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https://github.com/slsdetectorgroup/slsDetectorPackage.git
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documentation about installation and python getting started (#582)
* updated installation documention, added Python find virtual env flag
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Dhanya Thattil
GitHub
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@ -13,54 +13,143 @@
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Before building from source make sure that you have the
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:doc:`dependencies <../dependencies>` installed. If installing using conda, conda will
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manage the dependencies.
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manage the dependencies. Avoid also installing packages with pip.
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.. _Installation:
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Installation
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==============================================
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===============
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.. _build from source using cmake:
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Install binaries using conda
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-------------------------------
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Build from source using CMake
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---------------------------------
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Conda is not only useful to manage python environments but can also
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be used as a user space package manager. Dates in the tag (for eg. 2020.07.23.dev0)
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are from the developer branch. Please use released tags for stability.
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Note that on some systems, for example RH7, cmake v3+ is available under the cmake3 alias.
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It is also required to clone with the option --recursive to get the pybind11 submodules used
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in the package. (Only needed for older versions than v7.0.0)
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We have three different packages available:
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* **slsdetlib** shared libraries and command line utilities
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* **slsdetgui** GUI
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* **slsdet** Python bindings
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.. code-block:: bash
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#Add channels for dependencies and our library
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conda config --add channels conda-forge
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conda config --add channels slsdetectorgroup
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conda config --set channel_priority strict
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#create and activate an environment with our library
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#replace 6.1.1 with the required tag
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conda create -n myenv slsdetlib=6.1.1
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conda activate myenv
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#ready to use
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sls_detector_get exptime
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etc ...
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.. code-block:: bash
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#List available versions
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conda search slsdet
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Build from source
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-------------------
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1. Download Source Code from github
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. code-block:: bash
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git clone https://github.com/slsdetectorgroup/slsDetectorPackage.git --branch 6.1.1
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| **Pybind**
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| v7.0.0+:
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| pybind11 packaged into 'libs/pybind'. No longer a submodule. No need for "recursive" or "submodule update".
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| Older versions:
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| pybind11 is a submodule> Must be cloned using "recursive" and updated when switching between versions using the following commands.
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.. code-block:: bash
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# clone using recursive to get pybind11 submodule
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git clone --recursive https://github.com/slsdetectorgroup/slsDetectorPackage.git
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# if older than v7.0.0 and using python, update pybind11 submodules
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# update submodule when switching between releases
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cd slsDetectorPackage
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git submodule update --init
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mkdir build && cd build
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cmake ../slsDetectorPackage -DCMAKE_INSTALL_PREFIX=/your/install/path
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make -j12 #or whatever number of cores you are using to build
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make install
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The easiest way to configure options is to use the ccmake utility.
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.. _build from source using cmake:
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2. Build from Source
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^^^^^^^^^^^^^^^^^^^^^^^^^^
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Build using CMake
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^^^^^^^^^^^^^^^^^^^^^^
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.. code-block:: bash
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#from the build directory
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ccmake .
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# outside slsDetecorPackage folder
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mkdir build && cd build
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# configure & generate Makefiles using cmake
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# by listing all your options (alternately use ccmake described below)
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# cmake3 for some systems
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cmake ../slsDetectorPackage -DCMAKE_INSTALL_PREFIX=/your/install/path
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# compiled to the build/bin directory
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make -j12 #or whatever number of cores you are using to build
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# install headers and libs in /your/install/path directory
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make install
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Build using cmk.sh script
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-------------------------
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These are mainly aimed at those not familiar with using ccmake and cmake.
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Instead of the cmake command, one can use ccmake to get a list of options to configure and generate Makefiles at ease.
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.. code-block:: bash
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# ccmake3 for some systems
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ccmake ..
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# choose the options
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# first press [c] - configure
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# then press [g] - generate
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=============================== ===========================================
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Example cmake options Comment
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=============================== ===========================================
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-DSLS_USE_PYTHON=ON Python
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-DPython_FIND_VIRTUALENV=ONLY Python from only the conda environment
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-DZeroMQ_HINT=/usr/lib64 System zmq instead of conda
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-DSLS_USE_GUI=ON GUI
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=============================== ===========================================
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Build using in-build cmk.sh script
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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.. code-block:: bash
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The binaries are generated in slsDetectorPackage/build/bin directory.
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Usage: ./cmk.sh [-b] [-c] [-d <HDF5 directory>] [e] [g] [-h] [i] [-j <Number of threads>] [-k <CMake command>] [-l <Install directory>] [m] [n] [-p] [-q <Zmq hint directory>] [r] [s] [t] [u] [z]
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Usage: ./cmk.sh [-b] [-c] [-d <HDF5 directory>] [e] [g] [-h] [i] [-j <Number of threads>]
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[-k <CMake command>] [-l <Install directory>] [m] [n] [-p] [-q <Zmq hint directory>]
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[r] [s] [t] [u] [z]
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-[no option]: only make
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-b: Builds/Rebuilds CMake files normal mode
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-c: Clean
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@ -89,45 +178,15 @@ These are mainly aimed at those not familiar with using ccmake and cmake.
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# new build and compile in parallel:
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./cmk.sh -bj5
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# new build, python and compile in parallel:
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./cmk.sh -bpj5
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Install binaries using conda
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--------------------------------
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Conda is not only useful to manage python environments but can also
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be used as a user space package manager.
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We have three different packages available:
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* **slsdetlib**, shared libraries and command line utilities
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* **slsdetgui**, GUI
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* **slsdet**, Python bindings
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#To use the system zmq (/usr/lib64) instead of conda
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./cmk.sh -bj5 -q /usr/lib64
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.. code-block:: bash
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#Add channels for dependencies and our library
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conda config --add channels conda-forge
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conda config --add channels slsdetectorgroup
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conda config --set channel_priority strict
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#cerate an environment with our library, then activate
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#replace 2020.07.20.dev0 with the required tag
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conda create -n myenv slsdetlib=2020.07.23.dev0
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conda activate myenv
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#ready to use
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sls_detector_get exptime
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etc ...
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.. code-block:: bash
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#List available versions
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conda search slsdet
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Build from source on old distributions
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-----------------------------------------
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Build on old distributions
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^^^^^^^^^^^^^^^^^^^^^^^^^^^^
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If your linux distribution doesn't come with a C++11 compiler (gcc>4.8) then
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it's possible to install a newer gcc using conda and build the slsDetectorPackage
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@ -138,6 +197,9 @@ using this compiler
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#Create an environment with the dependencies
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conda create -n myenv gxx_linux-64 cmake zmq
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conda activate myenv
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# outside slsDetecorPackage folder
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mkdir build && cd build
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cmake ../slsDetectorPackage -DCMAKE_PREFIX_PATH=$CONDA_PREFIX
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make -j12
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@ -14,25 +14,10 @@ also for non Python packages but there are also other alternatives like, pyenv.
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Using something like conda also allows you to quickly switch beteen different Python
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environments.
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.. warning ::
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.. note ::
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If you use conda avoid also installing packages with pip.
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---------------------
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PYBIND11
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---------------------
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**v7.0.0 of slsDetectorPackage:**
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#. It is packaged into libs (pybind)
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#. No longer a submodule of the slsDetectorPackage
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**Older than v7.0.0:**
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#. Submodule in libs (pybind11)
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#. Switching between versions will require an update of the submodule as well using:
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.. code-block:: bash
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git submodule update --init #from the main slsDetectorPackage folder
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Ensure that the python lib compiled is for the expected python version.
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For example, build/bin/_slsdet.cpython-39-x86_64-linux-gnu.so for Python v3.9.x
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---------------------
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PYTHONPATH
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@ -160,7 +160,7 @@ When handling callbacks, the control should be returned as soon as possible, to
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**Example**
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* `main cpp file <https://github.com/slsdetectorgroup/api-examples/blob/master/e4-receiver_callbacks.cpp>`_
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* `cmake file <https://github.com/slsdetectorgroup/api-examples/blob/master/CMakeLists.txt>`_.
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* how to install the slsDetectorPackage is provided :ref:`here <build from source using cmake>`.
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* how to install the slsDetectorPackage with cmake is provided :ref:`here <build from source using cmake>`.
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* compile the example **e4-rxr** by:
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.. code-block:: bash
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