The nmslibR package is a wrapper of the Non-Metric Space Library (NMSLIB) python package. More details on the functionality of the nmslibR package can be found in the blog-post and in the package Documentation.
Reference:
https://github.com/nmslib/nmslib
https://github.com/nmslib/nmslib/blob/master/manual/latex/manual.pdf
All modules should be installed in the default python configuration (the configuration that the R-session displays as default), otherwise errors will occur during the nmslibR package installation (reticulate::py_discover_config() might be useful here).
The installation notes for Linux, Macintosh, Windows are based on Python 3.
Installation of the system requirements,
sudo apt-get install python3-pip sudo pip3 install --upgrade setuptools sudo pip3 install -U numpy sudo pip3 install --upgrade scipy sudo apt-get install libboost-all-dev libgsl0-dev libeigen3-dev sudo apt-get install cmake pip3 install --upgrade pybind11 sudo pip3 install nmslib
Installation of the system requirements,
dnf install python3-pip sudo pip3 install --upgrade setuptools sudo pip3 install -U numpy sudo pip3 install --upgrade scipy yum install python3-devel yum install boost-devel yum install gsl-devel yum install eigen3-devel pip3 install --upgrade pybind11 sudo pip3 install nmslib
Upgrade python to version 3 using,
Install the requirements,
sudo pip3 install --upgrade pip setuptools wheel sudo pip3 install -U numpy sudo pip3 install --upgrade scipy brew install boost brew install eigen brew install gsl brew install cmake brew link --overwrite cmake pip3 install --upgrade pybind11 sudo pip3 install nmslib
After a successful installation of the requirements the user should open an R session and give the following reticulate command to change to the relevant (brew-python) directory (otherwise the nmslibR package won't work properly),
reticulate::use_python('/usr/local/bin/python3')
and then,
reticulate::py_discover_config()
to validate that a user is in the python version where nmslibR is installed.
Windows OS (the instructions were tested with the version 1.0.0 of the R package, thus use with caution)First download of get-pip.py for windows
Update the Environment variables ( Control Panel >> System and Security >> System >> Advanced system settings >> Environment variables >> System variables >> Path >> Edit ) by adding ( for instance in case of python 2.7 ),
C:\Python36;C:\Python36\Scripts
Install the Build Tools for Visual Studio
Open the Command prompt (console) and install / upgrade the system requirements,
pip3 install --upgrade pip setuptools wheel pip3 install -U numpy pip3 install --upgrade scipy
Installation of cmake
First download cmake for Windows, win64-x64 Installer. Once the file is downloaded run the .exe file and during installation make sure to add CMake to the system PATH for all users.
Then install the nmslib library,
pip3 install --upgrade pybind11 pip3 install nmslib
To install the package from CRAN use,
install.packages('nmslibR')
and to download the latest version from Github use the install_github function of the remotes package,
remotes::install_github(repo = 'mlampros/nmslibR')
https://github.com/mlampros/nmslibR/issues
If you use the code of this repository in your paper or research please cite both nmslibR and the original articles / software https://CRAN.R-project.org/package=nmslibR/citation.html:
@Manual{,
title = {{nmslibR}: Non Metric Space (Approximate) Library in R},
author = {Lampros Mouselimis},
year = {2021},
note = {R package version 1.0.7},
url = {https://CRAN.R-project.org/package=nmslibR},
}
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