release notes for 9.2.0

updating to 9.1.1
update 9.1.0 release notes date
2025-06-17 23:37:14 +02:00 · 2025-06-02 15:23:57 +02:00 · 2025-05-22 11:15:11 +02:00 · 2025-03-28 11:39:51 +01:00 · 2025-03-26 08:44:13 +01:00 · 2024-11-26 15:51:46 +01:00
1702 changed files with 61249 additions and 424706 deletions
--- a/.clang-format
+++ b/.clang-format
@ -1,7 +0,0 @@
 BasedOnStyle: LLVM
 IndentWidth: 4
 UseTab: Never
 ColumnLimit: 80
 AlignConsecutiveAssignments: false 
 AlignConsecutiveMacros: true
--- a/.clang-tidy
+++ b/.clang-tidy
@ -1,42 +0,0 @@
 ---
 Checks:          '*, 
                    -altera-*,
                    -android-cloexec-fopen,
                    -cppcoreguidelines-pro-bounds-array-to-pointer-decay, 
                    -cppcoreguidelines-pro-bounds-pointer-arithmetic, 
                    -fuchsia*,
                    -readability-else-after-return,
                    -readability-avoid-const-params-in-decls,
                    -readability-identifier-length,
                    -cppcoreguidelines-pro-bounds-constant-array-index,
                    -cppcoreguidelines-pro-type-reinterpret-cast,
                    -llvm-header-guard,
                    -modernize-use-nodiscard,
                    -misc-non-private-member-variables-in-classes,
                    -readability-static-accessed-through-instance,
                    -readability-braces-around-statements,
                    -readability-isolate-declaration,
                    -readability-implicit-bool-conversion,
                    -readability-identifier-length,
                    -readability-identifier-naming,
                    -hicpp-signed-bitwise,
                    -hicpp-no-array-decay, 
                    -hicpp-braces-around-statements,
                    -google-runtime-references, 
                    -google-readability-todo, 
                    -google-readability-braces-around-statements,
                    -modernize-use-trailing-return-type,
                    -llvmlibc-*'
 HeaderFilterRegex: \.h
 AnalyzeTemporaryDtors: false
 FormatStyle:     none
 CheckOptions:
  - { key: readability-identifier-naming.NamespaceCase,       value: lower_case }
 # - { key: readability-identifier-naming.FunctionCase,        value: lower_case }
  - { key: readability-identifier-naming.ClassCase,           value: CamelCase  }
 # - { key: readability-identifier-naming.MethodCase,          value: CamelCase  }
 # - { key: readability-identifier-naming.StructCase,          value: CamelCase  }
 # - { key: readability-identifier-naming.VariableCase,        value: lower_case }
  - { key: readability-identifier-naming.GlobalConstantCase,  value: UPPER_CASE }
 ...
--- a/.gitea/workflows/rh8-native.yml
+++ b/.gitea/workflows/rh8-native.yml
@ -1,29 +0,0 @@
 name: Build on RHEL8
 on:
  push:
  workflow_dispatch:
 permissions:
  contents: read
 jobs:
  build:
    runs-on: "ubuntu-latest"
    container:
      image: gitea.psi.ch/detectors/rhel8-detectors-dev
    steps:
      - name: Clone repository
        run: |
          echo Cloning ${{ github.ref_name }}
          git clone https://${{secrets.GITHUB_TOKEN}}@gitea.psi.ch/${{ github.repository }}.git --branch=${{ github.ref_name }} .
      - name: Build library 
        run: |
            mkdir build && cd build
            cmake .. -DSLS_USE_PYTHON=ON -DSLS_USE_TESTS=ON 
            make -j 2 
      - name: C++ unit tests
        working-directory: ${{gitea.workspace}}/build
        run: ctest
--- a/.gitea/workflows/rh9-native.yml
+++ b/.gitea/workflows/rh9-native.yml
@ -1,27 +0,0 @@
 name: Build on RHEL9
 on:
  push:
  workflow_dispatch:
 permissions:
  contents: read
 jobs:
  build:
    runs-on: "ubuntu-latest"
    container:
      image: gitea.psi.ch/detectors/rhel9-detectors-dev
    steps:
      - uses: actions/checkout@v4
      - name: Build library 
        run: |
            mkdir build && cd build
            cmake .. -DSLS_USE_PYTHON=ON -DSLS_USE_TESTS=ON
            make -j 2 
      - name: C++ unit tests
        working-directory: ${{gitea.workspace}}/build
        run: ctest
--- a/.github/ISSUE_TEMPLATE/bug_report.md
+++ b/.github/ISSUE_TEMPLATE/bug_report.md
@ -1,42 +0,0 @@
 ---
 name: Bug Report
 about: Create a report to help us improve 
 title: New Bug Report
 labels: action - Bug, priority - Unclassified, status - Pending
 template: bug_report.md
 ---
 <!-- Preview changes before submitting -->
 <!-- Please fill out everything with an *, as this report will be discarded otherwise -->
 <!-- This is a comment, the syntax is a bit different from c++ or bash -->
 ##### *Distribution: 
 <!-- RHEL7, RHEL6, Fedora, etc -->
 ##### *Detector type: 
 <!-- If applicable, Eiger, Jungfrau, Mythen3, Gotthard2, Gotthard, Moench, ChipTestBoard -->
 ##### *Software Package Version: 
 <!-- developer, 4.2.0, 4.1.1, etc -->
 ##### Priority:
 <!-- Super Low, Low, Medium, High, Super High -->
 ##### *Describe the bug
 <!--  A clear and concise description of what the bug is -->
 ##### Expected behavior
 <!--  A clear and concise description of what you expected to happen. -->
 ##### To Reproduce
 <!--  Steps to reproduce the behavior: -->
 <!--  1. Go to '...' -->
 <!--  2. Click on '....' -->
 <!--  3. Scroll down to '....' -->
 <!--  4. See error -->
 ##### Screenshots
 <!--  If applicable, add screenshots to help explain your problem. -->
 ##### Additional context
 <!--  Add any other context about the problem here. -->
--- a/.github/ISSUE_TEMPLATE/change_request.md
+++ b/.github/ISSUE_TEMPLATE/change_request.md
@ -1,28 +0,0 @@
 ---
 name: Change Request
 about: Suggest a change to an existing feature
 title: New Change Request
 labels: action - Change, priority - Unclassified, status - Pending
 template: change_request.md
 ---
 <!-- Preview changes before submitting -->
 <!-- Please fill out everything with an *, as this report will be discarded otherwise -->
 <!-- This is a comment, the syntax is a bit different from c++ or bash -->
 ##### *Detector type: 
 <!-- If applicable, Eiger, Jungfrau, Mythen3, Gotthard2, Gotthard, Moench, ChipTestBoard -->
 ##### *Software Package Version: 
 <!-- developer, 4.2.0, 4.1.1, etc -->
 ##### Priority:
 <!-- Super Low, Low, Medium, High, Super High -->
 ##### *State the change request:
 <!--  A clear and concise description of what the change is to an existing feature -->
 ##### Is your change request related to a problem. Please describe:
 <!-- A clear and concise description of what the problem is. Ex. I'm always frustrated when [...] -->
 ##### Additional context:
 <!--  Add any other context about the feature here -->
--- a/.github/ISSUE_TEMPLATE/config.yml
+++ b/.github/ISSUE_TEMPLATE/config.yml
@ -1 +0,0 @@
 blank_issues_enabled: false
--- a/.github/ISSUE_TEMPLATE/feature_request.md
+++ b/.github/ISSUE_TEMPLATE/feature_request.md
@ -1,34 +0,0 @@
 ---
 name: Feature Request
 about: Suggest a feature, documentation or submit a question
 title: New Feature Request
 labels: action - Enhancement, priority - Unclassified, status - Pending
 template: feature_request.md
 ---
 <!-- Preview changes before submitting -->
 <!-- Please fill out everything with an *, as this report will be discarded otherwise -->
 <!-- This is a comment, the syntax is a bit different from c++ or bash -->
 ##### *Detector type: 
 <!-- If applicable, Eiger, Jungfrau, Mythen3, Gotthard2, Gotthard, Moench, ChipTestBoard -->
 ##### *Software Package Version: 
 <!-- developer, 4.2.0, 4.1.1, etc -->
 ##### Priority:
 <!-- Super Low, Low, Medium, High, Super High -->
 ##### *State the feature:
 <!--  A clear and concise description of what the feature is -->
 ##### Is your feature request related to a problem. Please describe:
 <!-- A clear and concise description of what the problem is. Ex. I'm always frustrated when [...] -->
 ##### Describe the solution you'd like:
 <!-- A clear and concise description of what you want to happen -->
 ##### Describe alternatives you've considered:
 <!-- A clear and concise description of any alternative solutions or features you've considered -->
 ##### Additional context:
 <!--  Add any other context about the feature here -->
--- a/.github/workflows/cmake.yaml
+++ b/.github/workflows/cmake.yaml
@ -1,47 +0,0 @@
 name: Native CMake Build
 on: [push, pull_request]
 env:
  # Customize the CMake build type here (Release, Debug, RelWithDebInfo, etc.)
  BUILD_TYPE: Debug
 jobs:
  build:
    # The CMake configure and build commands are platform agnostic and should work equally well on Windows or Mac.
    # You can convert this to a matrix build if you need cross-platform coverage.
    # See: https://docs.github.com/en/free-pro-team@latest/actions/learn-github-actions/managing-complex-workflows#using-a-build-matrix
    runs-on: ubuntu-latest
    name: Configure and build using cmake
    steps:
      - uses: actions/checkout@v4
      - uses: actions/setup-python@v5
        with:
          python-version: 3.12
          cache: 'pip'
      - run: pip install pytest numpy
      - uses: awalsh128/cache-apt-pkgs-action@latest
        with:
          packages: libhdf5-dev qtbase5-dev qt5-qmake libqt5svg5-dev libpng-dev libtiff-dev
          version: 1.0
      - name: Configure CMake
        # Configure CMake in a 'build' subdirectory. `CMAKE_BUILD_TYPE` is only required if you are using a single-configuration generator such as make.
        # See https://cmake.org/cmake/help/latest/variable/CMAKE_BUILD_TYPE.html?highlight=cmake_build_type
        run: cmake -B ${{github.workspace}}/build -DCMAKE_BUILD_TYPE=${{env.BUILD_TYPE}} -DSLS_USE_TESTS=ON -DSLS_USE_HDF5=ON -DSLS_USE_GUI=ON -DSLS_USE_MOENCH=ON -DSLS_USE_PYTHON=ON
      - name: Build
        # Build your program with the given configuration
        run: cmake --build ${{github.workspace}}/build -j4 --config ${{env.BUILD_TYPE}}
      - name: C++ unit tests
        working-directory: ${{github.workspace}}/build
        run: ctest -C ${{env.BUILD_TYPE}} -j1
      - name: Python unit tests
        working-directory: ${{github.workspace}}/build/bin
        run: |
          python -m pytest ${{github.workspace}}/python/tests
--- a/.github/workflows/conda_library.yaml
+++ b/.github/workflows/conda_library.yaml
@ -1,42 +0,0 @@
 name: Build slsdetlib
 on: [pull_request]
 jobs:
  build:
    strategy:
      fail-fast: false
      matrix:
        platform: [ubuntu-latest, ] # macos-12, windows-2019]
        python-version: ["3.12",]
    runs-on: ${{ matrix.platform }}
    # The setup-miniconda action needs this to activate miniconda
    defaults:
      run:
        shell: "bash -l {0}"
    steps:
      - uses: actions/checkout@v4
      - name: Get conda
        uses: conda-incubator/setup-miniconda@v3.0.4
        with:
          python-version: ${{ matrix.python-version }}
          channels: conda-forge
      - name: Prepare
        run: conda install conda-build conda-verify pytest anaconda-client
      - name: Disable upload
        run: conda config --set anaconda_upload no
      - name: Build
        run: conda build conda-recipes/main-library --output-folder build_output
      - name: Upload all Conda packages
        uses: actions/upload-artifact@v4
        with:
          name: conda-packages
          path: build_output/**  # Uploads all packages
--- a/.github/workflows/conda_python.yaml
+++ b/.github/workflows/conda_python.yaml
@ -1,42 +0,0 @@
 name: slsdet
 on: [pull_request]
 jobs:
  build:
    strategy:
      fail-fast: false
      matrix:
        platform: [ubuntu-latest, ] # macos-12, windows-2019]
        python-version: ["3.12",]
    runs-on: ${{ matrix.platform }}
    # The setup-miniconda action needs this to activate miniconda
    defaults:
      run:
        shell: "bash -l {0}"
    steps:
      - uses: actions/checkout@v4
      - name: Get conda
        uses: conda-incubator/setup-miniconda@v3.0.4
        with:
          python-version: ${{ matrix.python-version }}
          channels: conda-forge
      - name: Prepare
        run: conda install conda-build conda-verify pytest anaconda-client
      - name: Disable upload
        run: conda config --set anaconda_upload no
      - name: Build
        run: conda build conda-recipes/python-client --output-folder build_output 
      - name: Upload all Conda packages
        uses: actions/upload-artifact@v4
        with:
          name: conda-packages
          path: build_output/**  # Uploads all packages
--- a/.gitignore
+++ b/.gitignore
@ -1,23 +1,8 @@
 .cproject
 .project
 bin/
 .settings
 *.aux
 *.log
 *.out
 *.toc
 *.o
 *.so
 .*
 build/
 RELEASE.txt
 Testing/
 ctbDict.cpp
 ctbDict.h
 *.pyc
 */__pycache__/*
--- a/.gitmodules
+++ b/.gitmodules
--- a/.travis.yml
+++ b/.travis.yml
@ -1,38 +0,0 @@
 sudo: false
 language: cpp
 os: linux
 dist: bionic
 install:
  - sudo apt-get update
  - ldd --version
  - wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh;
  - bash miniconda.sh -b -p $HOME/miniconda
  - source "$HOME/miniconda/etc/profile.d/conda.sh"
  - rm -f miniconda.sh
  - hash -r
  - conda config --set always_yes yes --set changeps1 no
  - conda config --add channels conda-forge
  - conda config --add channels slsdetectorgroup
  - conda update -q conda
  - conda info -a
  # Useful for debugging any issues with conda
  - conda create -q -n testenv conda-build anaconda-client conda-verify
  - conda activate testenv
  - conda-build .
 script:
 - CTEST_OUTPUT_ON_FAILURE=1 ctest -j 2
 deploy:
  provider: script
  script: find $HOME/miniconda/envs/testenv/conda-bld/${TRAVIS_OS_NAME}-64 -name "*.tar.bz2" -exec anaconda -v --show-traceback -t $CONDA_TOKEN upload --force {} \;
  on:
    branch: developer
    tags: true
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@ -1,393 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 cmake_minimum_required(VERSION 3.15)
 project(slsDetectorPackage)
 # Read VERSION file into project version
 set(VERSION_FILE "${CMAKE_CURRENT_SOURCE_DIR}/VERSION")
 file(READ "${VERSION_FILE}" VERSION_CONTENT)
 string(STRIP "${VERSION_CONTENT}" PROJECT_VERSION_STRING)
 set(PROJECT_VERSION ${PROJECT_VERSION_STRING})
 # Pass it to the compiler
 add_compile_definitions(SLS_DET_VERSION="${PROJECT_VERSION}")
 set(CMAKE_CXX_FLAGS_RELEASE "-O3 -DNDEBUG")
 cmake_policy(SET CMP0074 NEW)
 if (${CMAKE_VERSION} VERSION_GREATER "3.24")
    cmake_policy(SET CMP0135 NEW) #Fetch content download timestamp
 endif()
 include(cmake/project_version.cmake)
 include(cmake/SlsAddFlag.cmake)
 include(cmake/helpers.cmake)
 # Using FetchContent to get libzmq
 include(FetchContent)
 option(SLS_FETCH_ZMQ_FROM_GITHUB "Fetch zmq from github" OFF)
 option(SLS_FETCH_PYBIND11_FROM_GITHUB "Fetch pybind11 from github" OFF)
 # Allow FetchContent_Populate to be called with a single argument
 # otherwise deprecated warning is issued
 # Note: From cmake 3.28 we can pass EXCLUDE_FROM_ALL to FetchContent_Declare
 # and avoid direct use of Populate
 if (${CMAKE_VERSION} VERSION_GREATER_EQUAL "3.30")
    cmake_policy(SET CMP0169 OLD) 
 endif()
 # Patch libzmq to set minimum cmake version to 3.15 to avoid warnings
 # with newer cmake versions
 # Patch is applied in the FetchContent_Declare
 set(SLS_LIBZMQ_VERSION "4.3.4")
 find_program(PATCH_EXECUTABLE patch)
 if(NOT PATCH_EXECUTABLE)
    message(FATAL_ERROR "The 'patch' tool is required for patching lib zeromq. Please install it.")
 endif()
 if(SLS_FETCH_ZMQ_FROM_GITHUB)
    # Opt in to pull down a zmq version from github instead of
    # using the bundled version
    FetchContent_Declare(
        libzmq
        GIT_REPOSITORY https://github.com/zeromq/libzmq.git
        GIT_TAG        v${SLS_LIBZMQ_VERSION}
        PATCH_COMMAND ${CMAKE_COMMAND} -E chdir <SOURCE_DIR> patch -p1 < ${CMAKE_CURRENT_SOURCE_DIR}/libs/libzmq/libzmq_cmake_version.patch
        UPDATE_DISCONNECTED 1
    )
 else()
    # Standard behaviour use libzmq included in this repo (libs/libzmq)
    FetchContent_Declare(
        libzmq
        URL ${CMAKE_CURRENT_SOURCE_DIR}/libs/libzmq/libzmq-${SLS_LIBZMQ_VERSION}.tar.gz
        URL_HASH MD5=cc20b769ac10afa352e5ed2769bb23b3
        PATCH_COMMAND ${CMAKE_COMMAND} -E chdir <SOURCE_DIR> patch -p1 < ${CMAKE_CURRENT_SOURCE_DIR}/libs/libzmq/libzmq_cmake_version.patch
        UPDATE_DISCONNECTED 1
    )
 endif()
 # Disable unwanted options from libzmq
 set(BUILD_TESTS OFF CACHE BOOL "Switch off libzmq test build")
 set(BUILD_SHARED OFF CACHE BOOL "Switch off libzmq shared libs")
 set(WITH_PERF_TOOL OFF CACHE BOOL "")
 set(ENABLE_CPACK OFF CACHE BOOL "")
 set(ENABLE_CLANG OFF CACHE BOOL "")
 set(ENABLE_CURVE OFF CACHE BOOL "")
 set(ENABLE_DRAFTS OFF CACHE BOOL "")
 set(ENABLE_PRECOMPILED OFF CACHE BOOL "")
 set(WITH_DOC OFF CACHE BOOL "")
 set(WITH_DOCS OFF CACHE BOOL "")
 # Using GetProperties and Populate to be able to exclude zmq
 # from install (not possible with FetchContent_MakeAvailable(libzmq))
 FetchContent_GetProperties(libzmq)
 if(NOT libzmq_POPULATED)
  FetchContent_Populate(libzmq)
  add_subdirectory(${libzmq_SOURCE_DIR} ${libzmq_BINARY_DIR} EXCLUDE_FROM_ALL)
 endif()
 include(GNUInstallDirs)
 # If conda build, always set lib dir to 'lib'
 if($ENV{CONDA_BUILD})
  set(CMAKE_INSTALL_LIBDIR "lib")
 endif()
 # Set lower / upper case project names
 string(TOUPPER "${PROJECT_NAME}" PROJECT_NAME_UPPER)
 string(TOLOWER "${PROJECT_NAME}" PROJECT_NAME_LOWER)
 # Set targets export name (used by slsDetectorPackage and dependencies)
 set(TARGETS_EXPORT_NAME "${PROJECT_NAME_LOWER}-targets")
 set(namespace "sls::")
 set(CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/cmake" ${CMAKE_MODULE_PATH})
 # Check if project is being used directly or via add_subdirectory
 set(SLS_MASTER_PROJECT OFF)
 if (CMAKE_CURRENT_SOURCE_DIR STREQUAL CMAKE_SOURCE_DIR)
    set(SLS_MASTER_PROJECT ON)
 endif()
 option(SLS_USE_HDF5 "HDF5 File format" OFF)
 option(SLS_BUILD_SHARED_LIBRARIES "Build shared libaries" ON)
 option(SLS_USE_TEXTCLIENT "Text Client" ON)
 option(SLS_USE_DETECTOR "Detector libs" ON)
 option(SLS_USE_RECEIVER "Receiver" ON)
 option(SLS_USE_RECEIVER_BINARIES "Receiver binaries" ON)
 option(SLS_USE_GUI "GUI" OFF)
 option(SLS_USE_SIMULATOR "Simulator" OFF)
 option(SLS_USE_TESTS "TESTS" OFF)
 option(SLS_USE_INTEGRATION_TESTS "Integration Tests" OFF)
 option(SLS_USE_SANITIZER "Sanitizers for debugging" OFF)
 option(SLS_USE_PYTHON "Python bindings" OFF)
 option(SLS_INSTALL_PYTHONEXT "Install the python extension in the install tree under CMAKE_INSTALL_PREFIX/python/" OFF)
 option(SLS_USE_CTBGUI "ctb GUI" OFF)
 option(SLS_BUILD_DOCS "docs" OFF)
 option(SLS_BUILD_EXAMPLES "examples" OFF)
 option(SLS_TUNE_LOCAL "tune to local machine" OFF)
 option(SLS_DEVEL_HEADERS "install headers for devel" OFF)
 option(SLS_USE_MOENCH "compile zmq and post processing for Moench" OFF)
 option(SLS_USE_JUNGFRAU "compile post processing for Jungfrau" OFF)
 #Convenience option to switch off defaults when building Moench binaries only
 option(SLS_BUILD_ONLY_MOENCH "compile only Moench" OFF)
 if(SLS_BUILD_ONLY_MOENCH)
    message(STATUS "Build MOENCH binaries only!")
    set(SLS_BUILD_SHARED_LIBRARIES OFF CACHE BOOL "Disabled for MOENCH_ONLY" FORCE)
    set(SLS_USE_TEXTCLIENT OFF CACHE BOOL "Disabled for MOENCH_ONLY" FORCE)
    set(SLS_USE_DETECTOR OFF CACHE BOOL "Disabled for MOENCH_ONLY" FORCE)
    set(SLS_USE_RECEIVER OFF CACHE BOOL "Disabled for MOENCH_ONLY" FORCE)
    set(SLS_USE_RECEIVER_BINARIES OFF CACHE BOOL "Disabled for MOENCH_ONLY" FORCE)
    set(SLS_USE_MOENCH ON CACHE BOOL "Enable" FORCE)
 endif()
 #Convenience option to switch off defaults when building Jungfrau binaries only
 option(SLS_BUILD_ONLY_JUNGFRAU "compile only Jungfrau" OFF)
 if(SLS_BUILD_ONLY_JUNGFRAU)
    message(STATUS "Build JUNGFRAU binaries only!")
    set(SLS_BUILD_SHARED_LIBRARIES OFF CACHE BOOL "Disabled for JUNGFRAU_ONLY" FORCE)
    set(SLS_USE_TEXTCLIENT OFF CACHE BOOL "Disabled for JUNGFRAU_ONLY" FORCE)
    set(SLS_USE_DETECTOR OFF CACHE BOOL "Disabled for JUNGFRAU_ONLY" FORCE)
    set(SLS_USE_RECEIVER OFF CACHE BOOL "Disabled for JUNGFRAU_ONLY" FORCE)
    set(SLS_USE_RECEIVER_BINARIES OFF CACHE BOOL "Disabled for JUNGFRAU_ONLY" FORCE)
    set(SLS_USE_JUNGFRAU ON CACHE BOOL "Enable" FORCE)
 endif()
 option(SLS_EXT_BUILD "external build of part of the project" OFF)
 if(SLS_EXT_BUILD)
    message(STATUS "External build using already installed libraries")
    set(SLS_BUILD_SHARED_LIBRARIES OFF CACHE BOOL "Should already exist" FORCE)
    set(SLS_USE_TEXTCLIENT OFF CACHE BOOL "Should already exist" FORCE)
    set(SLS_USE_DETECTOR OFF CACHE BOOL "Should already exist" FORCE)
    set(SLS_USE_RECEIVER OFF CACHE BOOL "Should already exist" FORCE)
    set(SLS_USE_RECEIVER_BINARIES OFF CACHE BOOL "Should already exist" FORCE)
    set(SLS_MASTER_PROJECT OFF CACHE BOOL "No master proj in case of extbuild" FORCE) 
 endif()
 #Maybe have an option guarding this?
 set(SLS_INTERNAL_RAPIDJSON_DIR ${CMAKE_CURRENT_SOURCE_DIR}/libs/rapidjson)
 set(SLS_INTERNAL_QWT_DIR ${CMAKE_CURRENT_SOURCE_DIR}/libs/qwt-6.1.5)
 set(ClangFormat_EXCLUDE_PATTERNS    "build/" 
                                    "libs/" 
                                    "slsDetectorCalibration/" 
                                    "manual/"
                                    "python/"
                                    "sample/"
                                    ${CMAKE_BINARY_DIR})
 find_package(ClangFormat)
 set(CMAKE_EXPORT_COMPILE_COMMANDS ON)
 default_build_type("Release")
 set_std_fs_lib()
 message(STATUS "Extra linking to fs lib:${STD_FS_LIB}")
 #Enable LTO if available
 include(CheckIPOSupported)
 check_ipo_supported(RESULT SLS_LTO_AVAILABLE)
 if((CMAKE_BUILD_TYPE STREQUAL "Release") AND SLS_LTO_AVAILABLE)
    message(STATUS "Building with link time optimization")
 else()
    message(STATUS "Building without link time optimization")
 endif()
 if(SLS_EXT_BUILD)
    # Find ourself in case of external build
    find_package(slsDetectorPackage ${PROJECT_VERSION} REQUIRED)
 endif()
 # slsProjectOptions and slsProjectWarnings are used
 # to control options for the libraries
 if(NOT TARGET slsProjectOptions)
    add_library(slsProjectOptions INTERFACE)
   target_compile_features(slsProjectOptions INTERFACE cxx_std_17)
 endif()
 if (NOT TARGET slsProjectWarnings)
    add_library(slsProjectWarnings INTERFACE)
    target_compile_options(slsProjectWarnings INTERFACE 
        -Wall
        -Wextra
        -Wno-unused-parameter
        # -Wold-style-cast
        -Wnon-virtual-dtor
        -Woverloaded-virtual
        -Wdouble-promotion
        -Wformat=2
        -Wredundant-decls
        # -Wconversion
        -Wvla
        -Wdouble-promotion
        -Werror=return-type
    )
    # Add or disable warnings depending on if the compiler supports them 
    # The function checks internally and sets HAS_warning-name
    sls_enable_cxx_warning("-Wnull-dereference")
    sls_enable_cxx_warning("-Wduplicated-cond")
    sls_disable_cxx_warning("-Wclass-memaccess")
    if (CMAKE_CXX_COMPILER_VERSION VERSION_LESS 5 AND "${CMAKE_CXX_COMPILER_ID}" STREQUAL "GNU")
            target_compile_options(slsProjectWarnings INTERFACE 
                                                -Wno-missing-field-initializers)
    endif()
 endif()
 if (NOT TARGET slsProjectCSettings)
    #Settings for C code
    add_library(slsProjectCSettings INTERFACE)
    target_compile_options(slsProjectCSettings INTERFACE 
                                                -std=gnu99 #fixed
                                                -Wall
                                                -Wextra
                                                -Wno-unused-parameter
                                                -Wdouble-promotion
                                                -Wformat=2
                                                -Wredundant-decls
                                                -Wdouble-promotion
                                                -Werror=return-type
                                                -Wno-format-overflow 
                                                -Wno-format-truncation
                                    )
    sls_disable_c_warning("-Wstringop-truncation")
 endif()
 if(SLS_USE_SANITIZER)
    target_compile_options(slsProjectOptions INTERFACE -fsanitize=address,undefined -fno-omit-frame-pointer)
    target_link_libraries(slsProjectOptions INTERFACE -fsanitize=address,undefined)
    #target_compile_options(slsProjectOptions INTERFACE -fsanitize=thread -fno-omit-frame-pointer)
    #target_link_libraries(slsProjectOptions INTERFACE -fsanitize=thread)
 endif()
 if(SLS_TUNE_LOCAL)
    target_compile_options(slsProjectOptions INTERFACE -mtune=native -march=native)
 endif()
 if(SLS_MASTER_PROJECT)
 install(TARGETS slsProjectOptions slsProjectWarnings 
    EXPORT "${TARGETS_EXPORT_NAME}"
    LIBRARY DESTINATION ${CMAKE_INSTALL_LIBDIR}
    ARCHIVE DESTINATION ${CMAKE_INSTALL_LIBDIR}
    PUBLIC_HEADER DESTINATION ${CMAKE_INSTALL_INCLUDEDIR}
 )
 endif()
 set(CMAKE_POSITION_INDEPENDENT_CODE ON)
 set(CMAKE_INSTALL_RPATH $ORIGIN)
 set(CMAKE_BUILD_WITH_INSTALL_RPATH FALSE)
 if (SLS_USE_TESTS)
    enable_testing()
    add_subdirectory(tests)
 endif(SLS_USE_TESTS)
 if(NOT SLS_EXT_BUILD)
    add_subdirectory(slsSupportLib)
 endif()
 if (SLS_USE_DETECTOR OR SLS_USE_TEXTCLIENT)
    add_subdirectory(slsDetectorSoftware)
 endif ()
 if (SLS_USE_RECEIVER)
    add_subdirectory(slsReceiverSoftware) 
 endif (SLS_USE_RECEIVER)
 if (SLS_USE_GUI)   
    add_subdirectory(libs/qwt)  
    add_subdirectory(slsDetectorGui)
 endif (SLS_USE_GUI)
 if (SLS_USE_SIMULATOR)
    add_subdirectory(slsDetectorServers)
 endif (SLS_USE_SIMULATOR)
 if (SLS_USE_INTEGRATION_TESTS)
    add_subdirectory(integrationTests)
 endif (SLS_USE_INTEGRATION_TESTS)
 if (SLS_USE_PYTHON)
    find_package (Python 3.8 COMPONENTS Interpreter Development.Module REQUIRED)
    set(PYBIND11_FINDPYTHON ON) # Needed for RH8
    if(SLS_FETCH_PYBIND11_FROM_GITHUB)
        FetchContent_Declare(
            pybind11
            GIT_REPOSITORY https://github.com/pybind/pybind11
            GIT_TAG        v2.13.6
        )
    else()
    # https://github.com/pybind/pybind11/releases
        FetchContent_Declare(
            pybind11
            URL ${CMAKE_CURRENT_SOURCE_DIR}/libs/pybind11/v2.13.6.tar.gz
            URL_HASH MD5=a04dead9c83edae6d84e2e343da7feeb
        )
    endif()
    FetchContent_MakeAvailable(pybind11)
    add_subdirectory(python)
 endif(SLS_USE_PYTHON)
 if (SLS_USE_CTBGUI)
    add_subdirectory(pyctbgui)
 endif(SLS_USE_CTBGUI)
 # Workaround for file note being copied to build directory
 # when issuing a python -m build
 # TODO! Proper fix
 if(EXISTS ".clang-tidy")
    configure_file(.clang-tidy  
        ${CMAKE_BINARY_DIR}/.clang-tidy  
    )
 endif()
 if (SLS_BUILD_EXAMPLES)
    add_subdirectory(sample)
 endif(SLS_BUILD_EXAMPLES)
 if(SLS_BUILD_DOCS)
    add_subdirectory(docs)
 endif(SLS_BUILD_DOCS)
 if(SLS_USE_MOENCH)
    add_subdirectory(slsDetectorCalibration/tiffio)
    add_subdirectory(slsDetectorCalibration/moenchExecutables)
 endif(SLS_USE_MOENCH)
 if(SLS_USE_JUNGFRAU)
    add_subdirectory(slsDetectorCalibration/tiffio)
    add_subdirectory(slsDetectorCalibration/jungfrauExecutables)
 endif(SLS_USE_JUNGFRAU)
 if(SLS_MASTER_PROJECT)
    set(CMAKE_INSTALL_DIR "share/cmake/${PROJECT_NAME}")
    set(PROJECT_LIBRARIES slsSupportShared slsDetectorShared slsReceiverShared)
    include(cmake/package_config.cmake)
 endif()
--- a/17
+++ b/17
@ -1,17 +0,0 @@
 The SLS Detector Package is provided under:
 	SPDX-License-Identifier: LGPL-3.0-or-later
 Being under the terms of the GNU Lesser General Public License version 3 or later, 
 according with:
 	LICENSES/LGPL-3.0
 Source code under the Apache 2.0 License have the SPDX Identifier and are 
 according with:
 	LICENSES/ThirdParty/Apache-2.0
 All contributions to the SLS Detector Package are subject to this COPYING file.
--- a/LICENSES/GPL-3.0
+++ b/LICENSES/GPL-3.0
@ -1,688 +0,0 @@
 Valid-License-Identifier: GPL-3.0
 Valid-License-Identifier: GPL-3.0+
 SPDX-URL: https://spdx.org/licenses/GPL-3.0-or-later.html
 Usage-Guide:
  To use this license in source code, put one of the following SPDX
  tag/value pairs into a comment according to the placement
  guidelines in the licensing rules documentation.
  For 'GNU Library General Public License (LGPL) version 3.0 only' use:
    SPDX-License-Identifier: GPL-3.0
  For 'GNU Library General Public License (LGPL) version 3.0 or any later
  version' use:
    SPDX-License-Identifier: GPL-3.0-or-later
 License-Text:
                    GNU GENERAL PUBLIC LICENSE
                       Version 3, 29 June 2007
 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/>
 Everyone is permitted to copy and distribute verbatim copies
 of this license document, but changing it is not allowed.
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 any other work released this way by its authors.  You can apply it to
 your programs, too.
  When we speak of free software, we are referring to freedom, not
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  To protect your rights, we need to prevent others from denying you
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--- a/README.md
+++ b/README.md
@ -1,281 +0,0 @@
 ## Dependencies
 Before building from source make sure that you have the [software wiki](https://slsdetectorgroup.github.io/devdoc/dependencies.html) installed. If installing using conda, conda will manage the dependencies. Avoid also installing packages with pip. 
 ## Documentaion
 Detailed documentation including installation can be found in the [software wiki](https://slsdetectorgroup.github.io/devdoc/index.html).
 Different releases can be found on the [official site](https://www.psi.ch/en/lxn/software-releases).
 Firmware compatiblity can be found in [firmware page](https://github.com/slsdetectorgroup/slsDetectorFirmware)
 ## Installation
 ### 1. Install binaries using conda
 Conda is not only useful to manage python environments but can also
 be used as a user space package manager. Dates in the tag (for eg. 2020.07.23.dev0) 
 are from the developer branch. Please use released tags for stability.
 We have three different packages available:
 * **slsdetlib** shared libraries and command line utilities 
 * **slsdetgui** GUI
 * **slsdet** Python bindings
 ```
 #Add channels for dependencies and our library
 conda config --add channels conda-forge
 conda config --add channels slsdetectorgroup
 conda config --set channel_priority strict
 #create and activate an environment with our library
 #replace 6.1.1 with the required tag
 conda create -n myenv slsdetlib=6.1.1
 conda activate myenv
 #ready to use
 sls_detector_get exptime
 etc ...
 ```
 ```
 # List available versions
 # lib and binaries
 conda search slsdetlib
 # python
 conda search slsdet
 # gui
 conda search slsdetgui
 ```
 ## 2. Build from source
 ### 2.1 Download Source Code from github
 ```
 git clone https://github.com/slsdetectorgroup/slsDetectorPackage.git --branch 7.0.0
 ```
 > **Note:** For v6.x.x of slsDetectorPackage and older, refer [pybind11 notes on cloning](#Pybind-and-Zeromq).
 ### 2.2 Build from source
 ### Build using CMake
 ```
 # outside slsDetecorPackage folder
 mkdir build && cd build
 # configure & generate Makefiles using cmake
 # by listing all your options (alternately use ccmake described below)
 # cmake3 for some systems
 cmake ../slsDetectorPackage -DCMAKE_INSTALL_PREFIX=/your/install/path
 # compiled to the build/bin directory
 make -j12 #or whatever number of cores you are using to build
 # install headers and libs in /your/install/path directory
 make install
 ```
 Instead of the cmake command, one can use ccmake to get a list of options to configure and generate Makefiles at ease.
 ```
 # ccmake3 for some systems
 ccmake ..
 # choose the options
 # first press [c] - configure (unil you see [g])
 # then press [g] - generate
 ```
 |Example cmake options|Comment|
 |---|---|
 | -DSLS_USE_PYTHON=ON            | Python                                 |   
 | -DPython_FIND_VIRTUALENV=ONLY  | Python from only the conda env         | 
 | -DSLS_USE_GUI=ON               | GUI                                    |
 | -DSLS_USE_HDF5=ON              | HDF5                                   |
 | -DSLS_USE_SIMULATOR=ON         | Simulator                              |
 > **Note:** For v7.x.x of slsDetectorPackage and older, refer [zeromq notes for cmake option to hint library location](#Pybind-and-Zeromq).
 ### Build using in-built cmk.sh script
 ```
 The binaries are generated in slsDetectorPackage/build/bin directory.
 Usage: $0 [-b] [-c] [-d <HDF5 directory>] [-e] [-g] [-h] [-i]
 [-j <Number of threads>] [-k <CMake command>] [-l <Install directory>]
 [-m] [-n] [-p] [-r] [-s] [-t] [-u] [-z]
 -[no option]: only make
 -b: Builds/Rebuilds CMake files normal mode
 -c: Clean
 -d: HDF5 Custom Directory
 -e: Debug mode
 -g: Build/Rebuilds gui
 -h: Builds/Rebuilds Cmake files with HDF5 package
 -i: Builds tests
 -j: Number of threads to compile through
 -k: CMake command
 -l: Install directory
 -m: Manuals
 -n: Manuals without compiling doxygen (only rst)
 -p: Builds/Rebuilds Python API
 -r: Build/Rebuilds only receiver
 -s: Simulator
 -t: Build/Rebuilds only text client
 -u: Chip Test Gui
 -z: Moench zmq processor
 # display all options
 ./cmk.sh -?
 # new build and compile in parallel (recommended basic option):
 ./cmk.sh -cbj5
 # new build, python and compile in parallel:
 ./cmk.sh -cbpj5
 #For rebuilding only certain sections
 ./cmk.sh -tg #only text client and gui
 ./cmk.sh -r #only receiver
 ```
 > **Note:** For v7.x.x of slsDetectorPackage and older, refer [zeromq notes for cmk script option to hint library location](#Pybind-and-Zeromq).
 ### Build on old distributions
 If your linux distribution doesn't come with a C++11 compiler (gcc>4.8) then 
 it's possible to install a newer gcc using conda and build the slsDetectorPackage
 using this compiler
 ```
 #Create an environment with the dependencies
 conda create -n myenv gxx_linux-64 cmake zmq
 conda activate myenv
 # outside slsDetecorPackage folder
 mkdir build && cd build
 cmake ../slsDetectorPackage -DCMAKE_PREFIX_PATH=$CONDA_PREFIX
 make -j12
 ```
 > **Note:** For v7.x.x of slsDetectorPackage and older, refer [zeromq notes for dependencies for conda](#Pybind-and-Zeromq).
 ### Build slsDetectorGui (Qt5)
 1. Using pre-built binary on conda
 ```
 conda create -n myenv slsdetgui=7.0.0
 conda activate myenv
 ```
 2. Using system installation on RHEL7
 ```
 yum install qt5-qtbase-devel.x86_64
 yum install qt5-qtsvg-devel.x86_64 
 ```
 3. Using system installation on RHEL8
 ```
 yum install qt5-qtbase-devel.x86_64
 yum install qt5-qtsvg-devel.x86_64 
 yum install expat-devel.x86_64
 ```
 4. Using conda
 ```
 #Add channels for dependencies and our library
 conda config --add channels conda-forge
 conda config --add channels slsdetectorgroup
 conda config --set channel_priority strict
 # create environment to compile
 # on rhel7
 conda create -n slsgui zeromq gxx_linux-64 gxx_linux-64 mesa-libgl-devel-cos6-x86_64 qt
 # on fedora or newer systems
 conda create -n slsgui zeromq qt
 # when using conda compilers, would also need libgl, but no need for it on fedora unless maybe using it with ROOT
 # activate environment
 conda activate slsgui
 # compile with cmake outside slsDetecorPackage folder
 mkdir build && cd build
 cmake ../slsDetectorPackage -DSLS_USE_GUI=ON
 make -j12
 # or compile with cmk.sh
 cd slsDetectorPackage
 ./cmk.sh -cbgj9
 ```
 > **Note:** For v7.x.x of slsDetectorPackage and older, refer [zeromq notes for dependencies for conda](#Pybind-and-Zeromq).
 ### Build documentation from package
 The documentation for the slsDetectorPackage is build using a combination 
 of Doxygen, Sphinx and Breathe. The easiest way to install the dependencies
 is to use conda 
 ```
 conda create -n myenv python=3.12 sphinx sphinx_rtd_theme breathe doxygen numpy
 ```
 ```
 # using cmake or ccmake to enable DSLS_BUILD_DOCS
 # outside slsDetecorPackage folder
 mkdir build && cd build
 cmake ../slsDetectorPackage -DSLS_BUILD_DOCS=ON
 make docs # generate API docs and build Sphinx RST
 make rst # rst only, saves time in case the API did not change
 ```
 ## Pybind and Zeromq
 ### Pybind11 for Python
 **v8.0.0+**:
 pybind11 is built
 * by default from tar file in repo (libs/pybind/v2.1x.0.tar.gz)
 * or use advanced option SLS_FETCH_PYBIND11_FROM_GITHUB [link].
   * v9.0.0+: pybind11 (v2.13.6)
   * v8.x.x : pybind11 (v2.11.0)
 **v7.x.x**:
 pybind11 packaged into ‘libs/pybind’. No longer a submodule. No need for “recursive” or “submodule update”.
 **Older versions**:
 pybind11 is a submodule. Must be cloned using “recursive” and updated when switching between versions using the following commands.
 ```
 # Note: Only for v6.x.x versions and older
 # clone using recursive to get pybind11 submodule
 git clone --recursive https://github.com/slsdetectorgroup/slsDetectorPackage.git
 # update submodule when switching between releases
 cd slsDetectorPackage
 git submodule update --init
 ```
 ### Zeromq
 **v8.0.0+**:
 zeromq (v4.3.4) is built
 * by default from tar file in repo (libs/libzmq/libzmq-4.3.4.tar.gz)
 * or use advanced option SLS_FETCH_ZMQ_FROM_GITHUB [link].
 **v7.x.x and older**:
 zeromq-devel must be installed and one can hint its location using
 * cmake option:’-DZeroMQ_HINT=/usr/lib64’ or
 * option ‘-q’ in cmk.sh script: : ./cmk.sh -cbj5 -q /usr/lib64
 * ‘zeromq’ dependency added when installing using conda
 ## Support
    dhanya.thattil@psi.ch
    erik.frojdh@psi.ch
--- a/1
+++ b/1
@ -1 +0,0 @@
 0.0.0
--- a/bash_autocomplete.sh
+++ b/bash_autocomplete.sh
@ -1 +0,0 @@
 slsDetectorSoftware/generator/autocomplete/bash_autocomplete.sh
--- a/cmake/Catch.cmake
+++ b/cmake/Catch.cmake
@ -1,175 +0,0 @@
 # Distributed under the OSI-approved BSD 3-Clause License.  See accompanying
 # file Copyright.txt or https://cmake.org/licensing for details.
 #[=======================================================================[.rst:
 Catch
 -----
 This module defines a function to help use the Catch test framework.
 The :command:`catch_discover_tests` discovers tests by asking the compiled test
 executable to enumerate its tests.  This does not require CMake to be re-run
 when tests change.  However, it may not work in a cross-compiling environment,
 and setting test properties is less convenient.
 This command is intended to replace use of :command:`add_test` to register
 tests, and will create a separate CTest test for each Catch test case.  Note
 that this is in some cases less efficient, as common set-up and tear-down logic
 cannot be shared by multiple test cases executing in the same instance.
 However, it provides more fine-grained pass/fail information to CTest, which is
 usually considered as more beneficial.  By default, the CTest test name is the
 same as the Catch name; see also ``TEST_PREFIX`` and ``TEST_SUFFIX``.
 .. command:: catch_discover_tests
  Automatically add tests with CTest by querying the compiled test executable
  for available tests::
    catch_discover_tests(target
                         [TEST_SPEC arg1...]
                         [EXTRA_ARGS arg1...]
                         [WORKING_DIRECTORY dir]
                         [TEST_PREFIX prefix]
                         [TEST_SUFFIX suffix]
                         [PROPERTIES name1 value1...]
                         [TEST_LIST var]
    )
  ``catch_discover_tests`` sets up a post-build command on the test executable
  that generates the list of tests by parsing the output from running the test
  with the ``--list-test-names-only`` argument.  This ensures that the full
  list of tests is obtained.  Since test discovery occurs at build time, it is
  not necessary to re-run CMake when the list of tests changes.
  However, it requires that :prop_tgt:`CROSSCOMPILING_EMULATOR` is properly set
  in order to function in a cross-compiling environment.
  Additionally, setting properties on tests is somewhat less convenient, since
  the tests are not available at CMake time.  Additional test properties may be
  assigned to the set of tests as a whole using the ``PROPERTIES`` option.  If
  more fine-grained test control is needed, custom content may be provided
  through an external CTest script using the :prop_dir:`TEST_INCLUDE_FILES`
  directory property.  The set of discovered tests is made accessible to such a
  script via the ``<target>_TESTS`` variable.
  The options are:
  ``target``
    Specifies the Catch executable, which must be a known CMake executable
    target.  CMake will substitute the location of the built executable when
    running the test.
  ``TEST_SPEC arg1...``
    Specifies test cases, wildcarded test cases, tags and tag expressions to
    pass to the Catch executable with the ``--list-test-names-only`` argument.
  ``EXTRA_ARGS arg1...``
    Any extra arguments to pass on the command line to each test case.
  ``WORKING_DIRECTORY dir``
    Specifies the directory in which to run the discovered test cases.  If this
    option is not provided, the current binary directory is used.
  ``TEST_PREFIX prefix``
    Specifies a ``prefix`` to be prepended to the name of each discovered test
    case.  This can be useful when the same test executable is being used in
    multiple calls to ``catch_discover_tests()`` but with different
    ``TEST_SPEC`` or ``EXTRA_ARGS``.
  ``TEST_SUFFIX suffix``
    Similar to ``TEST_PREFIX`` except the ``suffix`` is appended to the name of
    every discovered test case.  Both ``TEST_PREFIX`` and ``TEST_SUFFIX`` may
    be specified.
  ``PROPERTIES name1 value1...``
    Specifies additional properties to be set on all tests discovered by this
    invocation of ``catch_discover_tests``.
  ``TEST_LIST var``
    Make the list of tests available in the variable ``var``, rather than the
    default ``<target>_TESTS``.  This can be useful when the same test
    executable is being used in multiple calls to ``catch_discover_tests()``.
    Note that this variable is only available in CTest.
 #]=======================================================================]
 #------------------------------------------------------------------------------
 function(catch_discover_tests TARGET)
  cmake_parse_arguments(
    ""
    ""
    "TEST_PREFIX;TEST_SUFFIX;WORKING_DIRECTORY;TEST_LIST"
    "TEST_SPEC;EXTRA_ARGS;PROPERTIES"
    ${ARGN}
  )
  if(NOT _WORKING_DIRECTORY)
    set(_WORKING_DIRECTORY "${CMAKE_CURRENT_BINARY_DIR}")
  endif()
  if(NOT _TEST_LIST)
    set(_TEST_LIST ${TARGET}_TESTS)
  endif()
  ## Generate a unique name based on the extra arguments
  string(SHA1 args_hash "${_TEST_SPEC} ${_EXTRA_ARGS}")
  string(SUBSTRING ${args_hash} 0 7 args_hash)
  # Define rule to generate test list for aforementioned test executable
  set(ctest_include_file "${CMAKE_CURRENT_BINARY_DIR}/${TARGET}_include-${args_hash}.cmake")
  set(ctest_tests_file "${CMAKE_CURRENT_BINARY_DIR}/${TARGET}_tests-${args_hash}.cmake")
  get_property(crosscompiling_emulator
    TARGET ${TARGET}
    PROPERTY CROSSCOMPILING_EMULATOR
  )
  add_custom_command(
    TARGET ${TARGET} POST_BUILD
    BYPRODUCTS "${ctest_tests_file}"
    COMMAND "${CMAKE_COMMAND}"
            -D "TEST_TARGET=${TARGET}"
            -D "TEST_EXECUTABLE=$<TARGET_FILE:${TARGET}>"
            -D "TEST_EXECUTOR=${crosscompiling_emulator}"
            -D "TEST_WORKING_DIR=${_WORKING_DIRECTORY}"
            -D "TEST_SPEC=${_TEST_SPEC}"
            -D "TEST_EXTRA_ARGS=${_EXTRA_ARGS}"
            -D "TEST_PROPERTIES=${_PROPERTIES}"
            -D "TEST_PREFIX=${_TEST_PREFIX}"
            -D "TEST_SUFFIX=${_TEST_SUFFIX}"
            -D "TEST_LIST=${_TEST_LIST}"
            -D "CTEST_FILE=${ctest_tests_file}"
            -P "${_CATCH_DISCOVER_TESTS_SCRIPT}"
    VERBATIM
  )
  file(WRITE "${ctest_include_file}"
    "if(EXISTS \"${ctest_tests_file}\")\n"
    "  include(\"${ctest_tests_file}\")\n"
    "else()\n"
    "  add_test(${TARGET}_NOT_BUILT-${args_hash} ${TARGET}_NOT_BUILT-${args_hash})\n"
    "endif()\n"
  )
  if(NOT ${CMAKE_VERSION} VERSION_LESS "3.10.0") 
    # Add discovered tests to directory TEST_INCLUDE_FILES
    set_property(DIRECTORY
      APPEND PROPERTY TEST_INCLUDE_FILES "${ctest_include_file}"
    )
  else()
    # Add discovered tests as directory TEST_INCLUDE_FILE if possible
    get_property(test_include_file_set DIRECTORY PROPERTY TEST_INCLUDE_FILE SET)
    if (NOT ${test_include_file_set})
      set_property(DIRECTORY
        PROPERTY TEST_INCLUDE_FILE "${ctest_include_file}"
      )
    else()
      message(FATAL_ERROR
        "Cannot set more than one TEST_INCLUDE_FILE"
      )
    endif()
  endif()
 endfunction()
 ###############################################################################
 set(_CATCH_DISCOVER_TESTS_SCRIPT
  ${CMAKE_CURRENT_LIST_DIR}/CatchAddTests.cmake
 )
--- a/cmake/CatchAddTests.cmake
+++ b/cmake/CatchAddTests.cmake
@ -1,78 +0,0 @@
 # Distributed under the OSI-approved BSD 3-Clause License.  See accompanying
 # file Copyright.txt or https://cmake.org/licensing for details.
 set(prefix "${TEST_PREFIX}")
 set(suffix "${TEST_SUFFIX}")
 set(spec ${TEST_SPEC})
 set(extra_args ${TEST_EXTRA_ARGS})
 set(properties ${TEST_PROPERTIES})
 set(script)
 set(suite)
 set(tests)
 function(add_command NAME)
  set(_args "")
  foreach(_arg ${ARGN})
    if(_arg MATCHES "[^-./:a-zA-Z0-9_]")
      set(_args "${_args} [==[${_arg}]==]") # form a bracket_argument
    else()
      set(_args "${_args} ${_arg}")
    endif()
  endforeach()
  set(script "${script}${NAME}(${_args})\n" PARENT_SCOPE)
 endfunction()
 # Run test executable to get list of available tests
 if(NOT EXISTS "${TEST_EXECUTABLE}")
  message(FATAL_ERROR
    "Specified test executable '${TEST_EXECUTABLE}' does not exist"
  )
 endif()
 execute_process(
  COMMAND ${TEST_EXECUTOR} "${TEST_EXECUTABLE}" ${spec} --list-test-names-only
  OUTPUT_VARIABLE output
  RESULT_VARIABLE result
 )
 # Catch --list-test-names-only reports the number of tests, so 0 is... surprising
 if(${result} EQUAL 0)
  message(WARNING
    "Test executable '${TEST_EXECUTABLE}' contains no tests!\n"
  )
 elseif(${result} LESS 0)
  message(FATAL_ERROR
    "Error running test executable '${TEST_EXECUTABLE}':\n"
    "  Result: ${result}\n"
    "  Output: ${output}\n"
  )
 endif()
 string(REPLACE "\n" ";" output "${output}")
 # Parse output
 foreach(line ${output})
  set(test ${line})
  # use escape commas to handle properly test cases with commans inside the name
  string(REPLACE "," "\\," test_name ${test})
  # ...and add to script
  add_command(add_test
    "${prefix}${test}${suffix}"
    ${TEST_EXECUTOR}
    "${TEST_EXECUTABLE}"
    "${test_name}"
    ${extra_args}
  )
  add_command(set_tests_properties
    "${prefix}${test}${suffix}"
    PROPERTIES
    WORKING_DIRECTORY "${TEST_WORKING_DIR}"
    ${properties}
  )
  list(APPEND tests "${prefix}${test}${suffix}")
 endforeach()
 # Create a list of all discovered tests, which users may use to e.g. set
 # properties on the tests
 add_command(set ${TEST_LIST} ${tests})
 # Write CTest script
 file(WRITE "${CTEST_FILE}" "${script}")
--- a/cmake/FindCBF.cmake
+++ b/cmake/FindCBF.cmake
@ -1,11 +0,0 @@
 FIND_PATH (CBF_INCLUDE_DIR
    ${CBF_DIR}/include
    ${CBF_DIR}/include/cbflib
 )
 FIND_LIBRARY (CBF_LIBRARY
    NAMES cbf
    HINTS ${CBF_DIR}/lib
 )
 INCLUDE ( FindPackageHandleStandardArgs )
 FIND_PACKAGE_HANDLE_STANDARD_ARGS (CBF DEFAULT_MSG CBF_LIBRARY CBF_INCLUDE_DIR )
--- a/cmake/FindClangFormat.cmake
+++ b/cmake/FindClangFormat.cmake
@ -1,41 +0,0 @@
 # Find Clang format
 if(NOT ClangFormat_BIN_NAME)
 	set(ClangFormat_BIN_NAME clang-format)
 endif()
 # if custom path check there first
 if(ClangFormat_ROOT_DIR)
    find_program(ClangFormat_BIN 
        NAMES
        ${ClangFormat_BIN_NAME}
        PATHS
        "${ClangFormat_ROOT_DIR}"
        NO_DEFAULT_PATH)
 endif()
 find_program(ClangFormat_BIN NAMES ${ClangFormat_BIN_NAME})
 include(FindPackageHandleStandardArgs)
 FIND_PACKAGE_HANDLE_STANDARD_ARGS(
    ClangFormat
    DEFAULT_MSG 
    ClangFormat_BIN)
 mark_as_advanced(
    ClangFormat_BIN)
 if(ClangFormat_FOUND)
    execute_process(COMMAND ${ClangFormat_BIN} --version
                 WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
                 OUTPUT_VARIABLE CLANG_VERSION_TEXT)
    string(REGEX MATCH "([0-9]+)\\.[0-9]+\\.[0-9]+" CLANG_VERSION ${CLANG_VERSION_TEXT})
    if((${CLANG_VERSION} GREATER "9") OR (${CLANG_VERSION} EQUAL "9"))
        # A CMake script to find all source files and setup clang-format targets for them
        message(STATUS "found clang-format \"${CLANG_VERSION}\" adding formatting targets")
        include(clang-format)
    else()
        message(STATUS "clang-format version \"${CLANG_VERSION}\" found but need at least 9. Not setting up format targets")
    endif()
 else()
    message(STATUS "clang-format not found. Not setting up format targets")
 endif()
--- a/cmake/FindROOT.cmake
+++ b/cmake/FindROOT.cmake
@ -1,167 +0,0 @@
 # - Finds ROOT instalation
 # This module sets up ROOT information 
 # It defines:
 # ROOT_FOUND          If the ROOT is found
 # ROOT_INCLUDE_DIR    PATH to the include directory
 # ROOT_LIBRARIES      Most common libraries
 # ROOT_GUI_LIBRARIES  Most common libraries + GUI
 # ROOT_LIBRARY_DIR    PATH to the library directory 
 find_program(ROOT_CONFIG_EXECUTABLE root-config
  PATHS $ENV{ROOTSYS}/bin)
 if(NOT ROOT_CONFIG_EXECUTABLE)
  set(ROOT_FOUND FALSE)
 else()    
  set(ROOT_FOUND TRUE)
  execute_process(
    COMMAND ${ROOT_CONFIG_EXECUTABLE} --prefix 
    OUTPUT_VARIABLE ROOTSYS 
    OUTPUT_STRIP_TRAILING_WHITESPACE)
  execute_process(
    COMMAND ${ROOT_CONFIG_EXECUTABLE} --version 
    OUTPUT_VARIABLE ROOT_VERSION
    OUTPUT_STRIP_TRAILING_WHITESPACE)
  execute_process(
    COMMAND ${ROOT_CONFIG_EXECUTABLE} --incdir
    OUTPUT_VARIABLE ROOT_INCLUDE_DIR
    OUTPUT_STRIP_TRAILING_WHITESPACE)
  execute_process(
    COMMAND ${ROOT_CONFIG_EXECUTABLE} --libs
    OUTPUT_VARIABLE ROOT_LIBRARIES
    OUTPUT_STRIP_TRAILING_WHITESPACE)
  execute_process(
    COMMAND ${ROOT_CONFIG_EXECUTABLE} --glibs
    OUTPUT_VARIABLE ROOT_GUI_LIBRARIES
    OUTPUT_STRIP_TRAILING_WHITESPACE)
  #set(ROOT_LIBRARIES ${ROOT_LIBRARIES} -lThread -lMinuit -lHtml -lVMC -lEG -lGeom -lTreePlayer -lXMLIO -lProof)
  #set(ROOT_LIBRARIES ${ROOT_LIBRARIES} -lProofPlayer -lMLP -lSpectrum -lEve -lRGL -lGed -lXMLParser -lPhysics)
  set(ROOT_LIBRARY_DIR ${ROOTSYS}/lib)
  # Make variables changeble to the advanced user
  mark_as_advanced(ROOT_CONFIG_EXECUTABLE)
  if(NOT ROOT_FIND_QUIETLY)
    message(STATUS "Found ROOT ${ROOT_VERSION} in ${ROOTSYS}")
  endif()
 endif()
 include(CMakeParseArguments)
 find_program(ROOTCINT_EXECUTABLE rootcint PATHS $ENV{ROOTSYS}/bin)
 find_program(GENREFLEX_EXECUTABLE genreflex PATHS $ENV{ROOTSYS}/bin)
 find_package(GCCXML)
 #----------------------------------------------------------------------------
 # function ROOT_GENERATE_DICTIONARY( dictionary   
 #                                    header1 header2 ... 
 #                                    LINKDEF linkdef1 ... 
 #                                    OPTIONS opt1...)
 function(ROOT_GENERATE_DICTIONARY dictionary)
  CMAKE_PARSE_ARGUMENTS(ARG "" "" "LINKDEF;OPTIONS" "" ${ARGN})
  #---Get the list of header files-------------------------
  set(headerfiles)
  foreach(fp ${ARG_UNPARSED_ARGUMENTS})
    file(GLOB files ${fp})
    if(files)
      foreach(f ${files})
        if(NOT f MATCHES LinkDef)
          set(headerfiles ${headerfiles} ${f})
        endif()
      endforeach()
    else()
      set(headerfiles ${headerfiles} ${fp})
    endif()
  endforeach()
  #---Get the list of include directories------------------
  get_directory_property(incdirs INCLUDE_DIRECTORIES)
  set(includedirs) 
  foreach( d ${incdirs})    
   set(includedirs ${includedirs} -I${d})
  endforeach()
  #---Get LinkDef.h file------------------------------------
  set(linkdefs)
  foreach( f ${ARG_LINKDEF})
    if( IS_ABSOLUTE ${f})
      set(linkdefs ${linkdefs} ${f})
    else() 
      if(EXISTS ${CMAKE_CURRENT_SOURCE_DIR}/inc/${f})
        set(linkdefs ${linkdefs} ${CMAKE_CURRENT_SOURCE_DIR}/inc/${f})
      else()
        set(linkdefs ${linkdefs} ${CMAKE_CURRENT_SOURCE_DIR}/${f})
      endif()
    endif()
  endforeach()
  #---call rootcint------------------------------------------
  add_custom_command(OUTPUT ${dictionary}.cxx ${dictionary}.h
                     COMMAND ${ROOTCINT_EXECUTABLE} -cint -f  ${dictionary}.cxx 
                                          -c ${ARG_OPTIONS} ${includedirs} ${headerfiles} ${linkdefs} 
                     DEPENDS ${headerfiles} ${linkdefs})
 endfunction()
 #----------------------------------------------------------------------------
 # function REFLEX_GENERATE_DICTIONARY(dictionary   
 #                                     header1 header2 ... 
 #                                     SELECTION selectionfile ... 
 #                                     OPTIONS opt1...)
 function(REFLEX_GENERATE_DICTIONARY dictionary)  
  CMAKE_PARSE_ARGUMENTS(ARG "" "" "SELECTION;OPTIONS" "" ${ARGN})
  #---Get the list of header files-------------------------
  set(headerfiles)
  foreach(fp ${ARG_UNPARSED_ARGUMENTS})
    file(GLOB files ${fp})
    if(files)
      foreach(f ${files})
        set(headerfiles ${headerfiles} ${f})
      endforeach()
    else()
      set(headerfiles ${headerfiles} ${fp})
    endif()
  endforeach()
  #---Get Selection file------------------------------------
  if(IS_ABSOLUTE ${ARG_SELECTION})
    set(selectionfile ${ARG_SELECTION})
  else() 
    set(selectionfile ${CMAKE_CURRENT_SOURCE_DIR}/${ARG_SELECTION})
  endif()
  #---Get the list of include directories------------------
  get_directory_property(incdirs INCLUDE_DIRECTORIES)
  set(includedirs) 
  foreach( d ${incdirs})    
    set(includedirs ${includedirs} -I${d})
  endforeach()
  #---Get preprocessor definitions--------------------------
  get_directory_property(defs COMPILE_DEFINITIONS)
  foreach( d ${defs})    
   set(definitions ${definitions} -D${d})
  endforeach()
  #---Nanes and others---------------------------------------
  set(gensrcdict ${dictionary}.cpp)
  if(MSVC)
    set(gccxmlopts "--gccxmlopt=\"--gccxml-compiler cl\"")
  else()
    #set(gccxmlopts "--gccxmlopt=\'--gccxml-cxxflags -m64 \'")
    set(gccxmlopts)
  endif()  
  #set(rootmapname ${dictionary}Dict.rootmap)
  #set(rootmapopts --rootmap=${rootmapname} --rootmap-lib=${libprefix}${dictionary}Dict)
  #---Check GCCXML and get path-----------------------------
  if(GCCXML)
    get_filename_component(gccxmlpath ${GCCXML} PATH)
  else()
    message(WARNING "GCCXML not found. Install and setup your environment to find 'gccxml' executable")
  endif()
  #---Actual command----------------------------------------
  add_custom_command(OUTPUT ${gensrcdict} ${rootmapname}     
                     COMMAND ${GENREFLEX_EXECUTABLE} ${headerfiles} -o ${gensrcdict} ${gccxmlopts} ${rootmapopts} --select=${selectionfile}
                             --gccxmlpath=${gccxmlpath} ${ARG_OPTIONS} ${includedirs} ${definitions}
                     DEPENDS ${headerfiles} ${selectionfile})
 endfunction()
--- a/cmake/FindSphinx.cmake
+++ b/cmake/FindSphinx.cmake
@ -1,11 +0,0 @@
 #Look for an executable called sphinx-build
 find_program(SPHINX_EXECUTABLE
             NAMES sphinx-build sphinx-build-3.6
             DOC "Path to sphinx-build executable")
 include(FindPackageHandleStandardArgs)
 #Handle standard arguments to find_package like REQUIRED and QUIET
 find_package_handle_standard_args(Sphinx
                                  "Failed to find sphinx-build executable"
                                  SPHINX_EXECUTABLE)
--- a/cmake/ParseAndAddCatchTests.cmake
+++ b/cmake/ParseAndAddCatchTests.cmake
@ -1,203 +0,0 @@
 #==================================================================================================#
 #  supported macros                                                                                #
 #    - TEST_CASE,                                                                                  #
 #    - SCENARIO,                                                                                   #
 #    - TEST_CASE_METHOD,                                                                           #
 #    - CATCH_TEST_CASE,                                                                            #
 #    - CATCH_SCENARIO,                                                                             #
 #    - CATCH_TEST_CASE_METHOD.                                                                     #
 #                                                                                                  #
 #  Usage                                                                                           #
 # 1. make sure this module is in the path or add this otherwise:                                   #
 #    set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_SOURCE_DIR}/cmake.modules/")              #
 # 2. make sure that you've enabled testing option for the project by the call:                     #
 #    enable_testing()                                                                              #
 # 3. add the lines to the script for testing target (sample CMakeLists.txt):                       #
 #        project(testing_target)                                                                   #
 #        set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_SOURCE_DIR}/cmake.modules/")          #
 #        enable_testing()                                                                          #
 #                                                                                                  #
 #        find_path(CATCH_INCLUDE_DIR "catch.hpp")                                                  #
 #        include_directories(${INCLUDE_DIRECTORIES} ${CATCH_INCLUDE_DIR})                          #
 #                                                                                                  #
 #        file(GLOB SOURCE_FILES "*.cpp")                                                           #
 #        add_executable(${PROJECT_NAME} ${SOURCE_FILES})                                           #
 #                                                                                                  #
 #        include(ParseAndAddCatchTests)                                                            #
 #        ParseAndAddCatchTests(${PROJECT_NAME})                                                    #
 #                                                                                                  #
 # The following variables affect the behavior of the script:                                       #
 #                                                                                                  #
 #    PARSE_CATCH_TESTS_VERBOSE (Default OFF)                                                       #
 #    -- enables debug messages                                                                     #
 #    PARSE_CATCH_TESTS_NO_HIDDEN_TESTS (Default OFF)                                               #
 #    -- excludes tests marked with [!hide], [.] or [.foo] tags                                     #
 #    PARSE_CATCH_TESTS_ADD_FIXTURE_IN_TEST_NAME (Default ON)                                       #
 #    -- adds fixture class name to the test name                                                   #
 #    PARSE_CATCH_TESTS_ADD_TARGET_IN_TEST_NAME (Default ON)                                        #
 #    -- adds cmake target name to the test name                                                    #
 #    PARSE_CATCH_TESTS_ADD_TO_CONFIGURE_DEPENDS (Default OFF)                                      #
 #    -- causes CMake to rerun when file with tests changes so that new tests will be discovered    #
 #                                                                                                  #
 # One can also set (locally) the optional variable OptionalCatchTestLauncher to precise the way    #
 # a test should be run. For instance to use test MPI, one can write                                #
 #     set(OptionalCatchTestLauncher ${MPIEXEC} ${MPIEXEC_NUMPROC_FLAG} ${NUMPROC})                 #
 # just before calling this ParseAndAddCatchTests function                                          #
 #                                                                                                  #
 #==================================================================================================#
 cmake_minimum_required(VERSION 2.8.8)
 option(PARSE_CATCH_TESTS_VERBOSE "Print Catch to CTest parser debug messages" OFF)
 option(PARSE_CATCH_TESTS_NO_HIDDEN_TESTS "Exclude tests with [!hide], [.] or [.foo] tags" OFF)
 option(PARSE_CATCH_TESTS_ADD_FIXTURE_IN_TEST_NAME "Add fixture class name to the test name" ON)
 option(PARSE_CATCH_TESTS_ADD_TARGET_IN_TEST_NAME "Add target name to the test name" ON)
 option(PARSE_CATCH_TESTS_ADD_TO_CONFIGURE_DEPENDS "Add test file to CMAKE_CONFIGURE_DEPENDS property" OFF)
 function(PrintDebugMessage)
    if(PARSE_CATCH_TESTS_VERBOSE)
            message(STATUS "ParseAndAddCatchTests: ${ARGV}")
    endif()
 endfunction()
 # This removes the contents between
 #  - block comments (i.e. /* ... */)
 #  - full line comments (i.e. // ... )
 # contents have been read into '${CppCode}'.
 # !keep partial line comments
 function(RemoveComments CppCode)
  string(ASCII 2 CMakeBeginBlockComment)
  string(ASCII 3 CMakeEndBlockComment)
  string(REGEX REPLACE "/\\*" "${CMakeBeginBlockComment}" ${CppCode} "${${CppCode}}")
  string(REGEX REPLACE "\\*/" "${CMakeEndBlockComment}" ${CppCode} "${${CppCode}}")
  string(REGEX REPLACE "${CMakeBeginBlockComment}[^${CMakeEndBlockComment}]*${CMakeEndBlockComment}" "" ${CppCode} "${${CppCode}}")
  string(REGEX REPLACE "\n[ \t]*//+[^\n]+" "\n" ${CppCode} "${${CppCode}}")
  set(${CppCode} "${${CppCode}}" PARENT_SCOPE)
 endfunction()
 # Worker function
 function(ParseFile SourceFile TestTarget)
    # According to CMake docs EXISTS behavior is well-defined only for full paths.
    get_filename_component(SourceFile ${SourceFile} ABSOLUTE)
    if(NOT EXISTS ${SourceFile})
        message(WARNING "Cannot find source file: ${SourceFile}")
        return()
    endif()
    PrintDebugMessage("parsing ${SourceFile}")
    file(STRINGS ${SourceFile} Contents NEWLINE_CONSUME)
    # Remove block and fullline comments
    RemoveComments(Contents)
    # Find definition of test names
    string(REGEX MATCHALL "[ \t]*(CATCH_)?(TEST_CASE_METHOD|SCENARIO|TEST_CASE)[ \t]*\\([^\)]+\\)+[ \t\n]*{+[ \t]*(//[^\n]*[Tt][Ii][Mm][Ee][Oo][Uu][Tt][ \t]*[0-9]+)*" Tests "${Contents}")
    if(PARSE_CATCH_TESTS_ADD_TO_CONFIGURE_DEPENDS AND Tests)
      PrintDebugMessage("Adding ${SourceFile} to CMAKE_CONFIGURE_DEPENDS property")
      set_property(
        DIRECTORY
        APPEND
        PROPERTY CMAKE_CONFIGURE_DEPENDS ${SourceFile}
      )
    endif()
    foreach(TestName ${Tests})
        # Strip newlines
        string(REGEX REPLACE "\\\\\n|\n" "" TestName "${TestName}")
        # Get test type and fixture if applicable
        string(REGEX MATCH "(CATCH_)?(TEST_CASE_METHOD|SCENARIO|TEST_CASE)[ \t]*\\([^,^\"]*" TestTypeAndFixture "${TestName}")
        string(REGEX MATCH "(CATCH_)?(TEST_CASE_METHOD|SCENARIO|TEST_CASE)" TestType "${TestTypeAndFixture}")
        string(REGEX REPLACE "${TestType}\\([ \t]*" "" TestFixture "${TestTypeAndFixture}")
        # Get string parts of test definition
        string(REGEX MATCHALL "\"+([^\\^\"]|\\\\\")+\"+" TestStrings "${TestName}")
        # Strip wrapping quotation marks
        string(REGEX REPLACE "^\"(.*)\"$" "\\1" TestStrings "${TestStrings}")
        string(REPLACE "\";\"" ";" TestStrings "${TestStrings}")
        # Validate that a test name and tags have been provided
        list(LENGTH TestStrings TestStringsLength)
        if(TestStringsLength GREATER 2 OR TestStringsLength LESS 1)
            message(FATAL_ERROR "You must provide a valid test name and tags for all tests in ${SourceFile}")
        endif()
        # Assign name and tags
        list(GET TestStrings 0 Name)
        if("${TestType}" STREQUAL "SCENARIO")
            set(Name "Scenario: ${Name}")
        endif()
        if(PARSE_CATCH_TESTS_ADD_FIXTURE_IN_TEST_NAME AND TestFixture)
            set(CTestName "${TestFixture}:${Name}")
        else()
            set(CTestName "${Name}")
        endif()
        if(PARSE_CATCH_TESTS_ADD_TARGET_IN_TEST_NAME)
            set(CTestName "${TestTarget}:${CTestName}")
        endif()
        # add target to labels to enable running all tests added from this target
        set(Labels ${TestTarget})
        if(TestStringsLength EQUAL 2)
            list(GET TestStrings 1 Tags)
            string(TOLOWER "${Tags}" Tags)
            # remove target from labels if the test is hidden
            if("${Tags}" MATCHES ".*\\[!?(hide|\\.)\\].*")
                list(REMOVE_ITEM Labels ${TestTarget})
            endif()
            string(REPLACE "]" ";" Tags "${Tags}")
            string(REPLACE "[" "" Tags "${Tags}")
        else()
          # unset tags variable from previous loop
          unset(Tags)
        endif()
        list(APPEND Labels ${Tags})
        list(FIND Labels "!hide" IndexOfHideLabel)
        set(HiddenTagFound OFF)
        foreach(label ${Labels})
            string(REGEX MATCH "^!hide|^\\." result ${label})
            if(result)
                set(HiddenTagFound ON)
                break()
            endif(result)
        endforeach(label)
        if(PARSE_CATCH_TESTS_NO_HIDDEN_TESTS AND ${HiddenTagFound} AND ${CMAKE_VERSION} VERSION_LESS "3.9")
            PrintDebugMessage("Skipping test \"${CTestName}\" as it has [!hide], [.] or [.foo] label")
        else()
            PrintDebugMessage("Adding test \"${CTestName}\"")
            if(Labels)
                PrintDebugMessage("Setting labels to ${Labels}")
            endif()
            # Escape commas in the test spec
            string(REPLACE "," "\\," Name ${Name})
            # Add the test and set its properties
            add_test(NAME "\"${CTestName}\"" COMMAND ${OptionalCatchTestLauncher} ${TestTarget} ${Name} ${AdditionalCatchParameters})
            # Old CMake versions do not document VERSION_GREATER_EQUAL, so we use VERSION_GREATER with 3.8 instead
            if(PARSE_CATCH_TESTS_NO_HIDDEN_TESTS AND ${HiddenTagFound} AND ${CMAKE_VERSION} VERSION_GREATER "3.8")
                PrintDebugMessage("Setting DISABLED test property")
                set_tests_properties("\"${CTestName}\"" PROPERTIES DISABLED ON)
            else()
                set_tests_properties("\"${CTestName}\"" PROPERTIES FAIL_REGULAR_EXPRESSION "No tests ran"
                                                        LABELS "${Labels}")
            endif()
        endif()
    endforeach()
 endfunction()
 # entry point
 function(ParseAndAddCatchTests TestTarget)
    PrintDebugMessage("Started parsing ${TestTarget}")
    get_target_property(SourceFiles ${TestTarget} SOURCES)
    PrintDebugMessage("Found the following sources: ${SourceFiles}")
    foreach(SourceFile ${SourceFiles})
        ParseFile(${SourceFile} ${TestTarget})
    endforeach()
    PrintDebugMessage("Finished parsing ${TestTarget}")
 endfunction()
--- a/cmake/SlsAddFlag.cmake
+++ b/cmake/SlsAddFlag.cmake
@ -1,64 +0,0 @@
 include(CheckCXXCompilerFlag)
 include(CheckCCompilerFlag)
 function(enable_cxx_warning flag target)
    string(REPLACE "-W" "HAS_" flag_name ${flag})
    check_cxx_compiler_flag(${flag} ${flag_name})
    if(${flag_name})
        target_compile_options(${target} INTERFACE ${flag})
        message(STATUS "Adding: ${flag} to ${target}")
    else()
        message(STATUS "Flag: ${flag} not supported")
    endif()
 endfunction()
 function(enable_c_warning flag target)
    string(REPLACE "-W" "HAS_" flag_name ${flag})
    check_c_compiler_flag(${flag} ${flag_name})
    if(${flag_name})
        target_compile_options(${target} INTERFACE ${flag})
        message(STATUS "Adding: ${flag} to ${target}")
    else()
        message(STATUS "Flag: ${flag} not supported")
    endif()
 endfunction()
 function(disable_cxx_warning flag target)
    string(REPLACE "-W" "HAS_" flag_name ${flag})
    check_cxx_compiler_flag(${flag} ${flag_name})
    if(${flag_name})
        string(REPLACE "-W" "-Wno-" neg_flag ${flag})
        message(STATUS "Adding: ${neg_flag} to ${target}")
        target_compile_options(${target} INTERFACE ${neg_flag})
    else()
        message(STATUS "Warning: ${flag} not supported no need to disable")
    endif()
 endfunction()
 function(disable_c_warning flag target)
    string(REPLACE "-W" "HAS_" flag_name ${flag})
    check_c_compiler_flag(${flag} ${flag_name})
    if(${flag_name})
        string(REPLACE "-W" "-Wno-" neg_flag ${flag})
        message(STATUS "Adding: ${neg_flag} to ${target}")
        target_compile_options(${target} INTERFACE ${neg_flag})
    else()
        message(STATUS "Warning: ${flag} not supported no need to disable")
    endif()
 endfunction()
 function(sls_disable_c_warning flag)
    disable_c_warning(${flag} slsProjectCSettings)
 endfunction()
 function(sls_enable_cxx_warning flag)
    enable_cxx_warning(${flag} slsProjectWarnings)
 endfunction()
 function(sls_disable_cxx_warning flag)
    disable_cxx_warning(${flag} slsProjectWarnings)
 endfunction()
--- a/cmake/clang-format.cmake
+++ b/cmake/clang-format.cmake
@ -1,47 +0,0 @@
 # A CMake script to find all source files and setup clang-format targets for them
 # Find all source files
 set(ClangFormat_CXX_FILE_EXTENSIONS ${ClangFormat_CXX_FILE_EXTENSIONS} *.cpp *.h *.cxx *.hxx *.hpp *.cc *.ipp *.c)
 file(GLOB_RECURSE ALL_SOURCE_FILES ${ClangFormat_CXX_FILE_EXTENSIONS})
 # Don't include some common build folders
 set(ClangFormat_EXCLUDE_PATTERNS ${ClangFormat_EXCLUDE_PATTERNS} "/CMakeFiles/" "cmake")
 # get all project files file
 foreach (SOURCE_FILE ${ALL_SOURCE_FILES}) 
    foreach (EXCLUDE_PATTERN ${ClangFormat_EXCLUDE_PATTERNS})
        string(FIND ${SOURCE_FILE} ${EXCLUDE_PATTERN} EXCLUDE_FOUND) 
        if (NOT ${EXCLUDE_FOUND} EQUAL -1) 
            list(REMOVE_ITEM ALL_SOURCE_FILES ${SOURCE_FILE})
        endif () 
    endforeach ()
 endforeach ()
 #target for formatting soruce files
 add_custom_target(format
    COMMENT "Running clang-format to change files"
    COMMAND ${ClangFormat_BIN}
    -style=file
    -i
    ${ALL_SOURCE_FILES}
 )
 #target to check format on source files 
 add_custom_target(format-check
    COMMENT "Checking clang-format changes"
    # Use ! to negate the result for correct output
    COMMAND !
    ${ClangFormat_BIN}
    -style=file
    -output-replacements-xml
    ${ALL_SOURCE_FILES}
    | grep -q "replacement offset" 
 )
 # debug to check which file will be formatted
 add_custom_target(
    listformatfiles
    COMMAND
    echo ${ALL_SOURCE_FILES}
 )
--- a/cmake/helpers.cmake
+++ b/cmake/helpers.cmake
@ -1,46 +0,0 @@
 function(default_build_type val)
 if (NOT CMAKE_BUILD_TYPE AND NOT CMAKE_CONFIGURATION_TYPES)
  message(STATUS "No build type selected, default to Release")
  set(CMAKE_BUILD_TYPE ${val} CACHE STRING "Build type (default ${val})" FORCE)
 endif()
 endfunction()
 function(set_std_fs_lib)
 # from pybind11
 # Check if we need to add -lstdc++fs or -lc++fs or nothing
 if(DEFINED CMAKE_CXX_STANDARD AND CMAKE_CXX_STANDARD LESS 17)
  set(STD_FS_NO_LIB_NEEDED TRUE)
 elseif(MSVC)
  set(STD_FS_NO_LIB_NEEDED TRUE)
 else()
  file(
    WRITE ${CMAKE_CURRENT_BINARY_DIR}/main.cpp
    "#include <filesystem>\nint main(int argc, char ** argv) {\n  std::filesystem::path p(argv[0]);\n  return p.string().length();\n}"
  )
  try_compile(
    STD_FS_NO_LIB_NEEDED ${CMAKE_CURRENT_BINARY_DIR}
    SOURCES ${CMAKE_CURRENT_BINARY_DIR}/main.cpp
    COMPILE_DEFINITIONS -std=c++17)
  try_compile(
    STD_FS_NEEDS_STDCXXFS ${CMAKE_CURRENT_BINARY_DIR}
    SOURCES ${CMAKE_CURRENT_BINARY_DIR}/main.cpp
    COMPILE_DEFINITIONS -std=c++17
    LINK_LIBRARIES stdc++fs)
  try_compile(
    STD_FS_NEEDS_CXXFS ${CMAKE_CURRENT_BINARY_DIR}
    SOURCES ${CMAKE_CURRENT_BINARY_DIR}/main.cpp
    COMPILE_DEFINITIONS -std=c++17
    LINK_LIBRARIES c++fs)
 endif()
 if(${STD_FS_NEEDS_STDCXXFS})
  set(STD_FS_LIB stdc++fs PARENT_SCOPE)
 elseif(${STD_FS_NEEDS_CXXFS})
  set(STD_FS_LIB c++fs PARENT_SCOPE)
 elseif(${STD_FS_NO_LIB_NEEDED})
  set(STD_FS_LIB "" PARENT_SCOPE)
 else()
  message(WARNING "Unknown C++17 compiler - not passing -lstdc++fs")
  set(STD_FS_LIB "")
 endif()
 endfunction()
--- a/cmake/package_config.cmake
+++ b/cmake/package_config.cmake
@ -1,35 +0,0 @@
 # This cmake code creates the configuration that is found and used by
 # find_package() of another cmake project
 # get lower and upper case project name for the configuration files
 # configure and install the configuration files
 include(CMakePackageConfigHelpers)
 configure_package_config_file(
  "${CMAKE_SOURCE_DIR}/cmake/project-config.cmake.in"
  "${PROJECT_BINARY_DIR}/${PROJECT_NAME_LOWER}-config.cmake"
  INSTALL_DESTINATION ${CMAKE_INSTALL_LIBDIR}/cmake/${PROJECT_NAME_LOWER}
  PATH_VARS CMAKE_INSTALL_DIR)
 write_basic_package_version_file(
  "${PROJECT_BINARY_DIR}/${PROJECT_NAME_LOWER}-config-version.cmake"
  VERSION ${PROJECT_VERSION}
  COMPATIBILITY SameMajorVersion
 )
 install(FILES
  "${PROJECT_BINARY_DIR}/${PROJECT_NAME_LOWER}-config.cmake"
  "${PROJECT_BINARY_DIR}/${PROJECT_NAME_LOWER}-config-version.cmake"
  COMPONENT devel
  DESTINATION ${CMAKE_INSTALL_DIR}
 )
 if (PROJECT_LIBRARIES OR PROJECT_STATIC_LIBRARIES)
  install(
    EXPORT "${TARGETS_EXPORT_NAME}"
    FILE ${PROJECT_NAME_LOWER}-targets.cmake
    DESTINATION ${CMAKE_INSTALL_DIR}
    )
 endif ()
--- a/cmake/project-config.cmake.in
+++ b/cmake/project-config.cmake.in
@ -1,26 +0,0 @@
 # Config file for @PROJECT_NAME_LOWER@
 #
 # It defines the following variables:
 #
 # @PROJECT_NAME_UPPER@_INCLUDE_DIRS     - include directory
 # @PROJECT_NAME_UPPER@_LIBRARIES        - all dynamic libraries
 # @PROJECT_NAME_UPPER@_STATIC_LIBRARIES - all static libraries
@PACKAGE_INIT@
 include(CMakeFindDependencyMacro)
 set(SLS_USE_HDF5 "@SLS_USE_HDF5@")
 find_dependency(Threads)
 # Add optional dependencies here
 if (SLS_USE_HDF5)
    find_dependency(HDF5)
 endif ()
 set_and_check(@PROJECT_NAME_UPPER@_CMAKE_INCLUDE_DIRS "@PACKAGE_CMAKE_INSTALL_DIR@")
 include("${CMAKE_CURRENT_LIST_DIR}/@TARGETS_EXPORT_NAME@.cmake")
 check_required_components("@PROJECT_NAME@")
--- a/cmake/project_version.cc.in
+++ b/cmake/project_version.cc.in
@ -1,14 +0,0 @@
 #include "project_version.h"
 /// project version as major.minor.patch string
 const char* @PROJECT_NAME@_runtime_project_version(){ return "@PROJECT_VERSION@"; }
 /// package version as string, possibly with git commit: v1.2.3+4+g56789abc
 const char* @PROJECT_NAME@_runtime_package_version(){ return "@PACKAGE_VERSION@"; }
 /// project version as integer: major * 10000 + minor * 100 + patch
 int @PROJECT_NAME@_runtime_version_int()  { return @PROJECT_VERSION_INT@; }
 /// project version as integer: major
 int @PROJECT_NAME@_runtime_version_major(){ return @PACKAGE_VERSION_MAJOR@; }
 /// project version as integer: minor
 int @PROJECT_NAME@_runtime_version_minor(){ return @PACKAGE_VERSION_MINOR@; }
 /// project version as integer: patch
 int @PROJECT_NAME@_runtime_version_patch(){ return @PACKAGE_VERSION_PATCH@; }
--- a/cmake/project_version.cmake
+++ b/cmake/project_version.cmake
@ -1,154 +0,0 @@
 #
 # Sets PROJECT_VERSION and PACKAGE_VERSION
 #
 # Don't set PROJECT_VERSION to empty string when no VERSION is given to project() command.
 #if(POLICY CMP0048)
 #  cmake_policy(SET CMP0048 OLD)
 #endif()
 # Split a version number into separate components
 # version the version number to split
 # major variable name to store the major version in
 # minor variable name to store the minor version in
 # patch variable name to store the patch version in
 # extra variable name to store a version suffix in
 function(version_split version major minor patch extra)
    string(REGEX MATCH "([0-9]+)\\.([0-9]+)\\.([0-9]+)(.*)?" version_valid ${version})
    if(version_valid)
        string(REGEX REPLACE "([0-9]+)\\.([0-9]+)\\.([0-9]+)(.*)?" "\\1;\\2;\\3;\\4" VERSION_MATCHES ${version})
        list(GET VERSION_MATCHES 0 version_major)
        set(${major} ${version_major} PARENT_SCOPE)
        list(GET VERSION_MATCHES 1 version_minor)
        set(${minor} ${version_minor} PARENT_SCOPE)
        list(GET VERSION_MATCHES 2 version_patch)
        set(${patch} ${version_patch} PARENT_SCOPE)
        list(GET VERSION_MATCHES 3 version_extra)
        set(${extra} ${version_extra} PARENT_SCOPE)
    else(version_valid)
        message(AUTHOR_WARNING "Bad version ${version}; falling back to 0 (have you made an initial release?)")
        set(${major} "0" PARENT_SCOPE)
        set(${minor} "0" PARENT_SCOPE)
        set(${patch} "0" PARENT_SCOPE)
        set(${extra} "" PARENT_SCOPE)
    endif(version_valid)
 endfunction(version_split)
 ##############################
 # get PROJECT_VERSION from git
 ##############################
 find_program(GIT_CMD git)
 mark_as_advanced(GIT_CMD)
 if (GIT_CMD)
    execute_process(COMMAND ${GIT_CMD} rev-parse --show-toplevel
            WORKING_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}
            OUTPUT_VARIABLE GIT_TOPLEVEL
            ERROR_QUIET OUTPUT_STRIP_TRAILING_WHITESPACE)
 endif()
 if (GIT_CMD AND NOT "${GIT_TOPLEVEL}" STREQUAL "")
    execute_process(COMMAND ${GIT_CMD} rev-parse --short HEAD
            WORKING_DIRECTORY ${GIT_TOPLEVEL}
            OUTPUT_VARIABLE GIT_SHA1
            OUTPUT_STRIP_TRAILING_WHITESPACE)
    #message(STATUS "GIT_SHA1: " ${GIT_SHA1})
    execute_process(COMMAND ${GIT_CMD} describe --match "*[0-9].[0-9]*" HEAD
            WORKING_DIRECTORY ${GIT_TOPLEVEL}
            OUTPUT_VARIABLE GIT_DESCRIBE
            ERROR_QUIET OUTPUT_STRIP_TRAILING_WHITESPACE)
    #message(STATUS "GIT_DESCRIBE: " ${GIT_DESCRIBE})
    # if (GIT_DESCRIBE)
    #     string(REGEX REPLACE "v?([0-9.]+).*" "\\1" GIT_VERSION ${GIT_DESCRIBE})
    #     message(STATUS "GIT_VERSION: " ${GIT_VERSION})
    #     # as package version we use the full version from git describe: 1.7.1+7+ge324c81
    #     if (GIT_DESCRIBE MATCHES ".*-g.*")
    #         # convert a git describe string to usable debian version, e.g. v1.7.1-7-ge324c81 to 1.7.1+7+ge324c81
    #         string(REGEX REPLACE "v?([0-9]*.[0-9.]*).*-([0-9]*)-([a-g0-9]*)" "\\1+\\2+\\3" GIT_FULL_VERSION ${GIT_DESCRIBE})
    #     else()
    #         # current HEAD is git tag (i.e. releaase), directly use the version
    #         set(GIT_FULL_VERSION ${GIT_VERSION})
    #     endif()
    # else ()
    #     # no (suitable) tag found
    #     set(GIT_VERSION "0.0.0")
    #     # get number of commits in repo
    #     execute_process(COMMAND ${GIT_CMD} rev-list --count HEAD
    #             WORKING_DIRECTORY ${GIT_TOPLEVEL}
    #             OUTPUT_VARIABLE GIT_COMMIT_COUNT
    #             OUTPUT_STRIP_TRAILING_WHITESPACE)
    #     set(GIT_FULL_VERSION 0.0.0+${GIT_COMMIT_COUNT}+g${GIT_SHA1})
    # endif ()
 endif ()
 # get version from package.xml if it exists
 if (EXISTS "${PROJECT_SOURCE_DIR}/package.xml")
    file(STRINGS "${PROJECT_SOURCE_DIR}/package.xml" PACKAGE_XML_VERSION_LINE REGEX <version>[0-9.]*</version>)
    string(REGEX REPLACE .*<version>\([0-9.]*\)</version>.* \\1 PACKAGE_XML_VERSION "${PACKAGE_XML_VERSION_LINE}")
    MESSAGE(STATUS "PACKAGE_XML_VERSION: " ${PACKAGE_XML_VERSION})
 endif ()
 # set version (if not already manually specified)
 # check versions from different sources and set actually used version
 if (NOT PROJECT_VERSION)
    # set PROJECT_VERSION to MAJOR.MINOR.PATCH
    # PACKAGE_VERSION can have extra info
    if (GIT_VERSION)
        set(PROJECT_VERSION ${GIT_VERSION})
        set(PACKAGE_VERSION ${GIT_FULL_VERSION})
    elseif (PACKAGE_XML_VERSION)
        set(PROJECT_VERSION ${PACKAGE_XML_VERSION})
        set(PACKAGE_VERSION ${PROJECT_VERSION})
    else ()
        message(WARNING "PROJECT_VERSION not set. Defaulting to 0.0.0")
        set(PROJECT_VERSION "0.0.0")
    endif ()
 endif ()
 # if (NOT PACKAGE_VERSION)
    # message(WARNING "PACKAGE_VERSION not set! Falling back to (${PROJECT_VERSION})")
    set(PACKAGE_VERSION ${PROJECT_VERSION})
 # endif ()
 # warn if versions don't match
 if (GIT_VERSION AND NOT GIT_VERSION MATCHES ${PROJECT_VERSION})
    message(WARNING "Version from git (${GIT_VERSION}) doesn't match PROJECT_VERSION (${PROJECT_VERSION})")
 endif()
 if (PACKAGE_XML_VERSION AND NOT PACKAGE_XML_VERSION MATCHES ${PROJECT_VERSION})
    message(WARNING "Version from package.xml (${PACKAGE_XML_VERSION}) doesn't match PROJECT_VERSION (${PROJECT_VERSION})")
 endif()
 message(STATUS "PROJECT_VERSION: " ${PROJECT_VERSION})
 message(STATUS "PACKAGE_VERSION: " ${PACKAGE_VERSION})
 version_split(${PROJECT_VERSION} PACKAGE_VERSION_MAJOR PACKAGE_VERSION_MINOR PACKAGE_VERSION_PATCH extra)
 #message(STATUS "PACKAGE_VERSION_MAJOR: " ${PACKAGE_VERSION_MAJOR})
 #message(STATUS "PACKAGE_VERSION_MINOR: " ${PACKAGE_VERSION_MINOR})
 #message(STATUS "PACKAGE_VERSION_PATCH: " ${PACKAGE_VERSION_PATCH})
 # generate an integer version number: major * 10000 + minor * 100 + patch
 math(EXPR PROJECT_VERSION_INT "${PACKAGE_VERSION_MAJOR} * 10000 + ${PACKAGE_VERSION_MINOR} * 100 + ${PACKAGE_VERSION_PATCH}")
 # make PROJECT_VERSION available as define in the project source
 #add_definitions(-DPROJECT_VERSION="${PROJECT_VERSION}")
 #add_definitions(-DPROJECT_VERSION_INT=${PROJECT_VERSION_INT})
 #add_definitions(-DPACKAGE_VERSION="${PACKAGE_VERSION}")
 #add_definitions(-DPACKAGE_VERSION_MAJOR=${PACKAGE_VERSION_MAJOR})
 #add_definitions(-DPACKAGE_VERSION_MINOR=${PACKAGE_VERSION_MINOR})
 #add_definitions(-DPACKAGE_VERSION_PATCH=${PACKAGE_VERSION_PATCH})
 # set ABI version to major.minor, which will be used for the SOVERSION
 set(abiversion "${PACKAGE_VERSION_MAJOR}.${PACKAGE_VERSION_MINOR}")
 # generate a version.h file in the binary output dir, don't forget to install it...
 string(TOUPPER "${PROJECT_NAME}" PROJECT_NAME_UPPER)
 # These files provide compile-time and runtime version information about your project.
 # To offer the version info to the users of your library, you need to
 # adapt the following lines in your respective CMakeLists.txt:
 #   add_library(<yourlibraryname> SHARED <your code files> ${CMAKE_CURRENT_BINARY_DIR}/${PROJECT_NAME}/project_version.cc)
 #   install(FILES ${CMAKE_CURRENT_BINARY_DIR}/${PROJECT_NAME}/project_version.h COMPONENT dev DESTINATION include/<your-include-dir>)
 # To use it within your library or tests you need to add the include directory:
 # > target_include_directories(yourtarget PUBLIC ${CMAKE_CURRENT_BINARY_DIR}/${PROJECT_NAME})
 configure_file(${CMAKE_CURRENT_LIST_DIR}/project_version.h.in  ${PROJECT_NAME}/project_version.h @ONLY)
 configure_file(${CMAKE_CURRENT_LIST_DIR}/project_version.cc.in ${PROJECT_NAME}/project_version.cc @ONLY)
--- a/cmake/project_version.h.in
+++ b/cmake/project_version.h.in
@ -1,34 +0,0 @@
 #ifndef @PROJECT_NAME_UPPER@_VERSION_H_
 #define @PROJECT_NAME_UPPER@_VERSION_H_
 /// project version as major.minor.patch string
 #define @PROJECT_NAME_UPPER@_VERSION "@PROJECT_VERSION@"
 /// project version as integer: major * 10000 + minor * 100 + patch
 #define @PROJECT_NAME_UPPER@_VERSION_INT @PROJECT_VERSION_INT@
 #define @PROJECT_NAME_UPPER@_VERSION_MAJOR @PACKAGE_VERSION_MAJOR@
 #define @PROJECT_NAME_UPPER@_VERSION_MINOR @PACKAGE_VERSION_MINOR@
 #define @PROJECT_NAME_UPPER@_VERSION_PATCH @PACKAGE_VERSION_PATCH@
 /// package version as string, possibly with git commit: v1.2.3+4+g56789abc
 #define @PROJECT_NAME_UPPER@_PACKAGE_VERSION "@PACKAGE_VERSION@"
 ///runtime versions, where the above values are linked into a lib and therefore reflect the version
 ///of the library itself (not the version of the header at compile time of the user code)
 const char* @PROJECT_NAME@_runtime_project_version();
 const char* @PROJECT_NAME@_runtime_package_version();
 int @PROJECT_NAME@_runtime_version_int();
 int @PROJECT_NAME@_runtime_version_major();
 int @PROJECT_NAME@_runtime_version_minor();
 int @PROJECT_NAME@_runtime_version_patch();
 ///Check consistency of runtime vs compile-time version number. I.e. the header used
 ///for compilation was from the same version as the linked library.
 inline bool @PROJECT_NAME@_check_version_consistency(bool major_minor_only)
 {
  return @PROJECT_NAME@_runtime_version_major() == @PROJECT_NAME_UPPER@_VERSION_MAJOR &&
         @PROJECT_NAME@_runtime_version_minor() == @PROJECT_NAME_UPPER@_VERSION_MINOR &&
         (major_minor_only ||
          @PROJECT_NAME@_runtime_version_patch() == @PROJECT_NAME_UPPER@_VERSION_PATCH);
 }
 #endif
--- a/cmk.sh
+++ b/cmk.sh
@ -1,339 +0,0 @@
 #!/bin/bash
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 CMAKE="cmake3"
 BUILDDIR="build"
 INSTALLDIR=""
 HDF5DIR="/opt/hdf5v1.10.0"
 HDF5=0
 COMPILERTHREADS=0
 TEXTCLIENT=0
 RECEIVER=0
 GUI=0
 DEBUG=0
 PYTHON=0
 TESTS=0
 SIMULATOR=0
 CTBGUI=0
 MANUALS=0
 MANUALS_ONLY_RST=0
 MOENCHZMQ=0
 CLEAN=0
 REBUILD=0
 CMAKE_PRE=""
 CMAKE_POST=""
 usage() { echo -e "
 Usage: $0 [-b] [-c] [-d <HDF5 directory>] [-e] [-g] [-h] [-i] [-j <Number of threads>] [-k <CMake command>] [-l <Install directory>] [-m] [-n] [-p] [-r] [-s] [-t] [-u] [-z]  
 -[no option]: only make
 -b: Builds/Rebuilds CMake files normal mode
 -c: Clean
 -d: HDF5 Custom Directory
 -e: Debug mode
 -g: Build/Rebuilds gui
 -h: Builds/Rebuilds Cmake files with HDF5 package
 -i: Builds tests
 -j: Number of threads to compile through
 -k: CMake command
 -l: Install directory
 -m: Manuals
 -n: Manuals without compiling doxygen (only rst)
 -p: Builds/Rebuilds Python API
 -r: Build/Rebuilds only receiver
 -s: Simulator
 -t: Build/Rebuilds only text client
 -u: Chip Test Gui
 -z: Moench zmq processor
 Rebuild when you switch to a new build and compile in parallel:
 ./cmk.sh -bj5
 Rebuild python
 ./cmk.sh -p
 For only make:
 ./cmk.sh
 For make clean;make:
 ./cmk.sh -c
 For using hdf5 without default dir /opt/hdf5v1.10.0:
 ./cmk.sh -h
 For using hdf5 without custom dir /blabla:
 ./cmk.sh -h -d /blabla
 For rebuilding cmake without hdf5 (Use this if you had previously run with hdf5 and now you dont want it)
 ./cmk.sh -b
 For using multiple cores to compile faster:
 (all these options work)
 ./cmk.sh -j9
 ./cmk.sh -cj9 #with clean
 ./cmk.sh -hj9 #with hdf5
 ./cmk.sh -j9 -h #with hdf
 For rebuilding only certain sections
 ./cmk.sh -tg #only text client and gui
 ./cmk.sh -r #only receiver
 " ; exit 1; }
 while getopts ":bcd:eghij:k:l:mnpq:rstuz" opt ; do
 	case $opt in
 	b) 
 		echo "Building of CMake files Required"
 		REBUILD=1
 		;;
 	c) 
 		echo "Clean Required"
 		CLEAN=1
 		;;
 	d) 
 		echo "New HDF5 directory: $OPTARG" 
 		HDF5DIR=$OPTARG
 		;;
 	e)
 		echo "Compiling Options: Debug" 
 		DEBUG=1
 		;;  
 	g) 
 		echo "Compiling Options: GUI" 
 		GUI=1
 		REBUILD=1
 		;; 
 	h) 
 		echo "Building of CMake files with HDF5 option Required"
 		HDF5=1
 		REBUILD=1
 		;;
 	i)
 		echo "Compiling Options: Tests" 
 		TESTS=1
 		;;   
 	j) 
 		echo "Number of compiler threads: $OPTARG" 
 		COMPILERTHREADS=$OPTARG
 		;;
 	k)
 		echo "CMake command: $OPTARG"
 		CMAKE="$OPTARG"
 		;;
 	l)
 		echo "CMake install directory: $OPTARG"
 		INSTALLDIR="$OPTARG"
 		;;
 	m)	
 		echo "Compiling Manuals"
 		MANUALS=1
 		;;
 	n)	
 		echo "Compiling Manuals (Only RST)"
 		MANUALS_ONLY_RST=1
 		;;
 	p)
    	echo "Compiling Options: Python" 
 		PYTHON=1
 		REBUILD=1
 		;;   
 	r) 
 		echo "Compiling Options: Receiver" 
 		RECEIVER=1
 		REBUILD=1
 		;;      
 	s)
 		echo "Compiling Options: Simulator" 
 		SIMULATOR=1
 		;; 
 	t) 
    	echo "Compiling Options: Text Client" 
 		TEXTCLIENT=1
 		REBUILD=1
 		;;
 	u)
 		echo "Compiling Options: Chip Test Gui"
 		CTBGUI=1
 		;;
 	z)	
 		echo "Compiling Moench Zmq Processor"
 		MOENCHZMQ=1
 		;;
  \?)
    echo "Invalid option: -$OPTARG" 
 		usage
    exit 1
   	;;
  :)
    echo "Option -$OPTARG requires an argument."
 		usage
    exit 1
    ;;	
 	esac
 done
 #python
 if [ $PYTHON -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_USE_PYTHON=ON "
 	echo "Enabling Compile Option: Python"
 fi
 if [ $TEXTCLIENT -eq 0 ] && [ $RECEIVER -eq 0 ]  && [ $GUI -eq 0 ]; then
 	#CMAKE_POST+=" -DSLS_USE_TEXTCLIENT=ON -DSLS_USE_RECEIVER=ON -DSLS_USE_GUI=ON "
 	CMAKE_POST+=" -DSLS_USE_TEXTCLIENT=ON -DSLS_USE_RECEIVER=ON -DSLS_USE_GUI=OFF "
    echo "Enabling Compile Option: TextClient, Receiver and GUI"
 else 
    if [ $TEXTCLIENT -eq 1 ]; then
        CMAKE_POST+=" -DSLS_USE_TEXTCLIENT=ON -DSLS_USE_RECEIVER=OFF "
        echo "Enabling Compile Option: TextClient"
    fi
    if [ $RECEIVER -eq 1 ]; then
        CMAKE_POST+=" -DSLS_USE_RECEIVER=ON "
        echo "Enabling Compile Option: Receiver"
    fi              
    if [ $GUI -eq 1 ]; then
        CMAKE_POST+=" -DSLS_USE_GUI=ON "
        echo "Enabling Compile Option: GUI"
    fi
 fi
 #build dir doesnt exist
 if [ ! -d "$BUILDDIR" ] ; then
 	echo "No Build Directory. Building of Cmake files required"
 	mkdir $BUILDDIR;
 	REBUILD=1
 else
 	#rebuild not requested, but no makefile
 	if [ $REBUILD -eq 0 ] && [ ! -f "$BUILDDIR/Makefile" ] ; then
 		echo "No Makefile. Building of Cmake files required"
 		REBUILD=1
 	fi
 fi
 #Debug
 if [ $DEBUG -eq 1 ]; then
 #	CMAKE_POST+=" -DCMAKE_BUILD_TYPE=Debug "
 	CMAKE_POST+=" -DCMAKE_BUILD_TYPE=Debug -DSLS_USE_SANITIZER=ON "
 	echo "Debug Option enabled"
 fi 
 #Simulator
 if [ $SIMULATOR -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_USE_SIMULATOR=ON "
 	echo "Simulator Option enabled"
 fi 
 #Manuals
 if [ $MANUALS -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_BUILD_DOCS=ON "
 	echo "Manuals Option enabled"
 fi 
 #Moench zmq processor
 if [ $MOENCHZMQ -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_USE_MOENCH=ON "
 	echo "Moench Zmq Processor Option enabled"
 fi 
 #Chip Test Gui
 if [ $CTBGUI -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_USE_CTBGUI=ON "
 	echo "CTB Gui Option enabled"
 fi 
 #Tests
 if [ $TESTS -eq 1 ]; then
 	CMAKE_POST+=" -DSLS_USE_TESTS=ON -DSLS_USE_INTEGRATION_TESTS=ON"
 	echo "Tests Option enabled"
 fi 
 #hdf5 rebuild
 if [ $HDF5 -eq 1 ]; then
 #	CMAKE_PRE+="HDF5_ROOT="$HDF5DIR
 	CMAKE_POST+=" -DCMAKE_INSTALL_PREFIX="$HDF5DIR
 	CMAKE_POST+=" -DSLS_USE_HDF5=ON "
 #normal mode rebuild
 else
 	CMAKE_POST+=" -DSLS_USE_HDF5=OFF "
 fi
 #install
 if [ -n "$INSTALLDIR" ]; then
 	CMAKE_POST+=" -DCMAKE_INSTALL_PREFIX=$INSTALLDIR"
 	CMAKE_POST+=" -DCMAKE_FIND_ROOT_PATH=$INSTALLDIR"
 fi
 #enter build dir
 #pushd $BUILDDIR;
 cd $BUILDDIR;
 echo "in "$PWD
 #cmake
 if [ $REBUILD -eq 1 ]; then
 	rm -f CMakeCache.txt
 	BUILDCOMMAND="$CMAKE_PRE $CMAKE $CMAKE_POST .."
 	echo $BUILDCOMMAND
 	eval $BUILDCOMMAND
 fi
 #make clean
 if [ $CLEAN -eq 1 ]; then
 	make clean;
 fi
 #make
 if [ $COMPILERTHREADS -gt 0 ]; then
 	if [ $MANUALS -eq 0 ] && [ $MANUALS_ONLY_RST -eq 0 ]; then
 		BUILDCOMMAND="make -j$COMPILERTHREADS"
 		echo $BUILDCOMMAND
 		eval $BUILDCOMMAND
 	else
 		if [ $MANUALS -eq 1 ]; then
 			BUILDCOMMAND="make docs -j$COMPILERTHREADS"
 			echo $BUILDCOMMAND
 			eval $BUILDCOMMAND
 		else
 			BUILDCOMMAND="make rst -j$COMPILERTHREADS"
 			echo $BUILDCOMMAND
 			eval $BUILDCOMMAND		
 		fi
 	fi 
 else
 	if [ $MANUALS -eq 0 ] && [ $MANUALS_ONLY_RST -eq 0 ]; then
 		echo "make"
 		make
 	else
 		if [ $MANUALS -eq 1 ]; then
 			echo "make docs"
 			make docs
 		else
 			echo "make rst"
 			make rst
 		fi
 	fi 
 fi
 #install
 if [ -n "$INSTALLDIR" ]; then
 	make install
 #	popd
 #	$CMAKE --build $BUILDDIR --target install
 fi
--- a/conda-recipes/main-library/build.sh
+++ b/conda-recipes/main-library/build.sh
@ -1,28 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 if [ ! -d "build" ]; then
    mkdir build
 fi
 if [ ! -d "install" ]; then
    mkdir install
 fi
 cd build
 cmake .. -G Ninja \
      -DCMAKE_PREFIX_PATH=$CONDA_PREFIX \
      -DCMAKE_INSTALL_PREFIX=install \
      -DSLS_USE_TEXTCLIENT=ON \
      -DSLS_USE_RECEIVER=ON \
      -DSLS_USE_GUI=ON \
      -DSLS_USE_MOENCH=ON\
      -DSLS_USE_TESTS=ON \
      -DSLS_USE_PYTHON=OFF \
      -DCMAKE_BUILD_TYPE=Release \
      -DSLS_USE_HDF5=OFF \
 NCORES=$(getconf _NPROCESSORS_ONLN)
 echo "Building using: ${NCORES} cores"
 cmake --build . -- -j${NCORES}
 cmake --build . --target install
 CTEST_OUTPUT_ON_FAILURE=1 ctest -j 1
--- a/conda-recipes/main-library/conda_build_config.yaml
+++ b/conda-recipes/main-library/conda_build_config.yaml
@ -1,13 +0,0 @@
 c_compiler:
  - gcc                        # [linux]
 c_stdlib:
  - sysroot                    # [linux]
 cxx_compiler:
  - gxx                        # [linux]
 c_stdlib_version:              # [linux]
  - 2.17                       # [linux]
--- a/conda-recipes/main-library/copy_gui.sh
+++ b/conda-recipes/main-library/copy_gui.sh
@ -1,5 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 #Copy the GUI 
 mkdir -p $PREFIX/bin
 cp build/install/bin/slsDetectorGui $PREFIX/bin/.
--- a/conda-recipes/main-library/copy_lib.sh
+++ b/conda-recipes/main-library/copy_lib.sh
@ -1,24 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 mkdir -p $PREFIX/lib
 mkdir -p $PREFIX/bin
 mkdir -p $PREFIX/include/sls
 #Shared and static libraries
 cp build/install/lib/* $PREFIX/lib/
 #Binaries
 cp build/install/bin/sls_detector_acquire $PREFIX/bin/.
 cp build/install/bin/sls_detector_acquire_zmq $PREFIX/bin/.
 cp build/install/bin/sls_detector_get $PREFIX/bin/.
 cp build/install/bin/sls_detector_put $PREFIX/bin/.
 cp build/install/bin/sls_detector_help $PREFIX/bin/.
 cp build/install/bin/sls_detector $PREFIX/bin/.
 cp build/install/bin/slsReceiver $PREFIX/bin/.
 cp build/install/bin/slsMultiReceiver $PREFIX/bin/.
 cp build/install/bin/slsFrameSynchronizer $PREFIX/bin/.
 cp build/install/include/sls/* $PREFIX/include/sls
 cp -rv build/install/share $PREFIX
--- a/conda-recipes/main-library/copy_moench.sh
+++ b/conda-recipes/main-library/copy_moench.sh
@ -1,6 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 #Copy the Moench executables 
 mkdir -p $PREFIX/bin
 cp build/install/bin/moench* $PREFIX/bin/.
--- a/conda-recipes/main-library/meta.yaml
+++ b/conda-recipes/main-library/meta.yaml
@ -1,79 +0,0 @@
 source:
  path: ../..
 {% set version = load_file_regex(load_file = 'VERSION', regex_pattern = '(\d+(?:\.\d+)*(?:[\+\w\.]+))').group(1) %}
 package:
  name: sls_detector_software
  version: {{ version }} 
 build:
  number: 0
  binary_relocation: True
  rpaths: 
    - lib/
 requirements:
  build:
    - {{ compiler('c') }}
    - {{ stdlib("c") }}
    - {{ compiler('cxx') }}
    - git
    - cmake
    - ninja
    - qt 5.*
  host:
    - libstdcxx-ng
    - libgcc-ng
    - libgl-devel  # [linux]
    - libtiff
    - zlib
    - expat
  run:
    - libstdcxx-ng
    - libgcc-ng 
 outputs:
  - name: slsdetlib
    script: copy_lib.sh
    requirements:
      build:
        - {{ compiler('c') }}
        - {{ stdlib("c") }}
        - {{ compiler('cxx') }}
      run: 
        - libstdcxx-ng
        - libgcc-ng
  - name: slsdetgui
    script: copy_gui.sh
    requirements:
      build:
        - {{ compiler('c') }}
        - {{compiler('cxx')}}
        - {{ pin_subpackage('slsdetlib', exact=True) }}
      run:
        - {{ pin_subpackage('slsdetlib', exact=True) }}
        - qt 5.*
  - name: moenchzmq
    script: copy_moench.sh
    requirements:
      build:
        - {{ compiler('c') }}
        - {{compiler('cxx')}}
        - {{ pin_subpackage('slsdetlib', exact=True) }}
      run:
        - {{ pin_subpackage('slsdetlib', exact=True) }}
--- a/conda-recipes/python-client/conda_build_config.yaml
+++ b/conda-recipes/python-client/conda_build_config.yaml
@ -1,16 +0,0 @@
 python:
    - 3.11 
    - 3.12
    - 3.13
 c_compiler:
  - gcc                        # [linux]
 c_stdlib:
  - sysroot                    # [linux]
 cxx_compiler:
  - gxx                        # [linux]
 c_stdlib_version:              # [linux]
  - 2.17                       # [linux]
--- a/conda-recipes/python-client/meta.yaml
+++ b/conda-recipes/python-client/meta.yaml
@ -1,45 +0,0 @@
 source:
  path: ../..
 {% set version = load_file_regex(load_file = 'VERSION', regex_pattern = '(\d+(?:\.\d+)*(?:[\+\w\.]+))').group(1) %}
 package:
  name: slsdet
  version: {{ version }} 
 build:
  number: 0
  script:
    - unset CMAKE_GENERATOR && {{ PYTHON }} -m pip install . -vv  # [not win]
 requirements:
  build:
    - python {{python}}
    - {{ compiler('c') }}
    - {{ stdlib("c") }}
    - {{ compiler('cxx') }}
  host:
    - cmake
    - ninja
    - python {{python}}
    - pip
    - scikit-build-core
    - pybind11 >=2.13.0
    - fmt
    - zeromq
    - nlohmann_json
    - catch2
  run:
    - python {{python}}
    - numpy
 test:
  imports:
    - slsdet
 about:
  summary: An example project built with pybind11 and scikit-build.
  # license_file: LICENSE
--- a/docs/CMakeLists.txt
+++ b/docs/CMakeLists.txt
@ -1,111 +0,0 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
 find_package(Doxygen REQUIRED)
 find_package(Sphinx REQUIRED)
 # Utility to generate command line documentation
 add_executable(gendoc src/gendoc.cpp)
 # This is a bit hacky, but better than exposing stuff? 
 target_include_directories(gendoc PRIVATE ${PROJECT_SOURCE_DIR}/slsDetectorSoftware/src)
 target_link_libraries(gendoc PRIVATE
  slsDetectorShared
 )
 set_target_properties(gendoc PROPERTIES 
  RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin
 )
 #Doxygen
 set(DOXYGEN_IN ${CMAKE_CURRENT_SOURCE_DIR}/Doxyfile.in)
 set(DOXYGEN_OUT ${CMAKE_CURRENT_BINARY_DIR}/Doxyfile)
 configure_file(${DOXYGEN_IN} ${DOXYGEN_OUT} @ONLY)
 #Sphinx
 set(SPHINX_SOURCE ${CMAKE_CURRENT_SOURCE_DIR}/src)
 set(SPHINX_BUILD ${CMAKE_CURRENT_BINARY_DIR})
 set(SPHINX_SOURCE_FILES
  src/commandline.rst
  src/container_utils.rst
  src/consuming.rst
  src/dependencies.rst
  src/detector.rst
  src/index.rst
  src/installation.rst
  src/pydetector.rst
  src/pyenums.rst
  src/pyexamples.rst
  src/pyPatternGenerator.rst
  src/servers.rst
  src/receiver_api.rst
  src/result.rst
  src/type_traits.rst
  src/ToString.rst
  src/examples.rst
  src/pygettingstarted.rst
  src/firmware.rst
  src/serverupgrade.rst
  src/virtualserver.rst
  src/serverdefaults.rst
  src/quick_start_guide.rst
  src/troubleshooting.rst
  src/pattern.rst
  src/receivers.rst
  src/slsreceiver.rst
  src/udpheader.rst
  src/udpconfig.rst
  src/udpdetspec.rst
  src/fileformat.rst
  src/slsreceiverheaderformat.rst
  src/masterfileattributes.rst
  src/binaryfileformat.rst
  src/hdf5fileformat.rst
  src/zmqjsonheaderformat.rst
 )
 foreach(filename ${SPHINX_SOURCE_FILES})
 configure_file(${CMAKE_CURRENT_SOURCE_DIR}/${filename} 
              "${SPHINX_BUILD}/${filename}")
 endforeach(filename ${SPHINX_SOURCE_FILES})
 configure_file(
  "${CMAKE_CURRENT_SOURCE_DIR}/conf.py.in"
  "${SPHINX_BUILD}/conf.py"
  @ONLY)
 configure_file(
  "${CMAKE_CURRENT_SOURCE_DIR}/gen_server_doc.py.in"
  "${SPHINX_BUILD}/gen_server_doc.py"
  @ONLY)
  configure_file(
  "${CMAKE_CURRENT_SOURCE_DIR}/static/extra.css"
  "${SPHINX_BUILD}/static/css/extra.css"
  @ONLY)
 add_custom_target(server_rst python gen_server_doc.py)  
 add_custom_target(docs
              gendoc
              COMMAND python gen_server_doc.py
              COMMAND ${DOXYGEN_EXECUTABLE} ${DOXYGEN_OUT}
              COMMAND ${SPHINX_EXECUTABLE} -a -b html
              -Dbreathe_projects.slsDetectorPackage=${CMAKE_CURRENT_BINARY_DIR}/xml
              -c "${SPHINX_BUILD}"
              ${SPHINX_BUILD}/src 
              ${SPHINX_BUILD}/html
              COMMENT "Generating documentation with Sphinx")
 add_custom_target(rst
              COMMAND ${SPHINX_EXECUTABLE} -a -b html
              -Dbreathe_projects.slsDetectorPackage=${CMAKE_CURRENT_BINARY_DIR}/xml
              -c "${SPHINX_BUILD}"
              ${SPHINX_BUILD}/src 
              ${SPHINX_BUILD}/html
              COMMENT "Generating documentation with Sphinx")
--- a/docs/Doxyfile.in
+++ b/docs/Doxyfile.in
--- a/docs/conf.py.in
+++ b/docs/conf.py.in
@ -1,66 +0,0 @@
 # Configuration file for the Sphinx documentation builder.
 #
 # This file only contains a selection of the most common options. For a full
 # list see the documentation:
 # http://www.sphinx-doc.org/en/master/config
 # -- Path setup --------------------------------------------------------------
 # If extensions (or modules to document with autodoc) are in another directory,
 # add these directories to sys.path here. If the directory is relative to the
 # documentation root, use os.path.abspath to make it absolute, like shown here.
 #
 import os
 import sys
 # sys.path.insert(0, os.path.abspath('.'))
 sys.path.insert(0, os.path.abspath('../bin/'))
 #sys.path.insert(0, '/home/l_frojdh/sls/build/bin')
 #sys.path.insert(0, @CMAKE_CURRENT_BINARY_DIR@)
 print(sys.path)
 # -- Project information -----------------------------------------------------
 project = 'slsDetectorPackage'
 copyright = '2020, PSD Detector Group'
 author = 'PSD Detector Group'
 version = '@PROJECT_VERSION@'
 # -- General configuration ---------------------------------------------------
 # Add any Sphinx extension module names here, as strings. They can be
 # extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
 # ones.
 extensions = ['breathe',
              'sphinx_rtd_theme',
              'sphinx.ext.autodoc',
              'sphinx.ext.napoleon',
             ]
 breathe_default_project = "slsDetectorPackage"
 napoleon_use_ivar = True
 # Add any paths that contain templates here, relative to this directory.
 templates_path = ['_templates']
 # List of patterns, relative to source directory, that match files and
 # directories to ignore when looking for source files.
 # This pattern also affects html_static_path and html_extra_path.
 exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']
 # -- Options for HTML output -------------------------------------------------
 # The theme to use for HTML and HTML Help pages.  See the documentation for
 # a list of builtin themes.
 #
 html_theme = "sphinx_rtd_theme"
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,
 # so a file named "default.css" will overwrite the builtin "default.css".
 html_static_path = ['static']
 def setup(app):
    app.add_css_file('css/extra.css')  # may also be an URL
--- a/docs/gen_server_doc.py.in
+++ b/docs/gen_server_doc.py.in
@ -1,86 +0,0 @@
 import os 
 import re
 from pathlib import Path
 def remove_comments(text):
    def replacer(match):
        s = match.group(0)
        if s.startswith('/'):
            return " " # note: a space and not an empty string
        else:
            return s
    pattern = re.compile(
        r'//.*?$|/\*.*?\*/|\'(?:\\.|[^\\\'])*\'|"(?:\\.|[^\\"])*"',
        re.DOTALL | re.MULTILINE
    )
    return re.sub(pattern, replacer, text)
 # @CMAKE_CURRENT_BINARY_DIR@
 print('\n\n\n\n SERVER CSV')
 src = Path('@CMAKE_SOURCE_DIR@')/'slsDetectorServers/'
 detectors = ['Mythen3', 'Gotthard2', 'Eiger', 
            'Jungfrau', 'Moench', 'Ctb']
 for det in detectors:
    print(det)
    in_fname = src/f'{det.lower()}DetectorServer/slsDetectorServer_defs.h'
    #print(f'Reading: {in_fname}')
    with open(in_fname) as f:
        lines = f.read().replace('\\\n', '')
        lines = lines.splitlines(keepends = True)
    lines = [l.strip('#define').strip(' ') for l in lines if l.startswith('#define')]
    output = []
    signals = []
    fields = ['Name,', 'Value', 'Comment']
    excluded = ['DAC_NAMES', 'DEFAULT_DAC_VALS', 'CLK_NAMES', 'ONCHIP_DAC_NAMES']
    header = f'{fields[0]:35}{fields[1]:35}\n'
    output.append(header)
    signals.append(header)
    dac_names = []
    dac_values = []
    for line in lines:
        name, *parts = line.split()
        arg = ' '.join(parts)
        value, *comments = arg.split('//') 
        value = value.strip('() ')
        # value = value.replace(', ', ' ')
        value = value.replace('\"', '')
        if name not in excluded:
            name += ','
            if name.startswith('SIGNAL_'):
                signals.append(f'{name:35}{value}\n')
            else:
                output.append(f'{name:35}\"{value}\"\n')
        elif name == 'DAC_NAMES':
            dac_names = [v.strip(', ') for v in value.split()]
            dac_names = [n+',' for n in dac_names]
        elif name == 'DEFAULT_DAC_VALS':
            dac_values = remove_comments(value).strip('{}; ')
            dac_values = dac_values.replace(',', '').split()
            dac_values = [v.strip('') for v in dac_values]
    print(f"dac_names: {len(dac_names)}, dac_values={len(dac_values)}")
    if len(dac_values) == 0:
        dac_values = ['N/A']*len(dac_names)
    rstpath = Path('@CMAKE_SOURCE_DIR@')/'docs/src/'
    out_fname = Path.cwd()/f'src/{det.lower()}.csv'
    out_dac_fname = Path.cwd()/f'src/{det.lower()}-dacs.csv'
    #print(f'Writing: {out_fname}')
    with open(out_fname, 'w') as f:
        f.writelines(output)
    output = [f'{n:35}{v}\n' for n,v in zip(dac_names, dac_values)]
    output.insert(0, header)
    with open(out_dac_fname, 'w') as f:
        f.writelines(output)
 print('END\n\n\n\n')
--- a/docs/html/angularCalibrationHowTo/WARNINGS
+++ b/docs/html/angularCalibrationHowTo/WARNINGS
@ -0,0 +1 @@
 No implementation found for style `graphicx'
--- a/docs/html/angularCalibrationHowTo/angularCalibrationHowTo.css
+++ b/docs/html/angularCalibrationHowTo/angularCalibrationHowTo.css
@ -0,0 +1,30 @@
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 DIV.displaymath		{ }	/* math displays */
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--- a/docs/html/angularCalibrationHowTo/angularCalibrationHowTo.html
+++ b/docs/html/angularCalibrationHowTo/angularCalibrationHowTo.html
@ -0,0 +1,81 @@
 <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 3.2 Final//EN">
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 original version by:  Nikos Drakos, CBLU, University of Leeds
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 <HEAD>
 <TITLE>Angular calibration wizard manual</TITLE>
 <META NAME="description" CONTENT="Angular calibration wizard manual">
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 <LINK REL="next" HREF="node1.html">
 </HEAD>
 <BODY >
 <!--Navigation Panel-->
 <A NAME="tex2html6"
  HREF="node1.html">
 <IMG WIDTH="37" HEIGHT="24" ALIGN="BOTTOM" BORDER="0" ALT="next" SRC="next.png"></A> 
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 <IMG WIDTH="63" HEIGHT="24" ALIGN="BOTTOM" BORDER="0" ALT="previous" SRC="prev_g.png">   
 <BR>
 <B> Next:</B> <A NAME="tex2html7"
  HREF="node1.html">Introduction</A>
 <BR>
 <BR>
 <!--End of Navigation Panel-->
 <P>
 <H1 ALIGN="CENTER">Angular calibration wizard manual</H1>
 <DIV>
 <P ALIGN="CENTER"><STRONG>Anna Bergamaschi</STRONG></P>
 <P ALIGN="CENTER"><STRONG>April 8, 2019</STRONG></P>
 </DIV>
 <P>
 <BR><HR>
 <!--Table of Child-Links-->
 <A NAME="CHILD_LINKS"></A>
 <UL>
 <LI><A NAME="tex2html8"
  HREF="node1.html">Introduction</A>
 <LI><A NAME="tex2html9"
  HREF="node2.html">Data acquisition</A>
 <UL>
 <LI><A NAME="tex2html10"
  HREF="node2.html#SECTION00021000000000000000">Software</A>
 </UL>
 <BR>
 <LI><A NAME="tex2html11"
  HREF="node3.html">Data analysis</A>
 <UL>
 <LI><A NAME="tex2html12"
  HREF="node3.html#SECTION00031000000000000000">Software</A>
 </UL>
 <BR>
 <LI><A NAME="tex2html13"
  HREF="node4.html">Setup calibration files</A>
 <LI><A NAME="tex2html14"
  HREF="node5.html">About this document ...</A>
 </UL>
 <!--End of Table of Child-Links-->
 <BR><HR>
 <ADDRESS>
 Thattil Dhanya
 2019-04-08
 </ADDRESS>
 </BODY>
 </HTML>
--- a/docs/html/angularCalibrationHowTo/images.pl
+++ b/docs/html/angularCalibrationHowTo/images.pl
@ -0,0 +1,116 @@
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--- a/docs/html/angularCalibrationHowTo/images.tex
+++ b/docs/html/angularCalibrationHowTo/images.tex
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--- a/docs/html/angularCalibrationHowTo/img1.png
+++ b/docs/html/angularCalibrationHowTo/img1.png
--- a/docs/html/angularCalibrationHowTo/img10.png
+++ b/docs/html/angularCalibrationHowTo/img10.png
--- a/docs/html/angularCalibrationHowTo/img11.png
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--- a/docs/html/angularCalibrationHowTo/img12.png
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--- a/docs/html/angularCalibrationHowTo/img13.png
+++ b/docs/html/angularCalibrationHowTo/img13.png
--- a/docs/html/angularCalibrationHowTo/img14.png
+++ b/docs/html/angularCalibrationHowTo/img14.png
--- a/docs/html/angularCalibrationHowTo/img15.png
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 <H1 ALIGN="CENTER">Angular calibration wizard manual</H1>
 <DIV>
 <P ALIGN="CENTER"><STRONG>Anna Bergamaschi</STRONG></P>
 <P ALIGN="CENTER"><STRONG>April 8, 2019</STRONG></P>
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 <H1><A NAME="SECTION00010000000000000000">
 Introduction</A>
 </H1>
 <P>
 In order to convert from strip number to 2<IMG
 WIDTH="12" HEIGHT="15" ALIGN="BOTTOM" BORDER="0"
 SRC="img1.png"
 ALT="$\theta$">-angle, an accurate angular calibration of the detector must be performed (for details see the paper Bergamaschi, A. et al. (2010). J. Synchrotron Rad. 17, 653-668). 
 <BR>
 <P>
 For this purpose, a series of patterns of a powder standard with symmetric peaks (e.g. silicon) must acquired while shifting the detector by an angular step of the order of about 2% of the module size. During the measurement, a strong intensity peak (e.g. Si(111)) should pass through the field of view of every module such that it can be used as a reference angular position to perform the calibration of the modules position.
 <BR>
 <P>
 In a first step, the   peak is fitted with a Gaussian in order to determine its position <IMG
 WIDTH="43" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img2.png"
 ALT="$C_{peak}$"> in channel number for each of the acquired patterns.
 <BR>
 In a second step, for each module <IMG
 WIDTH="10" HEIGHT="17" ALIGN="BOTTOM" BORDER="0"
 SRC="img3.png"
 ALT="$i$">, the encoder position  <IMG
 WIDTH="24" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img4.png"
 ALT="$\Theta_e$"> is fitted as a function of the peak position  <IMG
 WIDTH="43" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img2.png"
 ALT="$C_{peak}$"> according to:
 <BR>
 <DIV ALIGN="RIGHT">
 <!-- MATH
 \begin{equation}
 \Theta_e=\Theta_o^i-\arctan\Big(\frac{p \cdot (C_{peak}-C_{center}^i)}{R^i}\Big),
 \end{equation}
 -->
 <TABLE WIDTH="100%" ALIGN="CENTER">
 <TR VALIGN="MIDDLE"><TD ALIGN="CENTER" NOWRAP><A NAME="eq:angcal"></A><IMG
 WIDTH="291" HEIGHT="41" BORDER="0"
 SRC="img5.png"
 ALT="\begin{displaymath}
 \Theta_e=\Theta_o^i-\arctan\Big(\frac{p \cdot (C_{peak}-C_{center}^i)}{R^i}\Big),
 \end{displaymath}"></TD>
 <TD WIDTH=10 ALIGN="RIGHT">
 (1)</TD></TR>
 </TABLE>
 <BR CLEAR="ALL"></DIV><P></P>
 where the parameters <IMG
 WIDTH="24" HEIGHT="36" ALIGN="MIDDLE" BORDER="0"
 SRC="img6.png"
 ALT="$\Theta_o^i$"> is the angular offset with respect to the diffractometer zero position, <!-- MATH
 $C_{center}^{i}$
 -->
 <IMG
 WIDTH="53" HEIGHT="36" ALIGN="MIDDLE" BORDER="0"
 SRC="img7.png"
 ALT="$C_{center}^{i}$"> is the central channel  and <IMG
 WIDTH="22" HEIGHT="17" ALIGN="BOTTOM" BORDER="0"
 SRC="img8.png"
 ALT="$R^i$"> is the distance of the module <IMG
 WIDTH="10" HEIGHT="17" ALIGN="BOTTOM" BORDER="0"
 SRC="img3.png"
 ALT="$i$"> from the diffractometer center while <IMG
 WIDTH="79" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img9.png"
 ALT="$p=50~\mu m$"> is the strip pitch of the detector. 
 <BR>
 Finally, the global offset of the detector system is precisely determined by refining a silicon pattern at a well-defined energy (i.e., knowing the position of the peak).
 <P>
 The same function of equation&nbsp;<A HREF="#eq:angcal">1</A>, with the parameters obtained from the calibration, is used in order to convert from channel number to 2<IMG
 WIDTH="12" HEIGHT="15" ALIGN="BOTTOM" BORDER="0"
 SRC="img1.png"
 ALT="$\theta$">-angle.
 <P>
 The parallax at the borders of the modules due to the thickness of the silicon sensor is a function of the X-ray energy (higher energy X-rays are absorbed deeper inside the sensor) and is of the order of 0.2&nbsp;mdeg at 12&nbsp;keV and 0.5&nbsp;mdeg at 30&nbsp;keV. 
 <BR>
 The differences in pixel size due to the different portion of solid angle covered by the strips on the border of the modules and  the higher efficiency due to the longer path of the X-rays in the sensor are removed by the flat field correction. This also normalizes additional differences in pixel size between channels which are also present because of mismatches in the strip sensor fabrication and in fluctuations of the channels threshold level.
 <P>
 Patterns acquired at different detector positions are generally merged together  in order to fill the gaps between the modules and correct possibly bad functioning channels. In this procedure the data from different positions which are closer than 4&nbsp;mdeg (the average pixel size) are averaged and the new position is set to the mean of the positions of the original points.
 <P>
 The position and width of the peaks results from a fit over several detector channels. Geometrical distortions might disturb this determination mainly because of errors in the angular calibration, fluctuations in the encoder position, variations between channels and parallax effects.
 <BR>
 The resolution in locating the peak center and determining its width and integrated intensity has been estimated by acquiring several patterns of a LaB<IMG
 WIDTH="12" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img10.png"
 ALT="$_6$"> sample in a 300&nbsp;<IMG
 WIDTH="14" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img11.png"
 ALT="$\mu$">m capillary with the detector shifted in 5&nbsp;mdeg steps between 30.4 and 36.5 degrees. The 16&nbsp;peaks acquired have been fitted with a Gaussian function plus background and the fluctuations on the fitted parameters have been calculated. The resulting average resolutions are  0.63<IMG
 WIDTH="17" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img12.png"
 ALT="$\pm$">0.06&nbsp;mdeg for the peak center and 0.22<IMG
 WIDTH="17" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img12.png"
 ALT="$\pm$">0.05&nbsp;mdeg for the peak Full-Width at Half-Maximum (FWHM) for an average peak FWHM of 27.0<IMG
 WIDTH="17" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
 SRC="img12.png"
 ALT="$\pm$">2.5&nbsp;mdeg. 
 <BR>
 These results show that  the angular calibration allows a resolution in determining the peaks position and width which is appropriate for structural determination.
 <P>
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 <H1><A NAME="SECTION00020000000000000000">
 Data acquisition</A>
 </H1>
 <P>
 The angular calibration consists in acquiring a set of diffraction patterns of a well known powder standard (e.g. Silicon) at different encoder positions.  In order to facilitate the procedure, the sample should not emit fluorescent light and should present relatively symmetric peaks. 
 <BR>
 During the measurement, a strong intensity peak (e.g. Si(111)) should pass through the field of view of every module such that it can be used as a reference angular position to perform the calibration of the modules position. In general the highest peak will be used for the calibration, but this is not necessary in case there would be e.g. geometrical limitations for shifting the detector. 
 <BR><B>Do not forget to properly position the beam stopper if the detector is scanned in front of the direct beam.</B>
 <BR>
 The detector should be shifted of an angular step of the order of about 2% of the module size, such that about 50 patterns can contribute to the fitting of the 3 parameters necessary for the angular calibration.
 <BR>
 <P>
 All the angular calibration procedure should be acquired using a trimmed detector with the threshold set at half of the X-ray energy (Assuming no fluorescent element in the standard). A flat field should also be acquired in order to precisely correct the data, while the X-ray intensity should be kept lower than about 100&nbsp;kHz per strip in order to avoid the need for rate corrections.
 <P>
 A rough angular conversion file starting from a previous calibration or from the geometric characteristics of the mechanics is an advantage. The angular conversion file should contain a line for each module of the detector with its module number <IMG
 WIDTH="10" HEIGHT="17" ALIGN="BOTTOM" BORDER="0"
 SRC="img3.png"
 ALT="$i$">, center  <!-- MATH
 $C_{center}^{i}$
 -->
 <IMG
 WIDTH="53" HEIGHT="36" ALIGN="MIDDLE" BORDER="0"
 SRC="img7.png"
 ALT="$C_{center}^{i}$"> and error, conversion radius <IMG
 WIDTH="38" HEIGHT="36" ALIGN="MIDDLE" BORDER="0"
 SRC="img13.png"
 ALT="$p/R^i$"> and error, offset <IMG
 WIDTH="24" HEIGHT="36" ALIGN="MIDDLE" BORDER="0"
 SRC="img6.png"
 ALT="$\Theta_o^i$"> and error:
 <PRE>
 module 0 center 639.5 +- 0 conversion 6.56E-05 +- 0 offset 0 +- 0
 </PRE>
 Also the <I>global offset</I> value of the beamline should be approximately known i.e. the angular position of channel 0 of module 0 when the motor is set at 0. 
 <BR>
 All the documentation assumes that the detector is oriented in the same direction as the encoder position i.e. large channel number at higher angles (both per module and absolute). If this is not the case, the <I>angular direction</I> should be set to -1. 
 <P>
 <H2><A NAME="SECTION00021000000000000000">
 Software</A>
 </H2>
 <P>
 For the acquisition ot the data you need to install the slsDetector software package (please refere to separate documentation). The use of the GUI is optional and all operations can be performed also using the text client.
 <BR>
 <P>
 Please make sure that you have edited the 
 <BR><I>slsDetectorSoftware/usersFunctions/angleFunction.h</I> 
 <BR>
 in order to match the angular conversion for your geometry and 
 <BR><I>slsDetectorSoftware/usersFunctions/usersFunctions.cpp</I> 
 <BR>
 in order to be able to move the detector and read out its position by using the slsDetector software.
 <P>
 In the following the command to acquire a dataset for the angular calibration with an exposure time of 1&nbsp;s, and position shift 
 <PRE>
 #setup angular calibration log mode
 &gt; sls_detector_put angcallog 1 
 #set exposure time to 1s
 &gt; sls_detector_put exptime 1. 
 #setup threshold scan
 &gt; sls_detector_put scan0script position 
 #setup the precision for the scan variable in the file name
 &gt; sls_detector_put scan0prec 2 
 #set scan range between 20deg and -60deg, step of -0.1deg
 # (at 12.4 keV the Si(111) peak is at approx 19deg
 &gt; sls_detector_put scan0range 20 -60 -0.1 
 #acquire the data
 &gt; sls_detector_acquire
 #unset angular calibration log mode
 &gt; sls_detector_put angcallog 0
 </PRE>
 <P>
 With the GUI you can obtain the same results by clicking on the <I>Angular calibration</I> log button in the advanced tab (see figure&nbsp;<A HREF="#fig:guiangcallog">1</A>) and setting up the motor position scan in the Actions tab (see figure&nbsp;<A HREF="#fig:guiposscan">2</A>). The exposure time should also be set in the measurement tab.
 <P>
 Additional to the data files, the acquisition will produce a .angcal file containing an header and, for each step of the acquisition, the exect value of the motor position and the file name. 
 <BR>
 In case you forgot to enable the angcallog flag in the software, you can produce the file with the syntax as follows, assuming that you know the exact values of your encoder for each frame:
 <PRE>
 type Mythen
 maxmod 32
 nmod 32
 angconv /scratch/angcal20120422/ang.off
 globaloff 5.088
 fineoff 0.0
 angdir 1
 ffdir /scratch/angcal20120422/
 flatfield flatfield_E12keV_T6keV_0.raw
 badchannels /scratch/cal/bad.chans
 19.99998 angcal_S20.00_0
 19.90001 angcal_S19.90_0
 19.79999 angcal_S19.80_0
 19.70002 angcal_S19.70_0
 ......
 </PRE>
 <P>
 <DIV ALIGN="CENTER"><A NAME="fig:guiangcallog"></A><A NAME="46"></A>
 <TABLE>
 <CAPTION ALIGN="BOTTOM"><STRONG>Figure 1:</STRONG>
 Acquisition GUI window to enable the angular calibration log.</CAPTION>
 <TR><TD><IMG
 WIDTH="555" HEIGHT="603" ALIGN="BOTTOM" BORDER="0"
 SRC="img14.png"
 ALT="\includegraphics[width=\textwidth]{enable_angcal.eps}"></TD></TR>
 </TABLE>
 </DIV>
 <P>
 <DIV ALIGN="CENTER"><A NAME="fig:guiposscan"></A><A NAME="51"></A>
 <TABLE>
 <CAPTION ALIGN="BOTTOM"><STRONG>Figure 2:</STRONG>
 Acquisition GUI window to setup the motor position scan.</CAPTION>
 <TR><TD><IMG
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 Data analysis</A>
 </H1>
 <P>
 The data analysis consists in fitting with a gaussian the selected peak of the powder pattern for each position in order to determine its position is channel number as a function of the encoder position. 
 <BR>
 In a second step, for each module, the channel vs. encoder curve is fitted in order to extrapolate the three parameters necessary for the angular conversion and the result is written to file
 <P>
 <H2><A NAME="SECTION00031000000000000000">
 Software</A>
 </H2>
 <P>
 The software used for the angular calibration data analysis is based on root (see http://root.cern.ch).
 <BR>
 This can be downloaded as binary or installed from sources. The version of the software should not play an important role, but up to now everything has been implemented and tested using version 5.20.
 <P>
 To start the data analysis simply launch:
 <PRE>
 &gt; ./angularCalibrationWizard
 </PRE>
 <P>
 <DIV ALIGN="CENTER"><A NAME="fig:setangcal"></A><A NAME="60"></A>
 <TABLE>
 <CAPTION ALIGN="BOTTOM"><STRONG>Figure 3:</STRONG>
 Overview of the nagular calibration dataset.</CAPTION>
 <TR><TD><IMG
 WIDTH="555" HEIGHT="707" ALIGN="BOTTOM" BORDER="0"
 SRC="img16.png"
 ALT="\includegraphics[width=\textwidth]{setupAngcal.eps}"></TD></TR>
 </TABLE>
 </DIV>
 <P>
 To setup the angular calibration dataset, the .angcal file should be selected (or digited) and the load button should be pressed to confirm. The parameters of the angular calibration are then read to the file and the data loaded for a quick overview (see figure&nbsp;<A HREF="#fig:setangcal">3</A>).
 <BR>
 The software assumes that the data files (.raw) and the .encal file are in the same directory.
 <BR>
 A 2D color plot will show a rebinned overview of the dataset. The peak to be fitted should be visible as a high intensity diagonal line passing through all the channels.
 <P>
 <DIV ALIGN="CENTER"><A NAME="fig:peakfit"></A><A NAME="66"></A>
 <TABLE>
 <CAPTION ALIGN="BOTTOM"><STRONG>Figure 4:</STRONG>
 Preview of the fitting of the Si(111) peak for one of the detector positions.</CAPTION>
 <TR><TD><IMG
 WIDTH="555" HEIGHT="707" ALIGN="BOTTOM" BORDER="0"
 SRC="img17.png"
 ALT="\includegraphics[width=\textwidth]{peakFit.eps}"></TD></TR>
 </TABLE>
 </DIV>
 <P>
 For a more detailed view of the data, one can select an angular calibration step from the combo box, select the plot mode (raw data or processed data as a function of channel number, processed angular converted data, flat field data, or again an overview of the whole dataset). 
 <BR>
 By (right) clicking close to the axis you are able to zoom in/out, set the scale to logarithmic etc.
 <BR>
 <P>
 If the bad channel list, angular conversion file or flat field file are changed compared to the acquisition, they can be reloaded by editing the correspondent text entries and pressing enter.
 <P>
 In particular, the angular converted data should be checked in order to view the position of the selected peak. In this case, the plot will be zoomed to the angular region slected in the minimum and maximum angle entries. By pressing fit, the fit of the peak in the selected angular range will be shown (see figure&nbsp;<A HREF="#fig:peakfit">4</A>).  It is useful to check that it works properly in several positions such that then the sequential fitting on all steps can give good results.
 <P>
 To automatically fit all positions simply press <I>Proceed to Modules Calibration</I> and wait until all steps are fitted. This can take sometime, depending on the number of steps.
 <P>
 <DIV ALIGN="CENTER"><A NAME="fig:anglefit"></A><A NAME="73"></A>
 <TABLE>
 <CAPTION ALIGN="BOTTOM"><STRONG>Figure 5:</STRONG>
 Window for fitting the angular calibration parameters of a module.</CAPTION>
 <TR><TD><IMG
 WIDTH="555" HEIGHT="707" ALIGN="BOTTOM" BORDER="0"
 SRC="img18.png"
 ALT="\includegraphics[width=\textwidth]{angleFit.eps}"></TD></TR>
 </TABLE>
 </DIV>
 <P>
 In the module calibration window (see figure&nbsp;<A HREF="#fig:anglefit">5</A>), you will be able to fit the channel number to encoder position curve to estimate the three angular calibration parameters for each module.
 <BR>
 The entries show the angular calibration parameters used for approximate angular conversion in the previous step of the calibration. These can be edited and will be used as start parameters for the fit.
 By clicking on the check box next to the parameters, the selected parameter will be set and fixed during the fit. Often the center is used as a fix parameter.
 <BR>
 It is possible to navigate between modules by using the Previous and Next module buttons. To refit the current module (e.g. after changing one of the parameters) simply re-click on the module number.
 <P>
 After fitting all modules you can click on the <I>Write Angular Calibration</I> button, select the file name to write to and save the calibration angulat calibration data. Please note that the offset of module 0 will always be 0 and the other values will be rescaled to its value. Therefore the global offset of the steup will always need to be specified for a proper angular conversion unless the home of the encoder will not be redifined.
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 Setup calibration files</A>
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 <P>
 To use the generated angular calibration files, using the text client:
 <PRE>
 sls_detector_put angconv /scratch/ang_new.off
 </PRE>
 while for the GUI the file name should be specified in the configuration file (works also for the text client).
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 <H1 ALIGN="CENTER">Energy calibration wizard manual</H1>
 <DIV>
 <P ALIGN="CENTER"><STRONG>Anna Bergamaschi</STRONG></P>
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 $key = q/Sigma>3ENC;MSF=1.6;AAT/;
 $cached_env_img{$key} = q|<IMG
 WIDTH="85" HEIGHT="30" ALIGN="MIDDLE" BORDER="0"
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 $key = q/N;MSF=1.6;AAT/;
 $cached_env_img{$key} = q|<IMG
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 1;
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+++ b/docs/html/energyCalibrationHowTo/images.tex
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--- a/docs/html/energyCalibrationHowTo/img1.png
+++ b/docs/html/energyCalibrationHowTo/img1.png
--- a/docs/html/energyCalibrationHowTo/img10.png
+++ b/docs/html/energyCalibrationHowTo/img10.png
--- a/docs/html/energyCalibrationHowTo/img11.png
+++ b/docs/html/energyCalibrationHowTo/img11.png
--- a/docs/html/energyCalibrationHowTo/img12.png
+++ b/docs/html/energyCalibrationHowTo/img12.png
--- a/docs/html/energyCalibrationHowTo/img13.png
+++ b/docs/html/energyCalibrationHowTo/img13.png
--- a/docs/html/energyCalibrationHowTo/img14.png
+++ b/docs/html/energyCalibrationHowTo/img14.png
--- a/docs/html/energyCalibrationHowTo/img15.png
+++ b/docs/html/energyCalibrationHowTo/img15.png
--- a/docs/html/energyCalibrationHowTo/img16.png
+++ b/docs/html/energyCalibrationHowTo/img16.png
--- a/Show More
+++ b/Show More
Author	SHA1	Message	Date
Dhanya Thattil	a78004b9e0	release notes for 9.2.0	2025-06-02 15:23:57 +02:00
Dhanya Thattil	857d6f3f12	updating to 9.1.1	2025-05-22 11:15:11 +02:00
Dhanya Thattil	e5fd9b5c21	update 9.1.0 release notes date	2025-03-28 11:39:51 +01:00
Dhanya Thattil	66394776a0	added release notes for 9.1.0	2025-03-26 08:44:13 +01:00
Dhanya Thattil	243034a7ba	changed file name minor	2024-11-26 15:51:46 +01:00
Dhanya Thattil	1ea67222ef	updated release for 9.0.0	2024-11-26 11:27:52 +01:00
Dhanya Thattil	17f62fbd0b	updated release for 8.0.2	2024-09-17 10:36:47 +02:00
Dhanya Thattil	fea9024d51	updated release 8.0.1	2024-01-16 15:42:30 +01:00
Dhanya Thattil	7e4509e386	updated release 7.0.3 notes	2023-11-14 11:38:55 +01:00
Dhanya Thattil	91a82a1391	release notes for fw ctb for 8.0.0	2023-11-13 16:05:18 +01:00
Dhanya Thattil	04009414a0	release notes for 8.0.0	2023-11-12 16:08:45 +01:00
Dhanya Thattil	abbf647824	release notes for 7.0.3 and 8.0.0	2023-11-12 15:50:55 +01:00
Dhanya Thattil	399d72a3e5	updated release for 7.0.2	2023-07-12 17:00:18 +02:00
Dhanya Thattil	c26947970c	adding release notes for 7.0.1	2023-03-24 16:17:34 +01:00
Dhanya Thattil	df85acbd04	updated release for 7.0.0	2023-02-23 16:38:59 +01:00
Dhanya Thattil	8b77b5843e	release date	2023-02-22 17:16:52 +01:00
Dhanya Thattil	62614a7cb9	updated 7.0.0	2023-02-22 16:32:22 +01:00
Dhanya Thattil	01362d53a3	release 7.0.0	2023-02-22 14:45:52 +01:00
Dhanya Thattil	514f86a972	fixed release notes	2022-12-12 12:44:37 +01:00
Dhanya Thattil	4fa44e6e1a	updated release text for 7.0.0.rc1	2022-12-12 12:31:24 +01:00
Dhanya Thattil	5d3b7c99bf	updated releas 7.0.0.rc1	2022-12-08 11:03:56 +01:00
Dhanya Thattil	7aab238a95	updated release for 6.1.2	2022-11-25 16:41:57 +01:00
Dhanya Thattil	0261bb7605	updated release for 6.1.1	2022-01-04 10:55:41 +01:00
Dhanya Thattil	4a0b3b836f	updated release for 6.1.0	2021-11-25 13:11:51 +01:00
Dhanya Thattil	83e702520e	incorrect release doc	2021-11-25 13:11:01 +01:00
Dhanya Thattil	408af76e4b	updated release for 6.0.1	2021-11-25 12:45:58 +01:00
Dhanya Thattil	0492f29df5	updated release for 6.0.0	2021-10-21 17:03:18 +02:00
Dhanya Thattil	d1f1196484	minor typo indate for release txt	2021-05-21 15:13:27 +02:00
Dhanya Thattil	12dddd7112	updated release for 5.1.0	2021-05-21 14:38:41 +02:00
Dhanya Thattil	a69870b21b	update release for 5.0.1	2020-11-25 16:53:58 +01:00
Dhanya Thattil	4e710ac514	updated release for 5.0.0	2020-11-18 17:37:06 +01:00
Dhanya Thattil	05faef80a4	removed hardware documentation	2020-10-30 16:41:35 +01:00
Gemma Tinti	d985710bad	eigermanual	2020-10-16 15:24:32 +02:00
Gemma Tinti	df78bd2a5d	Eiger manual with 5.x updates	2020-10-08 14:45:17 +02:00
Gemma Tinti	e558551399	eiger manual	2020-08-10 18:39:48 +02:00
Gemma Tinti	a31ad3e90b	eiger manual	2020-07-31 21:06:50 +02:00
Gemma Tinti	e0f8a3fd57	fix eiger frame rate	2020-06-30 09:57:39 +02:00
Dhanya Thattil	950ebe1926	4.2.0 release	2020-04-14 19:57:41 +02:00
Gemma Tinti	481496ea53	update manual	2020-02-18 21:17:39 +01:00
Dhanya Thattil	209a2f082b	added release doc	2020-01-15 11:45:42 +01:00
Dhanya Thattil	e43995f3c6	update release	2019-10-04 11:09:21 +02:00
Dhanya Thattil	616ee802ed	update release	2019-10-04 11:08:05 +02:00
Dhanya Thattil	5b22a485a6	update release	2019-10-04 11:07:16 +02:00
Gemma Tinti	18679ff7b7	transmission delays	2019-08-21 20:30:45 +02:00
Gemma Tinti	963e515748	eiger manual	2019-08-13 16:31:57 +02:00
Gemma Tinti	90bcee9206	eththool and gating	2019-07-26 12:12:15 +02:00
Dhanya Thattil	b9148abe24	updated releasetxt	2019-06-14 09:21:55 +02:00
Dhanya Thattil	167c7549da	updated release.txt eiger firmware version 23	2019-06-13 11:49:38 +02:00
Dhanya Thattil	fe37eff5a7	updated release 4.0.2	2019-06-13 09:06:51 +02:00
Dhanya Thattil	eb2dd3f136	Merge branch 'gh-pages' of github.com:slsdetectorgroup/slsDetectorPackage into gh-pages	2019-06-12 16:11:13 +02:00
Dhanya Thattil	11ef3a3b2f	added 4.0.2 release txt	2019-06-12 16:07:16 +02:00
Gemma Tinti	d06c4078ba	eiger manual	2019-06-06 18:01:34 +02:00
Dhanya Thattil	41440a0cc3	Release 4.0.0 release notes update: Jungfrau min exptime from 50us to 50 ns	2019-05-02 15:36:52 +02:00
Gemma Tinti	29bec5072a	eiger manual	2019-04-10 18:37:32 +02:00
Dhanya Thattil	482f7adeed	updated docs	2019-04-08 18:53:34 +02:00
Dhanya Thattil	078e9f0751	updated install	2019-04-08 18:26:43 +02:00
Dhanya Thattil	7585cc953e	latex2html icons	2019-04-08 16:23:29 +02:00
Dhanya Thattil	6171915f29	updated documentation	2019-04-08 15:03:30 +02:00
Dhanya Thattil	efb96869e2	removed symbolic link	2019-04-08 12:06:31 +02:00
Dhanya Thattil	09b546352e	removed travis and clang	2019-04-08 12:00:15 +02:00
Dhanya Thattil	1481a5e941	removed code (incl symbolic links)	2019-04-08 11:55:25 +02:00
Dhanya Thattil	58b11fbd10	removed code (incl symbolic links)	2019-04-08 11:54:37 +02:00
Dhanya Thattil	683712d1ba	recompiled docs with navigation	2019-04-08 11:51:31 +02:00
Dhanya Thattil	e998226bce	added releases	2019-04-08 11:29:15 +02:00
		`@ -1 +0,0 @@`
			`slsDetectorSoftware/generator/autocomplete/bash_autocomplete.sh`