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Build dependencies:
Numpy
Cython
C++20 compiler
CMake
Runtime Dependencies
Numpy
Simply execute the following commands:
If you wish to use a custom version of the TileDB library and it is installed in a non-standard location, pass the path to setup.py
with the --tiledb=
flag. If you want to pass extra compiler/linker flags during the C++ extension compilation step use --cxxflags=
or --lflags=
.
To build against libtiledb
installed with conda, run:
To test your local installation, install optional dependencies, and then use pytest
:
If TileDB is installed in a non-standard location, you also need to make the dynamic linker aware of libtiledb
's location. Otherwise when importing the tiledb
module you will get an error that the built extension module cannot find libtiledb
's symbols:
For macOS the linker environment variable is DYLD_LIBRARY_PATH
.
If you are building the extension on Windows, first install a Python distribution such as Miniconda. You can then either build TileDB from source, or download the pre-built binaries.
Once you've installed Miniconda and TileDB, execute:
Note that if you built TileDB from source, then replace --tiledb=C:/path/to/TileDB
with --tiledb=C:/path/to/TileDB/dist
.
TileDB has been tested on Ubuntu Linux (v.20.04+), CentOS Linux (v.7+, with updated devtoolset compiler), macOS (v.11) and Windows (7+), but TileDB should work with any reasonably recent version of Ubuntu, CentOS, macOS or Windows with an installed compiler supporting C++20 (minimum tested version: GCC 10).
Once you build TileDB, visit the Usage page to see how to use TileDB in your programs.
TileDB requires a recent version of the CMake build system (and if needed vcpkg will update), and a compiler supporting C++20. For compression, TileDB relies on the following libraries:
When building from source, TileDB will locate these dependencies if already installed on your system, and locally install (not system-wide) any of them that are missing.
Backend support for S3 stores requires the AWS C++ SDK. Similarly to the required dependencies, the TileDB build system will install the SDK locally if it is not already present on your system (when the S3 build option is enabled).
TileDB also integrates well with the S3-compliant minio object store.
Backend support for the Hadoop File System HDFS is optional. TileDB relies on the C interface to HDFS provided by libhdfs to interact with the distributed filesystem.
During the build process the following environmental variables must be set:
JAVA_HOME
: Path to the location of the Java installation.
HADOOP_HOME
: Path to the location of the HDFS installation.
CLASSPATH
: The Hadoop jars must be added to the CLASSPATH
before interacting with libhdfs
.
Consult the HDFS user guide for installing, setting up, and using the distributed Hadoop file system.
HDFS is not currently supported on Windows.
If any dependencies are not found pre-installed on your system, the TileDB build process will download and build them automatically. Preferentially, any dependencies built by this process will be built as static libraries, which are statically linked against the TileDB shared library during the build. This simplifies usage of TileDB, as it results in a single binary object, e.g. libtiledb.so
that contains all of the dependencies. When installing TileDB, only the TileDB include files and the dynamic object libtiledb.so
will be copied into the installation prefix.
If TileDB is itself built as a static library (using the TILEDB_STATIC=ON
CMake variable or corresponding bootstrap
flag), the dependency static libraries must be installed alongside the resulting static libtiledb.a
object. This is because static libraries cannot be statically linked together into a single object (at least not in a portable way). Therefore, when installing TileDB all static dependency libraries will be copied into the installation prefix alongside libtiledb.a
.
The TileDB-R
package has is available on CRAN which provides binaries for Windows and macOS which can be installed via install.packages("tiledb")
. On Linux this result in installation from source. For all operating systems, one can also clone the repository and create a compressed tarfile to check and install as described in the R manual, or install directly from Github. We also describe installing releases from Github as shown below.
If the TileDB library is installed in a custom location, you need to pass the explicit path:
To build the latest development version of TileDB-R:
install_github
will delete all temporary files upon failure. To debug build failures, clone this repository locally and build a compressed tarfile to check and install, or run the commanddevtools::install("/path/to/TileDB-R")
.
If you are using the TileDB Conda package, you may need to explicitly add the conda path after activating the environment with conda activate tiledb
.
Instructions for setting up a RStudio development environment, building, and testing the TileDB-R package are located in the developer documentation wiki.
If you experience issues when installing devtools
, see these instructions. If the problem persists, you can install devtools
with conda by running:
To build the JNI extension you need to install:
Cmake (>=3.3)
JDK (>=1.8)
To build the library with the native library bundled in run:
This will create the TileDB JNI library build/tiledb_jni/libtiledbjni.dylib
. This will also download and build the TileDB core library if it is not found installed in a global system path, and place it in build/externals/install/lib/libtiledb.dylib
.
If you wish to build with a custom version of the TileDB core library, you can define the environment variable TILEDB_HOME
, e.g.:
env TILEDB_HOME=/path/to/TileDB/dist ./gradlew assemble
Note that if you build with a custom native TileDB library, it will only be bundled into the jar if the native static library was produced.
If TileDB is not globally installed in the system where the JNI library is being compiled, the TileDB core Library will be compiled. There are multiple properties which can be configured, including S3 and HDFS support.
See gradle.properties for all properties which can be set for building.
The properties can be set via the -P
option to gradlew
:
To run the tests use:
Begin by downloading a release tarball or by cloning the TileDB GitHub repo and checking out a release tag (where <version>
is the version you wish to use (e.g., 1.7.4
)
To configure TileDB, use the bootstrap
script:
The flags for the bootstrap script and the CMake equivalents are as follows:
To build after configuration, run the generated make script
To install to the configured prefix
Note that building against the installed shared library requires setting the library search path at build- or run-time, as documented in Usage. (system-wide installations requiring sudo
permissions may avoid this step by running sudo ldconfig
after installation).
Other helpful makefile targets:
Building TileDB on Windows has been tested to work with Microsoft Visual Studio 2019 and later. You can install the free Community Edition if you’d like the full IDE, or the Build Tools if you don’t need or want the IDE installed.
During the Visual Studio setup process, make sure the Git for Windows component is selected if you do not already have a working Git installation. Also be sure to select the CMake component if you do not have a working CMake installation.
In addition, you will need to install PowerShell (free).
To build and install TileDB, first open PowerShell and clone the TileDB repository and checking out a release tag (where <version>
is the version you wish to use (e.g., 1.7.4
)
Next, ensure the CMake binaries are in your path. If you installed Visual Studio, execute
Create a build directory and configure TileDB
The flags for the bootstrap script and the CMake equivalents are as follows:
To build after configuration
To install
Other helpful build targets:
If you build libtiledb
in Release
mode (resp. Debug
), make sure to build check
and examples
in Release
mode as well (resp. Debug
), otherwise the test and example executables will not run properly.
Should you experience any problem with the build, it is always a good idea to delete the build
and dist
directories in your TileDB repo path and restart the process, as cmake
’s cached state could present some unexpected problems.
Cygwin is a Unix like environment and command line interface for Microsoft Windows that provides a large collection of GNU / OpenSource tools (including the gcc toolchain) and supporting libraries that provide substantial POSIX API functionality. TileDB is able to compile from source in the Cygwin environment if Intel TBB is disabled and some TileDB dependencies are installed as Cygwin packages.
The following Cygwin packages need to be installed:
gcc / g++
git
cmake
make
lz4-devel
zlib-devel
libzstd-devel (+src)
bzip2 (+src)
openssl-devel
You can then clone and build TileDB using git / cmake / make:
This package requires the TileDB shared library to be installed and on the system path.
Currently the following platforms are supported:
Linux
macOS
To install the Go bindings:
To install package test dependencies:
Package tests can be run with:
TileDB-Go follows semantic versioning. TileDB-Go version 0.X.Y
is compatible with TileDB core version 1.X.Y
.
The following TileDB core library features are missing from the go api:
TileDB object management
The repository that contains the Docker files for TileDB:
Note that this contains only the TileDB core (C/C++) library and the Python bindings. The reason we exclude all the other bindings (e.g., Java) is to keep the Docker image size relatively small.
Download the prebuilt Docker images from Dockerhub:
Clone the TileDB-Docker
repo and build the images:
There is also a tiledb:dev
image if you'd like the latest and greatest (but potentially unstable) TileDB version.
To run:
If you'd like to build TileDB with optional components such as HDFS support, use the enable
build argument when building the images, e.g.:
Build dependencies:
.NET 7 SDK
.NET 7 is needed only to build from source; the compiled binaries support at minimum .NET 5.
As a final build step, we can verify our installation by running unit tests
After the TileDB.CSharp project is built and tests are passing we can make a new .NET project and add a reference to TileDB.CSharp, granting us access to the TileDB-CSharp API.
Resulting in TileDB-Project/ConsoleApp/ConsoleApp.csproj
generating the following configuration:
Install the Docker daemon from
Building TileDB-CSharp from source can be done using the following commands in a .
To help get started using TileDB-CSharp we can run the project:
The TileDB.CSharp
project uses . You can during development provide your own native library for purposes like testing. To do that, you have to go to the Directory.Packages.props
file of your repository, and set the LocalLibraryFile
property to the path of your local native binary. This will bypass the standard acquisition mechanism and simply copy the libeary to your project's output directory.
The shipped TileDB.CSharp
NuGet package supports only the official native binaries at the moment. Please or if you want to use TileDB from C# with custom native binaries.
Flag
Description
CMake Equivalent
--help
Prints command line flag options
N/A
--prefix=PREFIX
Install files in tree rooted at PREFIX
(defaults to TileDB/dist
)
CMAKE_INSTALL_PREFIX=<PREFIX>
--dependency=DIRs
Colon separated list to binary dependencies
CMAKE_PREFIX_PATH=<DIRs>
--enable-debug
Enable debug build
CMAKE_BUILD_TYPE=Debug
--enable-coverage
Enable build with code coverage support
CMAKE_BUILD_TYPE=Coverage
--enable-verbose
Enable verbose status messages
TILEDB_VERBOSE=ON
--enable-hdfs
Enables building with HDFS storage backend support
TILEDB_HDFS=ON
--enable-s3
Enables building with S3 storage backend support
TILEDB_S3=ON
--enable-azure
Enables building with Azure Blob Storage backend support
TILEDB_AZURE=ON
--enable-gcs
Enables building with Google Cloud Storage backend support
TILEDB_GCS=ON
--enable-serialization
Enables building with Serialization and TileDB Cloud support
TILEDB_SERIALIZATION=ON
--enable-static-tiledb
Enables building TileDB as a static library
TILEDB_STATIC=ON
--disable-werror
Disables building with the -Werror
flag
TILEDB_WERROR=OFF
--disable-cpp-api
Disables building the TileDB C++ API
TILEDB_CPP_API=OFF
--disable-stats
Disables internal TileDB statistics
TILEDB_STATS=OFF
--disable-tests
Disables building the TileDB test suite
TILEDB_TESTS=OFF
Flag
Description
CMake Equivalent
-?
Display a usage message.
n/a
-Prefix
Install files in tree rooted at PREFIX
(defaults to TileDB\dist
)
CMAKE_INSTALL_PREFIX=<PREFIX>
-Dependency
Semicolon separated list to binary dependencies.
CMAKE_PREFIX_PATH=<DIRs>
-CMakeGenerator
Optionally specify the CMake generator string, e.g. “Visual Studio 15 2017”. Check ‘cmake –help’ for a list of supported generators.
-G <generator>
-EnableDebug
Enable debug build
CMAKE_BUILD_TYPE=Debug
-EnableVerbose
Enable verbose status messages.
TILEDB_VERBOSE=ON
-EnableS3
Enables building with the S3 storage backend.
TILEDB_S3=ON
-EnableGcs
Enables building the Google Cloud Storage backend
TILEDB_GCS=ON
-EnableSerialization
Enabled serialization and TileDB Cloud support
TILEDB_SERIALZIATION=ON
-EnableStaticTileDB
Enables building TileDB as a static library
TILEDB_STATIC=ON
-DisableWerror
Disables building with the /WX
flag
TILEDB_WERROR=OFF
-DisableCppApi
Disables building the TileDB C++ API
TILEDB_CPP_API=OFF
-DisableTBB
Disables use of TBB for parallelization
TILEDB_TBB=OFF
-DisableStats
Disables internal TileDB statistics
TILEDB_STATS=OFF
-DisableTests
Disables building the TileDB test suite
TILEDB_TESTS=OFF