. That way, this small single purpose application can choose to import internal-util#core, internal-util#db and not include internal-util#numpy and internal-util#openssl
Is what i'm describing possible to do?
Not directly, to my best knowledge. pip installs a package fully, or not at all.
However, if you're careful in your package about how you import things that may require psycopg2 or someotherlargebinarything, you could use the extras_require feature and thus have the package's users choose which dependencies they want to pull in:
setup(
# ...
name='myawesometoolbelt',
extras_require={
'db': ['psycopg2'],
'math': ['numpy'],
},
)
and then, in your requirements.txt, or pip invocation,
myawesometoolbelt[db,math]
Have you tried looking at pip freeze > requirements.txt and pip install -r requirements.txt?
Once you generated your pip list via pip freeze, it is possible to edit which packages you want installed and which to omit from the requirements.txt generated.
You can then pip install -r requirements.txt the things you want back in.

requirements.txt vs setup.py

I started working with Python. I've added requirements.txt and setup.py to my project. But, I am still confused about the purpose of both files. I have read that setup.py is designed for redistributable things and that requirements.txt is designed for non-redistributable things. But I am not certain this is accurate.
How are those two files truly intended to be used?
requirements.txt:
This helps you to set up your development environment.
Programs like pip can be used to install all packages listed in the file in one fell swoop. After that you can start developing your python script. Especially useful if you plan to have others contribute to the development or use virtual environments.
This is how you use it:
pip install -r requirements.txt
It can be produced easily by pip itself:
pip freeze > requirements.txt
pip automatically tries to only add packages that are not installed by default, so the produced file is pretty minimal.
setup.py:
This helps you to create packages that you can redistribute.
The setup.py script is meant to install your package on the end user's system, not to prepare the development environment as pip install -r requirements.txt does. See this answer for more details on setup.py.
The dependencies of your project are listed in both files.
The short answer is that requirements.txt is for listing package requirements only. setup.py on the other hand is more like an installation script. If you don't plan on installing the python code, typically you would only need requirements.txt.
The file setup.py describes, in addition to the package dependencies, the set of files and modules that should be packaged (or compiled, in the case of native modules (i.e., written in C)), and metadata to add to the python package listings (e.g. package name, package version, package description, author, ...).
Because both files list dependencies, this can lead to a bit of duplication. Read below for details.
requirements.txt
This file lists python package requirements. It is a plain text file (optionally with comments) that lists the package dependencies of your python project (one per line). It does not describe the way in which your python package is installed. You would generally consume the requirements file with pip install -r requirements.txt.
The filename of the text file is arbitrary, but is often requirements.txt by convention. When exploring source code repositories of other python packages, you might stumble on other names, such as dev-dependencies.txt or dependencies-dev.txt. Those serve the same purpose as dependencies.txt but generally list additional dependencies of interest to developers of the particular package, namely for testing the source code (e.g. pytest, pylint, etc.) before release. Users of the package generally wouldn't need the entire set of developer dependencies to run the package.
If multiplerequirements-X.txt variants are present, then usually one will list runtime dependencies, and the other build-time, or test dependencies. Some projects also cascade their requirements file, i.e. when one requirements file includes another file (example). Doing so can reduce repetition.
setup.py
This is a python script which uses the setuptools module to define a python package (name, files included, package metadata, and installation). It will, like requirements.txt, also list runtime dependencies of the package. Setuptools is the de-facto way to build and install python packages, but it has its shortcomings, which over time have sprouted the development of new "meta-package managers", like pip. Example shortcomings of setuptools are its inability to install multiple versions of the same package, and lack of an uninstall command.
When a python user does pip install ./pkgdir_my_module (or pip install my-module), pip will run setup.py in the given directory (or module). Similarly, any module which has a setup.py can be pip-installed, e.g. by running pip install . from the same folder.
Do I really need both?
Short answer is no, but it's nice to have both. They achieve different purposes, but they can both be used to list your dependencies.
There is one trick you may consider to avoid duplicating your list of dependencies between requirements.txt and setup.py. If you have written a fully working setup.py for your package already, and your dependencies are mostly external, you could consider having a simple requirements.txt with only the following:
# requirements.txt
#
# installs dependencies from ./setup.py, and the package itself,
# in editable mode
-e .
# (the -e above is optional). you could also just install the package
# normally with just the line below (after uncommenting)
# .
The -e is a special pip install option which installs the given package in editable mode. When pip -r requirements.txt is run on this file, pip will install your dependencies via the list in ./setup.py. The editable option will place a symlink in your install directory (instead of an egg or archived copy). It allows developers to edit code in place from the repository without reinstalling.
You can also take advantage of what's called "setuptools extras" when you have both files in your package repository. You can define optional packages in setup.py under a custom category, and install those packages from just that category with pip:
# setup.py
from setuptools import setup
setup(
name="FOO"
...
extras_require = {
'dev': ['pylint'],
'build': ['requests']
}
...
)
and then, in the requirements file:
# install packages in the [build] category, from setup.py
# (path/to/mypkg is the directory where setup.py is)
-e path/to/mypkg[build]
This would keep all your dependency lists inside setup.py.
Note: You would normally execute pip and setup.py from a sandbox, such as those created with the program virtualenv. This will avoid installing python packages outside the context of your project's development environment.
For the sake of completeness, here is how I see it in 3 4 different angles.
Their design purposes are different
This is the precise description quoted from the official documentation (emphasis mine):
Whereas install_requires (in setup.py) defines the dependencies for a single project, Requirements Files are often used to define the requirements for a complete Python environment.
Whereas install_requires requirements are minimal, requirements files often contain an exhaustive listing of pinned versions for the purpose of achieving repeatable installations of a complete environment.
But it might still not easy to be understood, so in next section, there come 2 factual examples to demonstrate how the 2 approaches are supposed to be used, differently.
Their actual usages are therefore (supposed to be) different
If your project foo is going to be released as a standalone library (meaning, others would probably do import foo), then you (and your downstream users) would want to have a flexible declaration of dependency, so that your library would not (and it must not) be "picky" about what exact version of YOUR dependencies should be. So, typically, your setup.py would contain lines like this:
install_requires=[
'A>=1,<2',
'B>=2'
]
If you just want to somehow "document" or "pin" your EXACT current environment for your application bar, meaning, you or your users would like to use your application bar as-is, i.e. running python bar.py, you may want to freeze your environment so that it would always behave the same. In such case, your requirements file would look like this:
A==1.2.3
B==2.3.4
# It could even contain some dependencies NOT strickly required by your library
pylint==3.4.5
In reality, which one do I use?
If you are developing an application bar which will be used by python bar.py, even if that is "just script for fun", you are still recommended to use requirements.txt because, who knows, next week (which happens to be Christmas) you would receive a new computer as a gift, so you would need to setup your exact environment there again.
If you are developing a library foo which will be used by import foo, you have to prepare a setup.py. Period.
But you may still choose to also provide a requirements.txt at the same time, which can:
(a) either be in the A==1.2.3 style (as explained in #2 above);
(b) or just contain a magical single .
.
The latter is essentially using the conventional requirements.txt habit to document your installation step is pip install ., which means to "install the requirements based on setup.py" while without duplication. Personally I consider this last approach kind of blurs the line, adds to the confusion, but it is nonetheless a convenient way to explicitly opt out for dependency pinning when running in a CI environment. The trick was derived from an approach mentioned by Python packaging maintainer Donald in his blog post.
Different lower bounds.
Assuming there is an existing engine library with this history:
engine 1.1.0 Use steam
...
engine 1.2.0 Internal combustion is invented
engine 1.2.1 Fix engine leaking oil
engine 1.2.2 Fix engine overheat
engine 1.2.3 Fix occasional engine stalling
engine 2.0.0 Introducing nuclear reactor
You follow the above 3 criteria and correctly decided that your new library hybrid-engine would use a setup.py to declare its dependency engine>=1.2.0,<2, and then your separated application reliable-car would use requirements.txt to declare its dependency engine>=1.2.3,<2 (or you may want to just pin engine==1.2.3). As you see, your choice for their lower bound number are still subtly different, and neither of them uses the latest engine==2.0.0. And here is why.
hybrid-engine depends on engine>=1.2.0 because, the needed add_fuel() API was first introduced in engine 1.2.0, and that capability is the necessity of hybrid-engine, regardless of whether there might be some (minor) bugs inside such version and been fixed in subsequent versions 1.2.1, 1.2.2 and 1.2.3.
reliable-car depends on engine>=1.2.3 because that is the earliest version WITHOUT known issues, so far. Sure there are new capabilities in later versions, i.e. "nuclear reactor" introduced in engine 2.0.0, but they are not necessarily desirable for project reliable-car. (Your yet another new project time-machine would likely use engine>=2.0.0, but that is a different topic, though.)
TL;DR
requirements.txt lists concrete dependencies
setup.py lists abstract dependencies
A common misunderstanding with respect to dependency management in Python is whether you need to use a requirements.txt or setup.py file in order to handle dependencies.
The chances are you may have to use both in order to ensure that dependencies are handled appropriately in your Python project.
The requirements.txt file is supposed to list the concrete dependencies. In other words, it should list pinned dependencies (using the == specifier). This file will then be used in order to create a working virtual environment that will have all the dependencies installed, with the specified versions.
On the other hand, the setup.py file should list the abstract dependencies. This means that it should list the minimal dependencies for running the project. Apart from dependency management though, this file also serves the package distribution (say on PyPI).
For a more comprehensive read, you can read the article requirements.txt vs setup.py in Python on TDS.
Now going forward and as of PEP-517 and PEP-518, you may have to use a pyproject.toml in order to specify that you want to use setuptools as the build-tool and an additional setup.cfg file to specify the details.
For more details you can read the article setup.py vs setup.cfg in Python.

Does Python have a versioned dependency management solution?

Does Python have anything similar to apt or Maven where a single repository can house different versions of a library as opposed to just the current version?
For example: My site-packages folder does not group libraries by version. So instead of:
/Library/Python/2.7/site-packages/tox/1_2_3
We have:
/Library/Python/2.7/site-packages/tox
...which presumably contains the latest version of tox which may or may not be compatible with every piece of software on my system that wants to use tox. Is there a versioned approach to this? If not, is it possible to create one?
No, there is no way to install multiple versions of a package in the same environment, nor import multiple versions in the same process. The commonly accepted way to handle specific versions for separate projects is to set up a virtualenv for that project and install the specific requirements.

Is there a way to bundle multiple packages together with Python setuptools?

I have packages A and B, both have their own git repository, PyPI page, etc... Package A depends on package B, and by using the install_requires keyword I can get A to automatically download and install B.
But suppose I want to go a step further for my especially non-savvy users; I want to actually include package B within the tar/zip for package A, so no download is necessary (this also lets them potentially make any by-hand edits to package B's setup.cfg)
Is there a suggested (ideally automated) way to,
Include B in A when I call sdist for A
Tell setuptools that B is bundled with A for resolving the dependency (something like a local dependency_links)
Thanks!
This is called 'vendorizing' and no, there is no support for such an approach.
It is also a bad idea; you want to leave installation to the specialized tools, which not only manage dependencies but also what versions are installed. With tools like buildout or pip's requirements.txt format you can control very precisely what versions are being used.
By bundling a version of a dependency inside, you either force upon your users what version they get to use, or make it harder for such tools to ensure the used versions for a given installation are consistent. In addition, you are potentially wasting bandwidth and space; if other packages have also included the same requirements, you now have multiple copies. And if your dependency is updated to fix a critical security issue, you have to re-release any package that bundles it.
In the past, some packages did use vendorize packaging to include a dependency into their distribution. requests was a prime example; they stepped away from this approach because it complicated their release process. Every time there was a bug in one of the vendored packages they had to produce a new release to include the fix, for example.
If you do want to persist in including packages, you'll have to write your own support. I believe requests manually just added the vendorized packages to their repository; so they kept a static copy they updated from time to time. Alternatively, you could extend setup.py to download code when you are creating a distribution.

Distribute python helper application inside other product for developers and users

Primary product has several python scripts which help users and developers to work with primary application.
I want found way to distribute this scripts with dependencies in following way:
developers of product should just get a copy of repository, build it, and receive the workable solution. No root access, no downloads acceptable.
users of product should just get a copy of tar.gz, unpack it, and use. No root access, not downloads, no additional build steps acceptable.
users of product should just get a rpm/deb packages, install it, and use it. No additional downloads acceptable.
All python distribution way requires the run of additional scripts (it is denied for tar.gz), and then download dependencies often.
So, for my task I need python-fabric with all dependencies.
Right now script wrote with standard python libraries and very ugly, I want switch it to fabric.
How to right support all these requirements?
pip can install from local tarballs. You could enumerate them in a requirements file; then to install, run from within a virtualenv:
pip install -r requirements.txt
If there are C extensions among dependencies then your developers should have a compiler, python headers installed.
PyInstaller could help you bundle a binary distribution for users. If there are no C extensions; it is easy to create the archive with all dependencies ready to use by hand.
pkgme might help you to automate packaging for Ubuntu. You could also use stdeb to manually generate .deb files.
A meaningful setup.py describing dependencies, scripts entry points, etc is a prerequisite for all the above.

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