While getting the documentation of a python repository right, I stumpled upon the issue that the package requirement shapely cannot be install on ReadTheDocs (RTD).
The log says:
Searching for shapely
Reading https://pypi.python.org/simple/shapely/
Best match: Shapely 1.6a1
Downloading https://pypi.python.org/packages/83/3b/99d5d0e266c3bf5f361c76ff046a539eaf96a4e9ca1beaef5121dcaf5cdc/Shapely-1.6a1.tar.gz#md5=a2efe87371d8186f5cbeadc0c153c546
Processing Shapely-1.6a1.tar.gz
Writing /tmp/easy_install-7zplo9iy/Shapely-1.6a1/setup.cfg
Running Shapely-1.6a1/setup.py -q bdist_egg --dist-dir /tmp/easy_install-7zplo9iy/Shapely-1.6a1/egg-dist-tmp-t5eb3ob8
Failed `CDLL(libgeos_c.so.1)`
Failed `CDLL(libgeos_c.so)`
error: Could not find library geos_c or load any of its variants ['libgeos_c.so.1', 'libgeos_c.so']
The actual problem is that libgeos is missing on RTD which is required to install shapely. Usually, you install libgeos by sudo apt-get install libgeos-dev. This does not work on RTD.
Does someone has any clue on that? In particular, I'm looking for a solution how to tell RTD to install additional system packages. I'm curious if this is possible at all.
RTD does not support installing additional c libs as stated in their FAQs, there's a discussion about this issue on git.
As written in the FAQ, you can only "mock out" these libs to avoid import errors.
Related
I was installing firebase-admin using pip on my raspberry pi 3b+ using the following command:
pip3 install firebase-admin
However it always ends with an error saying "Error building wheel for cryptography"
Here is the full error message:
/tmp/pip-build-env-k7qo7p54/overlay/lib/python3.7/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'cryptography.hazmat.bindings._rust' as data is deprecated, please list it in packages.
!!
############################
# Package would be ignored #
############################
Python recognizes 'cryptography.hazmat.bindings._rust' as an importable package,
but it is not listed in the `packages` configuration of setuptools.
'cryptography.hazmat.bindings._rust' has been automatically added to the distribution only
because it may contain data files, but this behavior is likely to change
in future versions of setuptools (and therefore is considered deprecated).
Please make sure that 'cryptography.hazmat.bindings._rust' is included as a package by using
the `packages` configuration field or the proper discovery methods
(for example by using `find_namespace_packages(...)`/`find_namespace:`
instead of `find_packages(...)`/`find:`).
You can read more about "package discovery" and "data files" on setuptools
documentation page.
!!
check.warn(importable)
=============================DEBUG ASSISTANCE=============================
If you are seeing a compilation error please try the following steps to
successfully install cryptography:
1) Upgrade to the latest pip and try again. This will fix errors for most
users. See: https://pip.pypa.io/en/stable/installing/#upgrading-pip
2) Read https://cryptography.io/en/latest/installation/ for specific
instructions for your platform.
3) Check our frequently asked questions for more information:
https://cryptography.io/en/latest/faq/
4) Ensure you have a recent Rust toolchain installed:
https://cryptography.io/en/latest/installation/#rust
Python: 3.7.3
platform: Linux-5.10.103-v7+-armv7l-with-debian-10.13
pip: n/a
setuptools: 67.0.0
setuptools_rust: 1.5.2
rustc: n/a
=============================DEBUG ASSISTANCE=============================
error: can't find Rust compiler
If you are using an outdated pip version, it is possible a prebuilt wheel is available for this package but pip is not able to install from it. Installing from the wheel would avoid the need for a Rust compiler.
To update pip, run:
pip install --upgrade pip
and then retry package installation.
If you did intend to build this package from source, try installing a Rust compiler from your system package manager and ensure it is on the PATH during installation. Alternatively, rustup (available at https://rustup.rs) is the recommended way to download and update the Rust compiler toolchain.
This package requires Rust >=1.48.0.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for cryptography
Failed to build cryptography
ERROR: Could not build wheels for cryptography, which is required to install pyproject.toml-based projects
I have tried different commands like:
pip3 install firebase-admin
or
python -m pip install firebase-admin
I have upgraded pip and tried again, but still it didn't work
I faced a similar problem long time ago and solved by installing openssl. Tried it this time, it didn't work
Also tried installing rust compiler and using it but it didn't work
I am using Raspbian OS Buster on my Raspberry Pi 3
I have tried fresh installs of the OS
Still the same problem occurs
I'm trying to install an exp17 on raspberry pi. For this, I need the library in python eyes17, but I am not successful when installing it. The error is as follows:
sudo apt install eyes17
Reading package list... Done
Building dependency tree... Done
Reading status information... Done
Do not can instal some pack. This may mean that
you asked for an impossible situation or, if you are using the distribution
unstable, that some required packages have not yet been created or are
have taken from «Incoming».
The following information may help resolve the situation:
The following packages have unmet dependencies:
eyes17 : Depends: python3-pyqt5.qtwebengine but not installable
Recommends: fonts-lohit-mlym but it won't install
Recommends: libreoffice but it won't install
E: The problems could not be corrected, you have held broken packets.
We have some issues deploying our GCP Dataflow pipeline. After some analysis, found that the latest version of apache-beam has some issues while installing. To replicate the issue I created a virtualenv and ran the below
pip install apache-beam==2.32.0
Below errors started to pop while installing the 'orjson' dependency,
Using cached orjson-3.6.3.tar.gz (548 kB)
Installing build dependencies ... done
Getting requirements to build wheel ... done
Preparing wheel metadata ... error
ERROR: Command errored out with exit status 1:
command: 'c:\temp\virtu\scripts\python.exe' 'c:\temp\virtu\lib\site-packages\pip\_vendor\pep517\in_process\_in_process.py' prepare_metadata_for_build_wheel 'C:\Users\prasasaw\AppData\Local\Temp\tmpmekx1jjj'
cwd: C:\Users\prasasaw\AppData\Local\Temp\pip-install-0yofoe55\orjson_62f1ca2674934a7f8c45b08e87e05a4b
Complete output (6 lines):
Cargo, the Rust package manager, is not installed or is not on PATH.
This package requires Rust and Cargo to compile extensions. Install it through
the system's package manager or via https://rustup.rs/
Note that the previous versions of Apache beam like 2.30.0 does not have the dependency on 'orjson' and it works just fine when you do
pip install apache-beam==2.30.0
I tried to install RUST but it failed for some 'pysam' dependency. So would like to know what is the correct way to install the 'orjson' dependency
I saw this GitHub issue for orjson installation but could not find much from it.
https://github.com/readthedocs/readthedocs.org/issues/7687
//Prasad.
I'm a bit late to the party, but I ran into this issue as well today. I solved it by switching to a 64-bit Python environment (I accidently installed 32-bit).
The orjson dependency was introduced in https://github.com/apache/beam/pull/14690/files. According to the comment: orjson, only available on Python 3.6 and above. You may want to check your python version.
According to the orjson docs, you need to upgrade pip to be above 20.3:
pip install --upgrade "pip>=20.3" # manylinux_x_y, universal2 wheel support
pip install --upgrade orjson
(docs)
Since I've upgraded my MacOs to Big Sur I'm having some trouble with my data science libraries. I was able to install the numpy and pandas (even though it took an unusual amount of time as stated at this topic). But can't manage to install the Matplotlib.
I've tried three things...
First with the default MacOs embedded Phyton 3.8.2 .
Reinstalled numpy, upgraded pip, but when I've tried to install Matplotlib. I've got the following error:
RuntimeError: Polyfit sanity test emitted a warning, most likely due to using a buggy Accelerate backend. If you compiled yourself, see site.cfg.example for information. Otherwise report this to the vendor that provided NumPy.
RankWarning: Polyfit may be poorly conditioned
Later, I've seen some suggestions here at stackoverflow for similar problems, one suggested to use homebrew, so I've installed Python 3.9.0 through brew. However, when I've tried to install Matplotlib, still got a giant error, when it was trying to install Pillow:
(.......) The headers or library files could not be found for jpeg,a required dependency when compiling
Pillow from source.Please see the install instructions at:
https://pillow.readthedocs.io/en/latest/installation.html
ERROR: Command errored out with exit status 1: /usr/local/opt/python#3.9/bin/python3.9 (...)
To finish (in almost despair) I've tried to create a virtual environment using venv (& Python 3.8.2) and was able to install NumPy successfully, however, I've got the following error trying to install Matplotlib:
(...... long line of code....) The package setup script has attempted to modify files on your system
that are not within the EasyInstall build area, and has been aborted.
This package cannot be safely installed by EasyInstall, and may not
support alternate installation locations even if you run its setup
script by hand. Please inform the package's author and the EasyInstall
maintainers to find out if a fix or workaround is available.
Really don't know what to do... Is it impossible to use Matplotlib with a clean install on BigSur? hahaha =(
I did it!!! I fix it!!
For this error :
RuntimeError: Polyfit sanity test emitted a warning, most likely due to using a buggy Accelerate backend.
If you compiled yourself, see site.cfg.example for information. Otherwise report this to the vendor that provided NumPy.
RankWarning: Polyfit may be poorly conditioned
I fixed installing an older numpy version.
pip3 install --force-reinstall numpy\<1.19
It did the job.
For the second error:
(.......) The headers or library files could not be found for jpeg,a required dependency when compiling
Pillow from source.Please see the install instructions at: https://pillow.readthedocs.io/en/latest/installation.html
ERROR: Command errored out with exit status 1: /usr/local/opt/python#3.9/bin/python3.9 (...)
It was the missing JPEG library. I do recommend you guys install homebrew.
Solved this problem with:
brew install libjpeg
your easy_install is outdated.so just update your setup_tools by excuting following command:
pip install setuptools==51
then
easy_install --version
make sure your easy_install's version is above 51.
I want to install scikit-learn but this library needs scipy and numpy too.
I tried to add them on the setup.py but I had an error with numpy. I handle to install scikit-learn and numpy from virtenv, but I cannot install scipy.
I tried pip install scipy. The procedure finished without any problem but there isn't any scipy folder on site-packages.
Also, I tried to add only scipy on setup.py. The same as above. The procedure finished without an error but scipy isn't there.
Any help?
I don't know openshift but maybe you can adapt the work that was done to install Atlas / numpy / scipy / scikit-learn on heroku:
https://github.com/dbrgn/heroku-buildpack-python-sklearn
In particular building scipy from source (using pip) requires a fortran compiler (e.g. gfortran) which is probably not installed on OpenShift by default.
Edit: a possible alternative would be to build binary packages for numpy, scipy and scikit-learn using the wheel format and then point the pip install command to an OpenShift blob store that hosts the pre-built packages.
To make sure that the wheel package will work on OpenShift you will have to build them on the same OS (I think it's Redhat 6).
Edit #2: the manylinux1 platform tag was designed to solve this issue and makes it possible to embed the third party libraries you need inside the wheel package. There should be official numpy and scipy wheel files for x86_64 linux. In the mean time you can build them your-self by following the instructions at: https://github.com/pypa/manylinux
You will probably find more info sshing into your app ad typing tail_all.