M3threshold (#475)

* vicin default changed to 800, only setting vthx directly allows to set dac even if counter disabled, else disable counter, setallthresholdenergy if an energy is -1, get module value, fix that reg was repaced by isettings

* vth3 disabled for interpolation enable, interpolation disable sets counter mask to what it was before (updating old mask whn setting counter mask except for setting all counters for interpolation enable) and enabling vth3 if counter was enabled

* refactor and test for previous commit

* pump probe only has vth2 enabled, handles both pump probe mode and interpolation mode as well

* wip

* refactored pump probe and interpolation and added to setmodule

* check dacs and trimbits out of range for setmodule (not just threshold)

* binaries in

* m3: pump probe and interpolation mutually exclusive

* minor

.clang-tidy

@@ -19,6 +19,7 @@ Checks:          '*,
                     -google-readability-braces-around-statements,
                     -modernize-use-trailing-return-type,
                     -readability-isolate-declaration,
+                    -readability-implicit-bool-conversion,
                     -llvmlibc-*'
 
 HeaderFilterRegex: \.h

CMakeLists.txt

@@ -8,11 +8,8 @@ set(CMAKE_CXX_FLAGS_RELEASE "-O3 -DNDEBUG")
 
 cmake_policy(SET CMP0074 NEW)
 include(cmake/project_version.cmake)
-
-#functions to add compiler flags
 include(cmake/SlsAddFlag.cmake)
-
-# Include additional modules that are used unconditionally
+include(cmake/SlsFindZeroMQ.cmake)
 include(GNUInstallDirs)
 
 # If conda build, always set lib dir to 'lib'
@@ -26,7 +23,7 @@ string(TOLOWER "${PROJECT_NAME}" PROJECT_NAME_LOWER)
 
 # Set targets export name (used by slsDetectorPackage and dependencies)
 set(TARGETS_EXPORT_NAME "${PROJECT_NAME_LOWER}-targets")
-#set(namespace "${PROJECT_NAME}::")
+set(namespace "sls::")
 
 set(CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/cmake" ${CMAKE_MODULE_PATH})
 
@@ -37,6 +34,8 @@ 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)
@@ -69,6 +68,20 @@ if(SLS_BUILD_ONLY_MOENCH)
 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(ClangFormat_EXCLUDE_PATTERNS    "build/" 
                                     "libs/" 
                                     "slsDetectorCalibration/" 
@@ -79,9 +92,6 @@ set(ClangFormat_EXCLUDE_PATTERNS    "build/"
                                     ${CMAKE_BINARY_DIR})
 find_package(ClangFormat)
 
-
-
-
 set(CMAKE_EXPORT_COMPILE_COMMANDS ON)
 
 if (NOT CMAKE_BUILD_TYPE AND NOT CMAKE_CONFIGURATION_TYPES)
@@ -100,62 +110,68 @@ else()
 endif()
 
 
-#Add two fake libraries to manage options
-add_library(slsProjectOptions INTERFACE)
-add_library(slsProjectWarnings INTERFACE)
-target_compile_features(slsProjectOptions INTERFACE cxx_std_11)
-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
-                                 )
-
-#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
-                                )
-
-
-#Testing for minimum version for compilers
-if ("${CMAKE_CXX_COMPILER_ID}" STREQUAL "Clang")
-    if (CMAKE_CXX_COMPILER_VERSION VERSION_LESS 3.2)
-        message(FATAL_ERROR "Clang version must be at least 3.2!")
-    endif()
-elseif ("${CMAKE_CXX_COMPILER_ID}" STREQUAL "GNU")
-    if (CMAKE_CXX_COMPILER_VERSION VERSION_LESS 4.8)
-            message(FATAL_ERROR "GCC version must be at least 4.8!")
-    endif()
-    if (CMAKE_CXX_COMPILER_VERSION VERSION_LESS 5)
-            target_compile_options(slsProjectWarnings INTERFACE 
-                                             -Wno-missing-field-initializers)
-    endif()
+if(SLS_EXT_BUILD)
+    # Find ourself in case of external build
+    find_package(slsDetectorPackage ${PROJECT_VERSION} REQUIRED)
 endif()
 
-# 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")
-sls_disable_c_warning("-Wstringop-truncation")
+
+
+# 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_11)
+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
+                                    )
+    sls_disable_c_warning("-Wstringop-truncation")
+endif()
 
 
 if(SLS_USE_SANITIZER)
@@ -170,58 +186,22 @@ if(SLS_TUNE_LOCAL)
 endif()
 
 
-#rapidjson
-add_library(rapidjson INTERFACE)
-target_include_directories(rapidjson INTERFACE
-    $<BUILD_INTERFACE:${CMAKE_CURRENT_SOURCE_DIR}/libs/rapidjson>  
-)
-
-# Install fake the libraries
-install(TARGETS slsProjectOptions slsProjectWarnings rapidjson
+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 TRUE)
 set(CMAKE_BUILD_WITH_INSTALL_RPATH FALSE)
 
 
-set(ZeroMQ_HINT "" CACHE STRING "Hint where ZeroMQ could be found")
-#Adapted from: https://github.com/zeromq/cppzmq/
-if (NOT TARGET libzmq)
-    if(ZeroMQ_HINT)
-        message(STATUS "Looking for ZeroMQ in: ${ZeroMQ_HINT}")
-        find_package(ZeroMQ 4 
-            NO_DEFAULT_PATH
-            HINTS ${ZeroMQ_DIR}
-        )
-    else()
-        find_package(ZeroMQ 4 QUIET)
-    endif()
-    
-  # libzmq autotools install: fallback to pkg-config
-  if(NOT ZeroMQ_FOUND)
-    message(STATUS "CMake libzmq package not found, trying again with pkg-config (normal install of zeromq)")
-    list (APPEND CMAKE_MODULE_PATH ${CMAKE_CURRENT_LIST_DIR}/libzmq-pkg-config)
-    find_package(ZeroMQ 4 REQUIRED)
-  endif()
+custom_find_zmq()
 
-  # TODO "REQUIRED" above should already cause a fatal failure if not found, but this doesn't seem to work
-  if(NOT ZeroMQ_FOUND)
-    message(FATAL_ERROR "ZeroMQ was not found, neither as a CMake package nor via pkg-config")
-  endif()
-
-  if (ZeroMQ_FOUND AND NOT TARGET libzmq)
-    message(FATAL_ERROR "ZeroMQ version not supported!")
-  endif()
-endif()
-
-get_target_property(VAR libzmq INTERFACE_INCLUDE_DIRECTORIES)
-message(STATUS "zmq: ${VAR}")
 
 if (SLS_USE_TESTS)
     enable_testing()
@@ -229,8 +209,9 @@ if (SLS_USE_TESTS)
 endif(SLS_USE_TESTS)
 
 
-# Common functionallity to detector and receiver
-add_subdirectory(slsSupportLib)
+if(NOT SLS_EXT_BUILD)
+    add_subdirectory(slsSupportLib)
+endif()
 
 if (SLS_USE_DETECTOR OR SLS_USE_TEXTCLIENT)
     add_subdirectory(slsDetectorSoftware)
@@ -254,7 +235,7 @@ endif (SLS_USE_INTEGRATION_TESTS)
 
 if (SLS_USE_PYTHON)
     find_package (Python 3.6 COMPONENTS Interpreter Development)
-    add_subdirectory(libs/pybind11)
+    add_subdirectory(libs/pybind11  ${CMAKE_BINARY_DIR}/bin/)
     add_subdirectory(python)
 endif(SLS_USE_PYTHON)
 

RELEASE.txt

@@ -1,7 +1,7 @@
-SLS Detector Package Minor Release 6.1.0 released on 25.11.2021
+SLS Detector Package Minor Release 7.0.0 released on 25.11.2021
 ===============================================================
 
-This document describes the differences between v6.1.0 and v6.0.0.   
+This document describes the differences between v7.0.0 and v6.x.x   
 
 
 
@@ -28,10 +28,57 @@ This document describes the differences between v6.1.0 and v6.0.0.
 - changed default vref of adc9257 to 2V for moench (from 1.33V)
 - moench and ctb - can set the starting frame number of next acquisition
 - mythen server kernel check incompatible (cet timezone)
-- m3 server crash (vthrehsold)
+- rx_arping
+- rx_threadsids max is now 9 (breaking api)
+- fixed datastream disabling for eiger. Its only available in 10g mode.
+- m3 server crash (vthrehsold dac names were not provided)
 - allow vtrim to be interpolated for Eiger settings
-
-
+- m3 setThresholdEnergy and setAllThresholdEnergy was overwriting gaincaps with settings enum
+- can set localhost with virtual server with minimum configuration: (hostname localhost, rx_hostname localhost, udp_dstip auto)
+- increases the progress according to listened index. (not processed index)
+- current frame index points to listened frame index (not processed index)
+- when in discard partial frames or empty mode, the frame number doesnt increase by 1, it increases to that number (so its faster)
+- file write disabled by default
+- eiger 12 bit mode
+- start non blocking acquisition at modular level
+- connect master commands to api (allow set master for eiger)
+--ignore-config command line
+- command line argument 'master' mainly for virtual servers (also master/top for real eiger), only one virtual server for eiger, use command lines for master/top
+- stop servers also check for errors at startup( in case it was running with an older version)
+- hostname cmd failed when connecting to servers in update mode (ctb, moench, jungfrau, eiger)
+- missingpackets signed (negative => extra packets)
+- framescaught and frameindex now returns a vector for each port
+- progress looks at activated or enabled ports, so progress does not stagnate
+- (eiger) disable datastreaming also for virtual servers only for 10g
+- missing packets also takes care of disabled ports
+- added geometry to metadata
+- 10g eiger nextframenumber get fixed.
+- stop, able to set nextframenumber to a consistent (max + 1) for all modules if different (eiger/ctb/jungfrau/moench)
+- ctb: can set names for all the dacs
+- fpga/kernel programming, checks if drive is a special file and not a normal file
+- gotthard 25 um image reconstructed in gui and virtual hdf5 (firmware updated for slave to reverse channels)
+- master binary file in json format now
+- fixed bug introduced in 6.0.0: hdf5 files created 1 file per frame after the initial file which had maxframesperfile
+- rx_roi
+- m3 polarity, interpolation (enables all counters when enabled), pump probe, analog pulsing, digital pulsing
+- updatedetectorserver - removes old server current binary pointing to for blackfin
+- removing copydetectorserver using tftp 
+- registerCallBackRawDataReady and registerCallBackRawDataModifyReady now gives a sls_receiver_header* instead of a char*, and uint32_t to size_t
+- registerCallBackStartAcquisition gave incorrect imagesize (+120 bytes). corrected.
+- registerCallBackStartAcquisition parameter is a const string reference
+- m3 (runnig config second time with tengiga 0, dr !=32, counters !=0x7) calculated incorrect image size expected
+- fixed row column indexing (mainly for multi module Jungfrau 2 interfaces )
+- eiger gui row indices not flipped anymore (fix in config)
+- m3 (settings dac check disabled temporarily?)
+- m3 virtual server sends the right pacets now
+- gap pixels in gui enabled by default
+- rxr src files and classes (detectordata, ZmqSocket, helpDacs) added to sls namespace, and macros (namely from logger (logINFO etc)), slsDetectorGui (make_unique in implemtnation requires sls nemspace (points to std otherwise) but not deectorImpl.cpp)
+- blackfin programing made seamless (nCE fixed which helps)
+-save settings file for m3 and eiger
+- m3 threshold changes
+- g2 and m3 clkdiv 2 (system clock) change should affect time settings (g2: exptime, period, delayaftertrigger, burstperiod, m3: exptime, gatedelay, gateperiod, period, delayaftertrigger)
+- g2 system frequency is the same irrespective of timing source
+- (apparently) rxr doesnt get stuck anymore from 6.1.1
 
 2. Resolved Issues
 ==================

cmake/SlsFindZeroMQ.cmake

@@ -0,0 +1,38 @@
+function(custom_find_zmq)
+    set(ZeroMQ_HINT "" CACHE STRING "Hint where ZeroMQ could be found")
+    #Adapted from: https://github.com/zeromq/cppzmq/
+    if (NOT TARGET libzmq)
+        if(ZeroMQ_HINT)
+            message(STATUS "Looking for ZeroMQ in: ${ZeroMQ_HINT}")
+            find_package(ZeroMQ 4 
+                NO_DEFAULT_PATH
+                HINTS ${ZeroMQ_HINT}
+            )
+        else()
+            find_package(ZeroMQ 4 QUIET)
+        endif()
+        
+    # libzmq autotools install: fallback to pkg-config
+    if(ZeroMQ_FOUND)
+        message(STATUS "Found libzmq using find_package")
+    else()
+        message(STATUS "CMake libzmq package not found, trying again with pkg-config (normal install of zeromq)")
+        list (APPEND CMAKE_MODULE_PATH ${CMAKE_CURRENT_LIST_DIR}/cmake/libzmq-pkg-config)
+        find_package(ZeroMQ 4 REQUIRED)
+    endif()
+
+    # TODO "REQUIRED" above should already cause a fatal failure if not found, but this doesn't seem to work
+    if(NOT ZeroMQ_FOUND)
+        message(FATAL_ERROR "ZeroMQ was not found, neither as a CMake package nor via pkg-config")
+    endif()
+
+    if (ZeroMQ_FOUND AND NOT TARGET libzmq)
+        message(FATAL_ERROR "ZeroMQ version not supported!")
+    endif()
+    endif()
+
+    get_target_property(VAR libzmq IMPORTED_LOCATION)
+    message(STATUS "Using libzmq: ${VAR}")
+
+
+endfunction()

cmake/libzmq-pkg-config/FindZeroMQ.cmake

@@ -0,0 +1,36 @@
+#From: https://github.com/zeromq/cppzmq/
+set(PKG_CONFIG_USE_CMAKE_PREFIX_PATH ON)
+find_package(PkgConfig)
+pkg_check_modules(PC_LIBZMQ QUIET libzmq)
+
+set(ZeroMQ_VERSION ${PC_LIBZMQ_VERSION})
+
+find_path(ZeroMQ_INCLUDE_DIR zmq.h
+        PATHS ${ZeroMQ_DIR}/include
+        ${PC_LIBZMQ_INCLUDE_DIRS}
+)
+
+find_library(ZeroMQ_LIBRARY
+        NAMES zmq
+        PATHS ${ZeroMQ_DIR}/lib
+        ${PC_LIBZMQ_LIBDIR}
+        ${PC_LIBZMQ_LIBRARY_DIRS}
+)
+
+if(ZeroMQ_LIBRARY OR ZeroMQ_STATIC_LIBRARY)
+    set(ZeroMQ_FOUND ON)
+    message(STATUS "Found libzmq using PkgConfig")
+endif()
+
+set ( ZeroMQ_LIBRARIES ${ZeroMQ_LIBRARY} )
+set ( ZeroMQ_INCLUDE_DIRS ${ZeroMQ_INCLUDE_DIR} )
+
+if (NOT TARGET libzmq)
+    add_library(libzmq UNKNOWN IMPORTED)
+    set_target_properties(libzmq PROPERTIES
+            IMPORTED_LOCATION ${ZeroMQ_LIBRARIES}
+            INTERFACE_INCLUDE_DIRECTORIES ${ZeroMQ_INCLUDE_DIRS})
+endif()
+
+include ( FindPackageHandleStandardArgs )
+find_package_handle_standard_args ( ZeroMQ DEFAULT_MSG ZeroMQ_LIBRARIES ZeroMQ_INCLUDE_DIRS )

cmake/package_config.cmake

@@ -26,7 +26,7 @@ install(FILES
 )
 
 install(FILES
-  "${CMAKE_SOURCE_DIR}/libzmq-pkg-config/FindZeroMQ.cmake"
+  "${CMAKE_SOURCE_DIR}/cmake/libzmq-pkg-config/FindZeroMQ.cmake"
   COMPONENT devel
   DESTINATION ${CMAKE_INSTALL_DIR}/libzmq-pkg-config
 )

conda-recepie/copy_lib.sh

@@ -19,4 +19,4 @@ cp build/install/bin/slsMultiReceiver $PREFIX/bin/.
 
 
 cp build/install/include/sls/* $PREFIX/include/sls
-cp -r build/install/share/ $PREFIX/share
+cp -rv build/install/share $PREFIX

conda-recepie/copy_moench.sh

@@ -1,6 +1,6 @@
 # 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/moench04ZmqProcess $PREFIX/bin/.
-cp build/install/bin/moenchZmqProcess $PREFIX/bin/.
+cp build/install/bin/moench* $PREFIX/bin/.

ctbGui/CMakeLists.txt

@@ -34,7 +34,7 @@ add_executable(ctbGui
     ctbAdcs.cpp
     ctbPattern.cpp
     ctbAcquisition.cpp
-    ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/tiffIO.cpp
+    ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/tiffio/src/tiffIO.cpp
 )
 
 
@@ -43,6 +43,7 @@ target_include_directories(ctbGui PRIVATE
     ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/dataStructures
     ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/interpolations
     ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/
+    ${CMAKE_SOURCE_DIR}/slsDetectorCalibration/tiffio/include/
 )
 
 # Headders needed for ROOT dictionary generation

docs/src/gendoc.cpp

@@ -45,6 +45,7 @@ int main() {
 
     for (const auto &cmd : commands) {
         std::ostringstream os;
+        std::cout << cmd << '\n';
         proxy.Call(cmd, {}, -1, slsDetectorDefs::HELP_ACTION, os);
 
         auto tmp = os.str().erase(0, cmd.size());

docs/src/pygettingstarted.rst

@@ -136,7 +136,7 @@ can use dir()
     '__str__', '__subclasshook__', '_adc_register', '_frozen', 
     '_register', 'acquire', 'adcclk', 'adcphase', 'adcpipeline', 
     'adcreg', 'asamples', 'auto_comp_disable', 'clearAcquiringFlag', 
-    'clearBit', 'clearROI', 'client_version', 'config', 'copyDetectorServer', 
+    'clearBit', 'clearROI', 'client_version', 'config',  
     'counters', 'daclist', 'dacvalues', 'dbitclk', 'dbitphase' ...
 
 Since the list for Detector is rather long it's an good idea to filter it. 

docs/src/serverupgrade.rst

@@ -5,17 +5,42 @@ Detector Server Upgrade
 
 **Location:** slsDetectorPackage/serverBin/ folder for every release.
 
+.. note :: 
+
+    For Mythen3, Gotthard2 and Eiger, you need to add scripts to automatically start detector server upon power on. See :ref:`Automatic start<Automatic start servers>` for more details.
+
+ .. note :: 
+
+    Eiger requires a manual reboot. Or killall the servers and restart the new linked one. If you are in the process of updating firmware, then don't reboot yet.
+
+
+From 6.1.1 and above (no tftp required)
+---------------------------------------
+
+#. Program from console
+
+    .. code-block:: bash
+
+        # the following command copies new server, creates a soft link to xxxDetectorServerxxx
+        # [Jungfrau][CTB][Moench] also deletes the old server binary and edits initttab to respawn server on reboot
+        # Then, the detector controller will reboot (except Eiger)
+        sls_detector_put updatedetectorserver /complete-path-to-binary/xxxDetectorServerxxx
+
+#. Copy the detector server specific config files or any others required to the detector:
+
+   .. code-block:: bash
+
+        sls_detector_put execcommand "tftp pcxxx -r configxxx -g"
+
+5.0.0 - 6.1.1
+--------------
 
 #. Install tftp and copy detector server binary to tftp folder
 #. Program from console
 
-    .. note :: 
-
-        These instructions are for upgrades from v5.0.0. For earlier versions, contact us.
-
     .. code-block:: bash
 
-        # copies new server from pc tftp folder, creates a soft link to xxxDetectorServerxxx
+        # the following command copies new server from pc tftp folder, creates a soft link to xxxDetectorServerxxx
         # [Jungfrau][CTB][Moench] also edits initttab to respawn server on reboot
         # Then, the detector controller will reboot (except Eiger)
         sls_detector_put copydetectorserver xxxDetectorServerxxx pcxxx
@@ -27,18 +52,15 @@ Detector Server Upgrade
         sls_detector_put execcommand "tftp pcxxx -r configxxx -g"
 
 
-.. note :: 
-
-    For Mythen3, Gotthard2 and Eiger, you need to add scripts to automatically start detector server upon power on. See :ref:`Automatic start<Automatic start servers>` for more details.
-
- .. note :: 
-
-    Eiger requires a manual reboot. Or killall the servers and restart the new linked one. If you are in the process of updating firmware, then don't reboot yet.
-
-
-Errors
-------
+Troubleshooting with tftp
+^^^^^^^^^^^^^^^^^^^^^^^^^
 
 #. tftp write error: There is no space left. Please delete some old binaries and try again.
 
-#. text file busy: You are trying to copy the same server.
+#. text file busy: You are trying to copy the same server.
+
+
+Older than 5.0.0
+-----------------
+
+Please contact us.

integrationTests/test-eigerIntegration.cpp

@@ -6,6 +6,8 @@
 #include "tests/globals.h"
 #include <iostream>
 
+namespace sls {
+
 class MultiDetectorFixture {
   protected:
     DetectorImpl d;
@@ -136,7 +138,7 @@ TEST_CASE_METHOD(MultiDetectorFixture, "Get ID", "[.eigerintegration][cli]") {
     std::string hn = test::hostname;
     hn.erase(std::remove(begin(hn), end(hn), 'b'), end(hn));
     hn.erase(std::remove(begin(hn), end(hn), 'e'), end(hn));
-    auto hostnames = sls::split(hn, '+');
+    auto hostnames = split(hn, '+');
     CHECK(hostnames.size() == d.getNumberOfDetectors());
     for (int i = 0; i != d.getNumberOfDetectors(); ++i) {
         CHECK(d.getId(defs::DETECTOR_SERIAL_NUMBER, 0) ==
@@ -198,3 +200,5 @@ TEST_CASE_METHOD(MultiDetectorFixture, "rate correction",
     d.setRateCorrection(200);
     CHECK(d.getRateCorrection() == 200);
 }
+
+} // namespace sls

integrationTests/test-integrationDectector.cpp

@@ -24,6 +24,8 @@
 // extern std::string detector_type;
 // extern dt type;
 
+namespace sls {
+
 TEST_CASE("Single detector no receiver", "[.integration][.single]") {
     auto t = Module::getTypeFromDetector(test::hostname);
     CHECK(t == test::type);
@@ -283,14 +285,14 @@ TEST_CASE(
     CHECK(m.getRateCorrection() == ratecorr);
 
     // ratecorr fail with dr 4 or 8
-    CHECK_THROWS_AS(m.setDynamicRange(8), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setDynamicRange(8), RuntimeError);
     CHECK(m.getRateCorrection() == 0);
     m.setDynamicRange(16);
     m.setDynamicRange(16);
     m.setRateCorrection(ratecorr);
     m.setDynamicRange(16);
     m.setRateCorrection(ratecorr);
-    CHECK_THROWS_AS(m.setDynamicRange(4), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setDynamicRange(4), RuntimeError);
     CHECK(m.getRateCorrection() == 0);
 }
 
@@ -329,11 +331,11 @@ TEST_CASE("Chiptestboard Loading Patterns", "[.ctbintegration]") {
     m.setPatternWord(addr, word);
     CHECK(m.setPatternWord(addr, -1) == word);
     addr = MAX_ADDR;
-    CHECK_THROWS_AS(m.setPatternWord(addr, word), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setPatternWord(addr, word), RuntimeError);
     CHECK_THROWS_WITH(m.setPatternWord(addr, word),
                       Catch::Matchers::Contains("be between 0 and"));
     addr = -1;
-    CHECK_THROWS_AS(m.setPatternWord(addr, word), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setPatternWord(addr, word), RuntimeError);
     CHECK_THROWS_WITH(m.setPatternWord(addr, word),
                       Catch::Matchers::Contains("be between 0 and"));
 
@@ -408,7 +410,7 @@ TEST_CASE("Chiptestboard Dbit offset, list, sampling, advinvert",
     CHECK(m.getReceiverDbitList().size() == 10);
 
     list.push_back(64);
-    CHECK_THROWS_AS(m.setReceiverDbitList(list), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setReceiverDbitList(list), RuntimeError);
     CHECK_THROWS_WITH(m.setReceiverDbitList(list),
                       Catch::Matchers::Contains("be between 0 and 63"));
 
@@ -476,7 +478,7 @@ TEST_CASE("Eiger or Jungfrau nextframenumber",
     CHECK(m.acquire() == slsDetectorDefs::OK);
     CHECK(m.getReceiverCurrentFrameIndex() == val);
 
-    CHECK_THROWS_AS(m.setNextFrameNumber(0), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setNextFrameNumber(0), RuntimeError);
 
     if (m.getDetectorTypeAsString() == "Eiger") {
         val = 281474976710655;
@@ -511,8 +513,10 @@ TEST_CASE("Eiger partialread", "[.eigerintegration][partialread]") {
     m.setDynamicRange(8);
     m.setPartialReadout(256);
     CHECK(m.getPartialReadout() == 256);
-    CHECK_THROWS_AS(m.setPartialReadout(1), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setPartialReadout(1), RuntimeError);
     CHECK(m.getPartialReadout() == 256);
-    CHECK_THROWS_AS(m.setPartialReadout(0), sls::RuntimeError);
+    CHECK_THROWS_AS(m.setPartialReadout(0), RuntimeError);
     m.setPartialReadout(256);
-}
+}
+
+} // namespace sls

integrationTests/test-integrationMulti.cpp

@@ -6,10 +6,12 @@
 #include "tests/globals.h"
 #include <iostream>
 
+namespace sls {
+
 using namespace Catch::literals;
 
 TEST_CASE("Initialize a multi detector", "[.integration][.multi]") {
-    auto hostnames = sls::split(test::hostname, '+');
+    auto hostnames = split(test::hostname, '+');
 
     DetectorImpl d(0, true, true);
     d.setHostname(test::hostname.c_str());
@@ -102,3 +104,6 @@ TEST_CASE("Set and read timers", "[.integration][.multi]") {
 
     d.freeSharedMemory();
 }
+
+} // namespace sls
+

libzmq-pkg-config/FindZeroMQ.cmake

@@ -1,27 +0,0 @@
-#From: https://github.com/zeromq/cppzmq/
-set(PKG_CONFIG_USE_CMAKE_PREFIX_PATH ON)
-find_package(PkgConfig)
-pkg_check_modules(PC_LIBZMQ QUIET libzmq)
-
-set(ZeroMQ_VERSION ${PC_LIBZMQ_VERSION})
-find_library(ZeroMQ_LIBRARY NAMES libzmq.so libzmq.dylib libzmq.dll
-             PATHS ${PC_LIBZMQ_LIBDIR} ${PC_LIBZMQ_LIBRARY_DIRS})
-find_library(ZeroMQ_STATIC_LIBRARY NAMES libzmq-static.a libzmq.a libzmq.dll.a
-             PATHS ${PC_LIBZMQ_LIBDIR} ${PC_LIBZMQ_LIBRARY_DIRS})
-
-if(ZeroMQ_LIBRARY OR ZeroMQ_STATIC_LIBRARY)
-    set(ZeroMQ_FOUND ON)
-endif()
-
-if (TARGET libzmq)
-    # avoid errors defining targets twice
-    return()
-endif()
-
-add_library(libzmq SHARED IMPORTED)
-set_property(TARGET libzmq PROPERTY INTERFACE_INCLUDE_DIRECTORIES ${PC_LIBZMQ_INCLUDE_DIRS})
-set_property(TARGET libzmq PROPERTY IMPORTED_LOCATION ${ZeroMQ_LIBRARY})
-
-add_library(libzmq-static STATIC IMPORTED ${PC_LIBZMQ_INCLUDE_DIRS})
-set_property(TARGET libzmq-static PROPERTY INTERFACE_INCLUDE_DIRECTORIES ${PC_LIBZMQ_INCLUDE_DIRS})
-set_property(TARGET libzmq-static PROPERTY IMPORTED_LOCATION ${ZeroMQ_STATIC_LIBRARY})

python/scripts/generate_functions.py

@@ -6,49 +6,57 @@ sls::Detector class. The tool needs the libclang bindings
 to be installed. 
 
 When the Detector API is updated this file should be run
-manually
+manually.
 """
 from clang import cindex
 import subprocess
 import argparse
+import sys
+import time
+from pathlib import Path
+from parse import system_include_paths, clang_format_version
 
+REDC = '\033[91m'
+GREENC = '\033[92m'
+ENDC = '\033[0m'
+def red(msg):
+    return f'{REDC}{msg}{ENDC}'
+
+def green(msg):
+    return f'{GREENC}{msg}{ENDC}'
+
+def check_clang_format_version(required_version):
+    if (ver := clang_format_version()) != required_version:
+        msg = red(f'Clang format version {required_version} required, detected: {ver}. Bye!')
+        print(msg)
+        sys.exit(1)
+    else:
+        msg = green(f'Found clang-format version {ver}')
+        print(msg)
+
+def check_for_compile_commands_json(path):
+    # print(f"Looking for compile data base in: {path}")
+    compile_data_base_file = path/'compile_commands.json'
+    if not compile_data_base_file.exists():
+        msg = red(f"No compile_commands.json file found in {path}. Bye!")
+        print(msg)
+        sys.exit(1)
+    else:
+        msg = green(f'Found: {compile_data_base_file}')
+        print(msg)
 
-from parse import system_include_paths
 
 default_build_path = "/home/l_frojdh/sls/build/"
 fpath = "../../slsDetectorSoftware/src/Detector.cpp"
 
 
-parser = argparse.ArgumentParser()
-parser.add_argument(
-    "-p",
-    "--build_path",
-    help="Path to the build database",
-    type=str,
-    default=default_build_path,
-)
-cargs = parser.parse_args()
 
-db = cindex.CompilationDatabase.fromDirectory(cargs.build_path)
-index = cindex.Index.create()
-args = db.getCompileCommands(fpath)
-args = list(iter(args).__next__().arguments)[0:-1]
-args = args + "-x c++ --std=c++11".split()
-syspath = system_include_paths("clang++")
-incargs = ["-I" + inc for inc in syspath]
-args = args + incargs
-
-
-tu = index.parse(fpath, args=args)
 
 
 m = []
 ag = []
-
 lines = []
-
 ag2 = []
-
 cn = []
 
 def get_arguments(node):
@@ -66,7 +74,7 @@ def get_arguments_with_default(node):
     args = []
     for arg in node.get_arguments():
         tokens = [t.spelling for t in arg.get_tokens()]
-        print(tokens)
+        # print(tokens)
         if '=' in tokens:
             if arg.type.spelling == "sls::Positions": #TODO! automate
                 args.append("py::arg() = Positions{}")
@@ -111,33 +119,67 @@ def visit(node):
                     lines.append(
                         f'.def("{child.spelling}",{fs} &Detector::{child.spelling}{args})'
                     )
+                    if cargs.verbose:
+                        print(f'&Detector::{child.spelling}{args})')
                     cn.append(child)
     for child in node.get_children():
         visit(child)
 
-        # .def("setRxHostname",
-        #      (void (Detector::*)(const std::string &, Positions)) &
-        #          Detector::setRxHostname,
-        #      py::arg(), py::arg() = Positions{})
-        # .def("setRxHostname",
-        #      (void (Detector::*)(const std::vector<std::string> &)) &
-        #          Detector::setRxHostname,
-        #      py::arg())
 
+if __name__ == "__main__":
+    parser = argparse.ArgumentParser()
+    parser.add_argument(
+        "-p",
+        "--build_path",
+        help="Path to the build database",
+        type=Path,
+        default=default_build_path,
+    )
+    parser.add_argument(
+        "-v",
+        "--verbose",
+        help="more output",
+        action='store_true',
+    )
+    cargs = parser.parse_args()
+    
+    check_clang_format_version(12)
+    check_for_compile_commands_json(cargs.build_path)
 
-visit(tu.cursor)
+    print("Parsing functions in Detector.h - ", end = "", flush = True)
+    t0 = time.perf_counter()
+    #parse functions
+    db = cindex.CompilationDatabase.fromDirectory(cargs.build_path)
+    index = cindex.Index.create()
+    args = db.getCompileCommands(fpath)
+    args = list(iter(args).__next__().arguments)[0:-1]
+    args = args + "-x c++ --std=c++11".split()
+    syspath = system_include_paths("clang++")
+    incargs = ["-I" + inc for inc in syspath]
+    args = args + incargs
+    tu = index.parse(fpath, args=args)
+    visit(tu.cursor)
+    print(green('OK'))
+    print(f'Parsing took {time.perf_counter()-t0:.3f}s')
 
+    print("Read detector_in.cpp - ", end = "")
+    with open("../src/detector_in.cpp") as f:
+        data = f.read()
+    s = "".join(lines)
+    s += ";"
+    text = data.replace("[[FUNCTIONS]]", s)
+    warning = "/* WARINING This file is auto generated any edits might be overwritten without warning */\n\n"
+    print(green("OK"))
+    print("Writing to detector.cpp - ", end = "")
+    with open("../src/detector.cpp", "w") as f:
+        f.write(warning)
+        f.write(text)
+    print(green('OK'))
 
-with open("../src/detector_in.cpp") as f:
-    data = f.read()
-s = "".join(lines)
-s += ";"
-text = data.replace("[[FUNCTIONS]]", s)
-warning = "/* WARINING This file is auto generated any edits might be overwritten without warning */\n\n"
-with open("../src/detector.cpp", "w") as f:
-    f.write(warning)
-    f.write(text)
-
-# run clang format on the output
-subprocess.run(["clang-format", "../src/detector.cpp", "-i"])
+    # run clang format on the output
+    print('Running clang format on generated source -', end = "")
+    subprocess.run(["clang-format", "../src/detector.cpp", "-i"])
+    print(green(" OK"))
 
+    print("Changes since last commit:")
+    subprocess.run(['git',  'diff', '../src/detector.cpp'])

python/scripts/parse.py

@@ -5,6 +5,12 @@ import subprocess
 from subprocess import PIPE
 import os
 
+def clang_format_version():
+    p = subprocess.run(['clang-format', '--version'], capture_output = True)
+    ver = p.stdout.decode().split()[2]
+    major = int(ver.split('.')[0])
+    return major
+
 
 def remove_comments(text):
     def replacer(match):

python/slsdet/ctb.py

@@ -1,43 +1,45 @@
 # SPDX-License-Identifier: LGPL-3.0-or-other
 # Copyright (C) 2021 Contributors to the SLS Detector Package
-from .detector import Detector
+from .detector import Detector, freeze
 from .utils import element_if_equal
-from .dacs import DetectorDacs
+from .dacs import DetectorDacs, NamedDacs
 import _slsdet
 dacIndex = _slsdet.slsDetectorDefs.dacIndex
 from .detector_property import DetectorProperty
 
-class CtbDacs(DetectorDacs):
-    """
-    Ctb dacs
-    """
-    _dacs = [('dac0',  dacIndex(0), 0, 4000,    1400),
-             ('dac1',  dacIndex(1), 0, 4000,    1200),
-             ('dac2',  dacIndex(2), 0, 4000,    900),
-             ('dac3',  dacIndex(3), 0, 4000,    1050),
-             ('dac4',  dacIndex(4), 0, 4000,     1400),
-             ('dac5',  dacIndex(5), 0, 4000,    655),
-             ('dac6',  dacIndex(6), 0, 4000,    2000),
-             ('dac7',  dacIndex(7), 0, 4000,     1400),
-             ('dac8',  dacIndex(8), 0, 4000,    850),
-             ('dac9',  dacIndex(9), 0, 4000,    2000),
-             ('dac10', dacIndex(10), 0, 4000,    2294),
-             ('dac11', dacIndex(11), 0, 4000,    983),
-             ('dac12', dacIndex(12), 0, 4000,    1475),
-             ('dac13', dacIndex(13), 0, 4000,    1200),
-             ('dac14', dacIndex(14), 0, 4000,    1600),
-             ('dac15', dacIndex(15), 0, 4000,    1455),
-             ('dac16', dacIndex(16), 0, 4000,       0),
-             ('dac17', dacIndex(17), 0, 4000,    1000),
-            ]
-    _dacnames = [_d[0] for _d in _dacs]
+# class CtbDacs(DetectorDacs):
+#     """
+#     Ctb dacs
+#     """
+#     _dacs = [('dac0',  dacIndex(0), 0, 4000,    1400),
+#              ('dac1',  dacIndex(1), 0, 4000,    1200),
+#              ('dac2',  dacIndex(2), 0, 4000,    900),
+#              ('dac3',  dacIndex(3), 0, 4000,    1050),
+#              ('dac4',  dacIndex(4), 0, 4000,     1400),
+#              ('dac5',  dacIndex(5), 0, 4000,    655),
+#              ('dac6',  dacIndex(6), 0, 4000,    2000),
+#              ('dac7',  dacIndex(7), 0, 4000,     1400),
+#              ('dac8',  dacIndex(8), 0, 4000,    850),
+#              ('dac9',  dacIndex(9), 0, 4000,    2000),
+#              ('dac10', dacIndex(10), 0, 4000,    2294),
+#              ('dac11', dacIndex(11), 0, 4000,    983),
+#              ('dac12', dacIndex(12), 0, 4000,    1475),
+#              ('dac13', dacIndex(13), 0, 4000,    1200),
+#              ('dac14', dacIndex(14), 0, 4000,    1600),
+#              ('dac15', dacIndex(15), 0, 4000,    1455),
+#              ('dac16', dacIndex(16), 0, 4000,       0),
+#              ('dac17', dacIndex(17), 0, 4000,    1000),
+#             ]
+#     _dacnames = [_d[0] for _d in _dacs]
 
 from .utils import element
+@freeze
 class Ctb(Detector):
     def __init__(self, id = 0):
         super().__init__(id)
         self._frozen = False 
-        self._dacs = CtbDacs(self)
+        # self._dacs = CtbDacs(self)
+        self._dacs = NamedDacs(self)
     
     @property
     def dacs(self):

python/slsdet/dacs.py

@@ -36,6 +36,79 @@ class Dac(DetectorProperty):
         dacstr = ''.join([f'{item:5d}' for item in self.get()])
         return f'{self.__name__:15s}:{dacstr}'
 
+class NamedDacs:
+    """
+    New implementation of the detector dacs. Used at the momen for 
+    Ctb but should replace the old one for all detectors
+    """
+    _frozen = False
+    _direct_access = ['_detector', '_current', '_dacnames']
+    def __init__(self, detector):
+        self._detector = detector
+        self._current = 0
+
+        self._dacnames = [n.replace(" ", "") for n in detector.getDacNames()]
+        # # Populate the dacs
+        for i,name in enumerate(self._dacnames):
+            #name, enum, low, high, default, detector
+            setattr(self, name, Dac(name, dacIndex(i), 0, 4000, 1000, detector))
+
+        self._frozen = True
+
+    # def __getattr__(self, name):
+    #     return self.__getattribute__('_' + name)
+
+    def __setattr__(self, name, value):
+        if not self._frozen:
+            #durining init we need to be able to set up the class
+            super().__setattr__(name, value)
+        else:
+            #Later we restrict us to manipulate dacs and a few fields
+            if name in self._direct_access:
+                super().__setattr__(name, value)
+            elif name in self._dacnames:
+                return self.__getattribute__(name).__setitem__(slice(None, None, None), value)
+            else:
+                raise AttributeError(f'Dac not found: {name}')
+
+    def __next__(self):
+        if self._current >= len(self._dacnames):
+            self._current = 0
+            raise StopIteration
+        else:
+            self._current += 1
+            return self.__getattribute__(self._dacnames[self._current-1])
+            # return self.__getattr__(self._dacnames[self._current-1])
+
+    def __iter__(self):
+        return self
+
+    def __repr__(self):
+        r_str = ['========== DACS =========']
+        r_str += [repr(dac) for dac in self]
+        return '\n'.join(r_str)
+    def get_asarray(self):
+        """
+        Read the dacs into a numpy array with dimensions [ndacs, nmodules]
+        """
+        dac_array = np.zeros((len(self._dacnames), len(self._detector)))
+        for i, _d in enumerate(self):
+            dac_array[i,:] = _d[:]
+        return dac_array
+
+    def to_array(self):
+        return self.get_asarray()       
+
+    def set_from_array(self, dac_array):
+        """
+        Set the dacs from an numpy array with dac values. [ndacs, nmodules]
+        """
+        dac_array = dac_array.astype(np.int)
+        for i, _d in enumerate(self):
+            _d[:] = dac_array[i]
+
+    def from_array(self, dac_array):
+        self.set_from_array(dac_array)
 
 class DetectorDacs:
     _dacs = []
@@ -50,7 +123,7 @@ class DetectorDacs:
         # Index to support iteration
         self._current = 0
 
-        # Populate the dacs
+        # Name the attributes? 
         for _d in self._dacs:
             setattr(self, '_'+_d[0], Dac(*_d, detector))
 
@@ -59,7 +132,10 @@ class DetectorDacs:
     def __getattr__(self, name):
         return self.__getattribute__('_' + name)
 
-
+    @property
+    def dacnames(self):
+        return [_d[0] for _d in _dacs]
+        
     def __setattr__(self, name, value):
         if name in self._dacnames:
             return self.__getattribute__('_' + name).__setitem__(slice(None, None, None), value)

python/slsdet/detector.py

@@ -258,7 +258,7 @@ class Detector(CppDetectorApi):
     @element
     def rx_threads(self):
         """
-        Get thread ids from the receiver in order of [parent, tcp, listener 0, processor 0, streamer 0, listener 1, processor 1, streamer 1]. 
+        Get thread ids from the receiver in order of [parent, tcp, listener 0, processor 0, streamer 0, listener 1, processor 1, streamer 1, arping]. 
         
         Note
         -----
@@ -268,6 +268,17 @@ class Detector(CppDetectorApi):
         """
         return self.getRxThreadIds()
 
+    @property
+    @element
+    def rx_arping(self):
+        """Starts a thread in slsReceiver to arping the interface it is listening every minute. Useful in 10G mode. """
+        return self.getRxArping()
+
+    @rx_arping.setter
+    def rx_arping(self, value):
+        ut.set_using_dict(self.setRxArping, value)
+
+
     @property
     @element
     def dr(self):
@@ -276,7 +287,7 @@ class Detector(CppDetectorApi):
 
         Note
         -----
-        [Eiger] Options: 4, 8, 16, 32. If set to 32, also sets clkdivider to 2 (quarter speed), else to 0 (full speed)\n
+        [Eiger] Options: 4, 8, 12, 16, 32. If set to 32, also sets clkdivider to 2 (quarter speed), else to 0 (full speed)\n
         [Mythen3] Options: 8, 16, 32 \n
         [Jungfrau][Gotthard][Ctb][Moench][Mythen3][Gotthard2] 16
         """
@@ -588,7 +599,7 @@ class Detector(CppDetectorApi):
     @property
     @element
     def rx_framescaught(self):
-        """Number of frames caught by receiver."""
+        """Number of frames caught by each port in receiver."""
         return self.getFramesCaught()
 
     @property
@@ -1431,20 +1442,21 @@ class Detector(CppDetectorApi):
     @property
     def trimbits(self):
         """
-        [Eiger][Mythen3] Loads custom trimbit file to detector. 
+        [Eiger][Mythen3] Loads/Saves custom trimbit file to detector. 
         
         Note
         -----
         If no extension specified, serial number of each module is attached.
 
-        :getter: Not implemented
+        :setter: Loads the trimbit file to detector
+        :getter: Saves the trimbits from the detector to file. Not implemented with 'trimbits'. Use saveTrimbits().
 
         Example
         -------
         >>> d.trimbits = '/path_to_file/noise'
         - 14:53:27.931 INFO: Settings file loaded: /path_to_file/noise.sn000
         """
-        return NotImplementedError("trimbits are set only")
+        raise NotImplementedError('trimbits is set only. Use saveTrimbits()')
 
     @trimbits.setter
     def trimbits(self, fname):
@@ -1463,6 +1475,19 @@ class Detector(CppDetectorApi):
     def trimval(self, value):
         ut.set_using_dict(self.setAllTrimbits, value)
 
+    @property
+    @element
+    def master(self):
+        """
+        [Eiger] Sets half module to master and others to slaves.\n
+        [Gotthard][Gotthard2][Mythen3][Eiger] Gets if the current module/ half module is master.
+        """
+        return self.getMaster()
+
+    @master.setter
+    def master(self, value):
+        ut.set_using_dict(self.setMaster, value)
+
     @property
     @element
     def lock(self):
@@ -1547,8 +1572,16 @@ class Detector(CppDetectorApi):
 
     @property
     def daclist(self):
-        """Gets the list of enums for every dac for this detector."""
-        return self.getDacList()
+        """
+        List of enums for every dac for this detector.
+        :setter: Only implemented for Chiptestboard
+        
+        """
+        return self.getDacNames()
+
+    @daclist.setter
+    def daclist(self, value):
+        self.setDacNames(value)
 
     @property
     def dacvalues(self):
@@ -1801,13 +1834,13 @@ class Detector(CppDetectorApi):
     @property
     @element
     def threshold(self):
-        """[Eiger] Threshold in eV
+        """[Eiger][Mythen3] Threshold in eV
         
         Note
         ----
         To change settings as well or set threshold without trimbits, use setThresholdEnergy.
 
-        :setter: It loads trim files from settingspath.
+        :setter: It loads trim files from settingspath.\n [Mythen3] An energy of -1 will pick up values from detector.
         """
         if self.type == detectorType.MYTHEN3:
             return self.getAllThresholdEnergy()
@@ -1894,13 +1927,13 @@ class Detector(CppDetectorApi):
     @property
     @element
     def rx_frameindex(self):
-        """Current frame index received in receiver during acquisition."""
+        """Current frame index received for each port in receiver during acquisition."""
         return self.getRxCurrentFrameIndex()
 
     @property
     @element
     def rx_missingpackets(self):
-        """Gets the number of missing packets for each port in receiver."""
+        """Gets the number of missing packets for each port in receiver. Negative number denotes extra packets. """
         return self.getNumMissingPackets()
 
     """
@@ -1913,7 +1946,7 @@ class Detector(CppDetectorApi):
     def datastream(self):
         """
         datastream [left|right] [0, 1]
-	    [Eiger] Enables or disables data streaming from left or/and right side of detector. 1 (enabled) by default.
+	    [Eiger] Enables or disables data streaming from left or/and right side of detector for 10GbE mode. 1 (enabled) by default.
         """
         result = {}
         for port in [defs.LEFT, defs.RIGHT]:
@@ -2115,6 +2148,21 @@ class Detector(CppDetectorApi):
         """
         return ut.reduce_time(self.getMeasuredSubFramePeriod())
 
+    @property
+    @element
+    def top(self):
+        """[Eiger] Sets half module to top (1), else bottom.
+        
+        Note
+        -----
+        Advanced Function!
+        """
+        return self.getTop()
+
+    @top.setter
+    def top(self, value):
+        ut.set_using_dict(self.setTop, value)
+
     """
     ------------------<<<Jungfrau specific>>>-------------------------
     """
@@ -2570,7 +2618,7 @@ class Detector(CppDetectorApi):
         -------
         >>> d.vetophoton = (2, 24, 2560, '/tmp/bla.txt')
         """
-        raise NotImplementedError('vetofile is set only')
+        raise NotImplementedError('vetophoton is set only')
 
     @vetophoton.setter
     def vetophoton(self, args):
@@ -3451,10 +3499,60 @@ class Detector(CppDetectorApi):
 
     def readout(self):
         """
-        Mythen3] Starts detector readout. Status changes to TRANSMITTING and automatically returns to idle at the end of readout.
+        [Mythen3] Starts detector readout. Status changes to TRANSMITTING and automatically returns to idle at the end of readout.
         """
         self.startDetectorReadout()
     
+    @property
+    @element
+    def polarity(self):
+        """[Mythen3] Set positive or negative polarity. Enum: polarity"""
+        return self.getPolarity()
+
+    @polarity.setter
+    def polarity(self, value):
+        ut.set_using_dict(self.setPolarity, value)
+
+    @property
+    @element
+    def interpolation(self):
+        """[Mythen3] Enable or disable interpolation.  interpolation mode enables all counters and disables vth3. Disabling sets back counter mask and vth3. """
+        return self.getInterpolation()
+
+    @interpolation.setter
+    def interpolation(self, value):
+        ut.set_using_dict(self.setInterpolation, value)
+
+    @property
+    @element
+    def pumpprobe(self):
+        """[Mythen3] Enable or disable pump probe mode. Pump probe mode only enables vth2. Disabling sets back to previous value """
+        return self.getPumpProbe()
+
+    @pumpprobe.setter
+    def pumpprobe(self, value):
+        ut.set_using_dict(self.setPumpProbe, value)
+
+    @property
+    @element
+    def apulse(self):
+        """[Mythen3] Enable or disable analog pulsing. """
+        return self.getAnalogPulsing()
+
+    @apulse.setter
+    def apulse(self, value):
+        ut.set_using_dict(self.setAnalogPulsing, value)
+
+    @property
+    @element
+    def dpulse(self):
+        """[Mythen3] Enable or disable digital pulsing. """
+        return self.getDigitalPulsing()
+
+    @dpulse.setter
+    def dpulse(self, value):
+        ut.set_using_dict(self.setDigitalPulsing, value)
+
 
     """
     ---------------------------<<<Debug>>>---------------------------

python/src/detector.cpp

@@ -1,8 +1,8 @@
-// SPDX-License-Identifier: LGPL-3.0-or-other
-// Copyright (C) 2021 Contributors to the SLS Detector Package
 /* WARINING This file is auto generated any edits might be overwritten without
  * warning */
 
+// SPDX-License-Identifier: LGPL-3.0-or-other
+// Copyright (C) 2021 Contributors to the SLS Detector Package
 #include <pybind11/chrono.h>
 #include <pybind11/operators.h>
 #include <pybind11/pybind11.h>
@@ -144,6 +144,10 @@ void init_det(py::module &m) {
              (void (Detector::*)(const std::string &, sls::Positions)) &
                  Detector::loadTrimbits,
              py::arg(), py::arg() = Positions{})
+        .def("saveTrimbits",
+             (void (Detector::*)(const std::string &, sls::Positions)) &
+                 Detector::saveTrimbits,
+             py::arg(), py::arg() = Positions{})
         .def("getAllTrimbits",
              (Result<int>(Detector::*)(sls::Positions) const) &
                  Detector::getAllTrimbits,
@@ -173,6 +177,12 @@ void init_det(py::module &m) {
         .def("setFlipRows",
              (void (Detector::*)(bool, sls::Positions)) & Detector::setFlipRows,
              py::arg(), py::arg() = Positions{})
+        .def("getMaster",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getMaster,
+             py::arg() = Positions{})
+        .def("setMaster", (void (Detector::*)(bool, int)) & Detector::setMaster,
+             py::arg(), py::arg())
         .def("isVirtualDetectorServer",
              (Result<bool>(Detector::*)(sls::Positions) const) &
                  Detector::isVirtualDetectorServer,
@@ -181,12 +191,12 @@ void init_det(py::module &m) {
              (void (Detector::*)(void (*)(double, int, void *), void *)) &
                  Detector::registerAcquisitionFinishedCallback,
              py::arg(), py::arg())
-        .def(
-            "registerDataCallback",
-            (void (Detector::*)(
-                void (*)(detectorData *, uint64_t, uint32_t, void *), void *)) &
-                Detector::registerDataCallback,
-            py::arg(), py::arg())
+        .def("registerDataCallback",
+             (void (Detector::*)(
+                 void (*)(sls::detectorData *, uint64_t, uint32_t, void *),
+                 void *)) &
+                 Detector::registerDataCallback,
+             py::arg(), py::arg())
         .def("getNumberOfFrames",
              (Result<int64_t>(Detector::*)(sls::Positions) const) &
                  Detector::getNumberOfFrames,
@@ -470,7 +480,9 @@ void init_det(py::module &m) {
              (void (Detector::*)()) & Detector::clearAcquiringFlag)
         .def("startReceiver", (void (Detector::*)()) & Detector::startReceiver)
         .def("stopReceiver", (void (Detector::*)()) & Detector::stopReceiver)
-        .def("startDetector", (void (Detector::*)()) & Detector::startDetector)
+        .def("startDetector",
+             (void (Detector::*)(sls::Positions)) & Detector::startDetector,
+             py::arg() = Positions{})
         .def("startDetectorReadout",
              (void (Detector::*)()) & Detector::startDetectorReadout)
         .def("stopDetector",
@@ -485,14 +497,17 @@ void init_det(py::module &m) {
                  Detector::getReceiverStatus,
              py::arg() = Positions{})
         .def("getFramesCaught",
-             (Result<int64_t>(Detector::*)(sls::Positions) const) &
+             (Result<std::vector<int64_t>>(Detector::*)(sls::Positions) const) &
                  Detector::getFramesCaught,
              py::arg() = Positions{})
-        .def(
-            "getNumMissingPackets",
-            (Result<std::vector<uint64_t>>(Detector::*)(sls::Positions) const) &
-                Detector::getNumMissingPackets,
-            py::arg() = Positions{})
+        .def("getNumMissingPackets",
+             (Result<std::vector<int64_t>>(Detector::*)(sls::Positions) const) &
+                 Detector::getNumMissingPackets,
+             py::arg() = Positions{})
+        .def("getRxCurrentFrameIndex",
+             (Result<std::vector<int64_t>>(Detector::*)(sls::Positions) const) &
+                 Detector::getRxCurrentFrameIndex,
+             py::arg() = Positions{})
         .def("getNextFrameNumber",
              (Result<uint64_t>(Detector::*)(sls::Positions) const) &
                  Detector::getNextFrameNumber,
@@ -765,9 +780,25 @@ void init_det(py::module &m) {
                  Detector::getRxLastClientIP,
              py::arg() = Positions{})
         .def("getRxThreadIds",
-             (Result<std::array<pid_t, 8>>(Detector::*)(sls::Positions) const) &
+             (Result<std::array<pid_t, 9>>(Detector::*)(sls::Positions) const) &
                  Detector::getRxThreadIds,
              py::arg() = Positions{})
+        .def("getRxArping",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getRxArping,
+             py::arg() = Positions{})
+        .def("setRxArping",
+             (void (Detector::*)(bool, sls::Positions)) & Detector::setRxArping,
+             py::arg(), py::arg() = Positions{})
+        .def("getIndividualRxROIs",
+             (Result<defs::ROI>(Detector::*)(sls::Positions) const) &
+                 Detector::getIndividualRxROIs,
+             py::arg())
+        .def("getRxROI", (defs::ROI(Detector::*)() const) & Detector::getRxROI)
+        .def("setRxROI",
+             (void (Detector::*)(const defs::ROI)) & Detector::setRxROI,
+             py::arg())
+        .def("clearRxROI", (void (Detector::*)()) & Detector::clearRxROI)
         .def("getFileFormat",
              (Result<defs::fileFormat>(Detector::*)(sls::Positions) const) &
                  Detector::getFileFormat,
@@ -997,6 +1028,13 @@ void init_det(py::module &m) {
                                  sls::Positions)) &
                  Detector::setDataStream,
              py::arg(), py::arg(), py::arg() = Positions{})
+        .def("getTop",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getTop,
+             py::arg() = Positions{})
+        .def("setTop",
+             (void (Detector::*)(bool, sls::Positions)) & Detector::setTop,
+             py::arg(), py::arg() = Positions{})
         .def("getChipVersion",
              (Result<double>(Detector::*)(sls::Positions) const) &
                  Detector::getChipVersion,
@@ -1255,10 +1293,6 @@ void init_det(py::module &m) {
              (Result<std::array<ns, 3>>(Detector::*)(sls::Positions) const) &
                  Detector::getGateDelayForAllGates,
              py::arg() = Positions{})
-        .def("getMaster",
-             (Result<bool>(Detector::*)(sls::Positions) const) &
-                 Detector::getMaster,
-             py::arg() = Positions{})
         .def("getChipStatusRegister",
              (Result<int>(Detector::*)(sls::Positions) const) &
                  Detector::getChipStatusRegister,
@@ -1269,6 +1303,46 @@ void init_det(py::module &m) {
         .def("getGainCaps",
              (Result<int>(Detector::*)(sls::Positions)) & Detector::getGainCaps,
              py::arg() = Positions{})
+        .def("getPolarity",
+             (Result<defs::polarity>(Detector::*)(sls::Positions) const) &
+                 Detector::getPolarity,
+             py::arg() = Positions{})
+        .def("setPolarity",
+             (void (Detector::*)(defs::polarity, sls::Positions)) &
+                 Detector::setPolarity,
+             py::arg(), py::arg() = Positions{})
+        .def("getInterpolation",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getInterpolation,
+             py::arg() = Positions{})
+        .def("setInterpolation",
+             (void (Detector::*)(bool, sls::Positions)) &
+                 Detector::setInterpolation,
+             py::arg(), py::arg() = Positions{})
+        .def("getPumpProbe",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getPumpProbe,
+             py::arg() = Positions{})
+        .def("setPumpProbe",
+             (void (Detector::*)(bool, sls::Positions)) &
+                 Detector::setPumpProbe,
+             py::arg(), py::arg() = Positions{})
+        .def("getAnalogPulsing",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getAnalogPulsing,
+             py::arg() = Positions{})
+        .def("setAnalogPulsing",
+             (void (Detector::*)(bool, sls::Positions)) &
+                 Detector::setAnalogPulsing,
+             py::arg(), py::arg() = Positions{})
+        .def("getDigitalPulsing",
+             (Result<bool>(Detector::*)(sls::Positions) const) &
+                 Detector::getDigitalPulsing,
+             py::arg() = Positions{})
+        .def("setDigitalPulsing",
+             (void (Detector::*)(bool, sls::Positions)) &
+                 Detector::setDigitalPulsing,
+             py::arg(), py::arg() = Positions{})
         .def("getNumberOfAnalogSamples",
              (Result<int>(Detector::*)(sls::Positions) const) &
                  Detector::getNumberOfAnalogSamples,
@@ -1406,6 +1480,19 @@ void init_det(py::module &m) {
              (void (Detector::*)(bool, sls::Positions)) &
                  Detector::setLEDEnable,
              py::arg(), py::arg() = Positions{})
+        .def("setDacNames",
+             (void (Detector::*)(const std::vector<std::string>)) &
+                 Detector::setDacNames,
+             py::arg())
+        .def("getDacNames", (std::vector<std::string>(Detector::*)() const) &
+                                Detector::getDacNames)
+        .def("getDacIndex",
+             (defs::dacIndex(Detector::*)(const std::string &)) &
+                 Detector::getDacIndex,
+             py::arg())
+        .def("getDacName",
+             (std::string(Detector::*)(defs::dacIndex)) & Detector::getDacName,
+             py::arg())
         .def("setPattern",
              (void (Detector::*)(const std::string &, sls::Positions)) &
                  Detector::setPattern,
@@ -1510,17 +1597,13 @@ void init_det(py::module &m) {
                  Detector::setAdditionalJsonParameter,
              py::arg(), py::arg(), py::arg() = Positions{})
         .def("programFPGA",
-             (void (Detector::*)(const std::string &, sls::Positions)) &
+             (void (Detector::*)(const std::string &, const bool,
+                                 sls::Positions)) &
                  Detector::programFPGA,
-             py::arg(), py::arg() = Positions{})
+             py::arg(), py::arg(), py::arg() = Positions{})
         .def("resetFPGA",
              (void (Detector::*)(sls::Positions)) & Detector::resetFPGA,
              py::arg() = Positions{})
-        .def("copyDetectorServer",
-             (void (Detector::*)(const std::string &, const std::string &,
-                                 sls::Positions)) &
-                 Detector::copyDetectorServer,
-             py::arg(), py::arg(), py::arg() = Positions{})
         .def("updateDetectorServer",
              (void (Detector::*)(const std::string &, sls::Positions)) &
                  Detector::updateDetectorServer,
@@ -1532,11 +1615,6 @@ void init_det(py::module &m) {
         .def("rebootController",
              (void (Detector::*)(sls::Positions)) & Detector::rebootController,
              py::arg() = Positions{})
-        .def("updateFirmwareAndServer",
-             (void (Detector::*)(const std::string &, const std::string &,
-                                 const std::string &, sls::Positions)) &
-                 Detector::updateFirmwareAndServer,
-             py::arg(), py::arg(), py::arg(), py::arg() = Positions{})
         .def("updateFirmwareAndServer",
              (void (Detector::*)(const std::string &, const std::string &,
                                  sls::Positions)) &
@@ -1547,7 +1625,7 @@ void init_det(py::module &m) {
                  Detector::getUpdateMode,
              py::arg() = Positions{})
         .def("setUpdateMode",
-             (void (Detector::*)(bool, sls::Positions)) &
+             (void (Detector::*)(const bool, sls::Positions)) &
                  Detector::setUpdateMode,
              py::arg(), py::arg() = Positions{})
         .def("readRegister",
@@ -1639,9 +1717,5 @@ void init_det(py::module &m) {
                  Detector::getMeasurementTime,
              py::arg() = Positions{})
         .def("getUserDetails",
-             (std::string(Detector::*)() const) & Detector::getUserDetails)
-        .def("getRxCurrentFrameIndex",
-             (Result<uint64_t>(Detector::*)(sls::Positions) const) &
-                 Detector::getRxCurrentFrameIndex,
-             py::arg() = Positions{});
+             (std::string(Detector::*)() const) & Detector::getUserDetails);
 }

python/src/enums.cpp

@@ -315,4 +315,9 @@ void init_enums(py::module &m) {
         .value("FIX_G2", slsDetectorDefs::gainMode::FIX_G2)
         .value("FIX_G0", slsDetectorDefs::gainMode::FIX_G0)
         .export_values();
+
+    py::enum_<slsDetectorDefs::polarity>(Defs, "polarity")
+        .value("POSITIVE", slsDetectorDefs::polarity::POSITIVE)
+        .value("NEGATIVE", slsDetectorDefs::polarity::NEGATIVE)
+        .export_values();
 }

slsDetectorCalibration/moenchExecutables/CMakeLists.txt

@@ -56,7 +56,8 @@ foreach(exe ${MOENCH_EXECUTABLES})
         ../dataStructures 
         ../interpolations
         ../../slsReceiverSoftware/include/
-	../../slsSupportLib/include/
+	    ../../slsSupportLib/include/
+        ${SLS_INTERNAL_RAPIDJSON_DIR}
     )
 
     target_link_libraries(${exe} 

slsDetectorCalibration/singlePhotonDetector.h

@@ -429,23 +429,28 @@ class singlePhotonDetector : public analogDetector<uint16_t> {
                     for (ic = -(clusterSize / 2); ic < (clusterSize / 2) + 1;
                          ic++) {
 
-                        if ((iy + ir) >= iy && (iy + ir) < ny &&
-                            (ix + ic) >= ix && (ix + ic) < nx) {
+                        if ((iy + ir) >= 0 && (iy + ir) < ny &&
+                            (ix + ic) >= 0 && (ix + ic) < nx) {
+
+
+                        if ((iy + ir) >= iy && (ix + ic) >= ix ) {
                             val[(iy + ir) * nx + ix + ic] =
                                 subtractPedestal(data, ix + ic, iy + ir, cm);
-                            v = &(val[(iy + ir) * nx + ix + ic]);
-                            tot += *v;
-                            if (ir <= 0 && ic <= 0)
-                                bl += *v;
-                            if (ir <= 0 && ic >= 0)
-                                br += *v;
-                            if (ir >= 0 && ic <= 0)
-                                tl += *v;
-                            if (ir >= 0 && ic >= 0)
-                                tr += *v;
-                            if (*v > max) {
-                                max = *v;
-                            }
+
+			}
+			v = &(val[(iy + ir) * nx + ix + ic]);
+			tot += *v;
+			if (ir <= 0 && ic <= 0)
+			  bl += *v;
+			if (ir <= 0 && ic >= 0)
+			  br += *v;
+			if (ir >= 0 && ic <= 0)
+			  tl += *v;
+			if (ir >= 0 && ic >= 0)
+			  tr += *v;
+			if (*v > max) //{
+			  max = *v;
+			//}
                         }
                     }
                 }
@@ -513,12 +518,19 @@ class singlePhotonDetector : public analogDetector<uint16_t> {
                         for (ic = -(clusterSize / 2);
                              ic < (clusterSize / 2) + 1; ic++) {
                             if ((iy + ir) >= 0 && (iy + ir) < ny &&
-                                (ix + ic) >= 0 && (ix + ic) < nx)
-                                (clusters + nph)
+                                (ix + ic) >= 0 && (ix + ic) < nx) {
+			      (clusters + nph)
                                     ->set_data(val[(iy + ir) * nx + ix + ic],
                                                ic, ir);
+			      if (val[(iy + ir) * nx + ix + ic]>max) 
+				good=0;
+			    }
                         }
                     }
+		    if (good==0) {
+		      (clusters + nph)->print();
+		      cout << max << " " <<  val[iy * nx + ix] << endl;
+		    }
                     good = 1;
                     if (eMin > 0 && tot < eMin)
                         good = 0;

slsDetectorCalibration/single_photon_hit.h

@@ -216,14 +216,18 @@ class single_photon_hit {
 
         // int ix, iy;
 
+      printf("***************\n");
+      printf("** %d %d **\n",x,y);
         for (int iy = 0; iy < dy; iy++) {
             for (int ix = 0; ix < dx; ix++) {
                 printf("%d \t", data[ix + iy * dx]);
             }
             printf("\n");
         }
+      printf("***************\n");
     }
 
+
     /**
         assign the value to the element of the cluster matrix, with relative
        coordinates where the center of the cluster is (0,0) \param v value to be

slsDetectorGui/forms/form_detectormain.ui

@@ -235,6 +235,7 @@
     </property>
     <addaction name="actionLoadConfiguration"/>
     <addaction name="actionLoadTrimbits"/>
+    <addaction name="actionSaveTrimbits"/>
     <addaction name="actionLoadParameters"/>
    </widget>
    <widget class="QMenu" name="menuModes">
@@ -419,6 +420,11 @@ p, li { white-space: pre-wrap; }
     <string>&amp;About</string>
    </property>
   </action>
+  <action name="actionSaveTrimbits">
+   <property name="text">
+    <string>Save Trimbits</string>
+   </property>
+  </action>
  </widget>
  <resources>
   <include location="../include/icons.qrc"/>

slsDetectorGui/forms/form_plot.ui

@@ -20,7 +20,105 @@
    <string>Form</string>
   </property>
   <layout class="QGridLayout" name="gridLayout">
-   <item row="2" column="0" colspan="4">
+   <item row="1" column="5">
+    <widget class="QLabel" name="lblRxRoiEnabled">
+     <property name="sizePolicy">
+      <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
+       <horstretch>0</horstretch>
+       <verstretch>0</verstretch>
+      </sizepolicy>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>120</width>
+       <height>0</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>16777215</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="palette">
+      <palette>
+       <active>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>0</red>
+           <green>0</green>
+           <blue>255</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </active>
+       <inactive>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>0</red>
+           <green>0</green>
+           <blue>255</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </inactive>
+       <disabled>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>139</red>
+           <green>142</green>
+           <blue>142</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </disabled>
+      </palette>
+     </property>
+     <property name="text">
+      <string>Rx Roi Enabled</string>
+     </property>
+     <property name="alignment">
+      <set>Qt::AlignCenter</set>
+     </property>
+    </widget>
+   </item>
+   <item row="0" column="0" colspan="7">
+    <widget class="QGroupBox" name="boxPlot">
+     <property name="sizePolicy">
+      <sizepolicy hsizetype="Expanding" vsizetype="Expanding">
+       <horstretch>0</horstretch>
+       <verstretch>0</verstretch>
+      </sizepolicy>
+     </property>
+     <property name="font">
+      <font>
+       <family>Sans Serif</family>
+       <pointsize>10</pointsize>
+      </font>
+     </property>
+     <property name="title">
+      <string>Sample Plot</string>
+     </property>
+     <property name="alignment">
+      <set>Qt::AlignCenter</set>
+     </property>
+     <property name="flat">
+      <bool>true</bool>
+     </property>
+     <layout class="QGridLayout" name="plotLayout">
+      <property name="margin">
+       <number>9</number>
+      </property>
+      <property name="spacing">
+       <number>0</number>
+      </property>
+     </layout>
+    </widget>
+   </item>
+   <item row="2" column="0" colspan="7">
     <widget class="QWidget" name="widgetStatistics" native="true">
      <property name="sizePolicy">
       <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
@@ -212,104 +310,6 @@
      </property>
     </spacer>
    </item>
-   <item row="0" column="0" colspan="4">
-    <widget class="QGroupBox" name="boxPlot">
-     <property name="sizePolicy">
-      <sizepolicy hsizetype="Expanding" vsizetype="Expanding">
-       <horstretch>0</horstretch>
-       <verstretch>0</verstretch>
-      </sizepolicy>
-     </property>
-     <property name="font">
-      <font>
-       <family>Sans Serif</family>
-       <pointsize>10</pointsize>
-      </font>
-     </property>
-     <property name="title">
-      <string>Sample Plot</string>
-     </property>
-     <property name="alignment">
-      <set>Qt::AlignCenter</set>
-     </property>
-     <property name="flat">
-      <bool>true</bool>
-     </property>
-     <layout class="QGridLayout" name="plotLayout">
-      <property name="margin">
-       <number>9</number>
-      </property>
-      <property name="spacing">
-       <number>0</number>
-      </property>
-     </layout>
-    </widget>
-   </item>
-   <item row="1" column="2">
-    <widget class="QLabel" name="lblInCompleteImage">
-     <property name="sizePolicy">
-      <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
-       <horstretch>0</horstretch>
-       <verstretch>0</verstretch>
-      </sizepolicy>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>40</width>
-       <height>0</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>16777215</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="palette">
-      <palette>
-       <active>
-        <colorrole role="WindowText">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>255</red>
-           <green>0</green>
-           <blue>0</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </active>
-       <inactive>
-        <colorrole role="WindowText">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>255</red>
-           <green>0</green>
-           <blue>0</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </inactive>
-       <disabled>
-        <colorrole role="WindowText">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>139</red>
-           <green>142</green>
-           <blue>142</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </disabled>
-      </palette>
-     </property>
-     <property name="text">
-      <string>Missing Packets</string>
-     </property>
-     <property name="alignment">
-      <set>Qt::AlignCenter</set>
-     </property>
-    </widget>
-   </item>
    <item row="1" column="1">
     <widget class="QLabel" name="lblCompleteImage">
      <property name="sizePolicy">
@@ -320,7 +320,7 @@
      </property>
      <property name="minimumSize">
       <size>
-       <width>40</width>
+       <width>120</width>
        <height>0</height>
       </size>
      </property>
@@ -375,6 +375,71 @@
      </property>
     </widget>
    </item>
+   <item row="1" column="2">
+    <widget class="QLabel" name="lblInCompleteImage">
+     <property name="sizePolicy">
+      <sizepolicy hsizetype="Preferred" vsizetype="Fixed">
+       <horstretch>0</horstretch>
+       <verstretch>0</verstretch>
+      </sizepolicy>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>110</width>
+       <height>0</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>16777215</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="palette">
+      <palette>
+       <active>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>255</red>
+           <green>0</green>
+           <blue>0</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </active>
+       <inactive>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>255</red>
+           <green>0</green>
+           <blue>0</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </inactive>
+       <disabled>
+        <colorrole role="WindowText">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>139</red>
+           <green>142</green>
+           <blue>142</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </disabled>
+      </palette>
+     </property>
+     <property name="text">
+      <string>Missing Packets</string>
+     </property>
+     <property name="alignment">
+      <set>Qt::AlignCenter</set>
+     </property>
+    </widget>
+   </item>
   </layout>
  </widget>
  <resources/>

slsDetectorGui/forms/form_tab_settings.ui

@@ -7,7 +7,7 @@
     <x>0</x>
     <y>0</y>
     <width>775</width>
-    <height>380</height>
+    <height>385</height>
    </rect>
   </property>
   <property name="sizePolicy">
@@ -32,22 +32,25 @@
    <string>Form</string>
   </property>
   <layout class="QGridLayout" name="gridLayout_2">
-   <item row="4" column="3">
-    <widget class="QCheckBox" name="chkCounter2">
+   <item row="2" column="0">
+    <widget class="QLabel" name="lblThreshold">
      <property name="enabled">
       <bool>false</bool>
      </property>
+     <property name="minimumSize">
+      <size>
+       <width>110</width>
+       <height>0</height>
+      </size>
+     </property>
      <property name="maximumSize">
       <size>
-       <width>50</width>
+       <width>110</width>
        <height>16777215</height>
       </size>
      </property>
      <property name="text">
-      <string>2</string>
-     </property>
-     <property name="checked">
-      <bool>true</bool>
+      <string>Threshold:</string>
      </property>
     </widget>
    </item>
@@ -70,232 +73,22 @@
      </property>
     </widget>
    </item>
-   <item row="3" column="2" colspan="3">
-    <widget class="QComboBox" name="comboDynamicRange">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>140</width>
-       <height>25</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>140</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <item>
-      <property name="text">
-       <string>1.67772e+07</string>
-      </property>
-     </item>
-     <item>
-      <property name="text">
-       <string>65535</string>
-      </property>
-     </item>
-     <item>
-      <property name="text">
-       <string>255</string>
-      </property>
-     </item>
-     <item>
-      <property name="text">
-       <string>7</string>
-      </property>
-     </item>
-    </widget>
-   </item>
-   <item row="2" column="2" colspan="3">
-    <widget class="QSpinBox" name="spinThreshold">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>140</width>
-       <height>25</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>140</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="keyboardTracking">
-      <bool>false</bool>
-     </property>
-     <property name="suffix">
-      <string> eV</string>
-     </property>
-     <property name="minimum">
-      <number>-100000</number>
-     </property>
-     <property name="maximum">
-      <number>100000</number>
-     </property>
-     <property name="singleStep">
-      <number>100</number>
-     </property>
-     <property name="value">
-      <number>-1</number>
-     </property>
-    </widget>
-   </item>
-   <item row="2" column="6">
-    <widget class="QSpinBox" name="spinThreshold3">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>140</width>
-       <height>25</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>140</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="keyboardTracking">
-      <bool>false</bool>
-     </property>
-     <property name="suffix">
-      <string> eV</string>
-     </property>
-     <property name="minimum">
-      <number>-100000</number>
-     </property>
-     <property name="maximum">
-      <number>100000</number>
-     </property>
-     <property name="singleStep">
-      <number>100</number>
-     </property>
-     <property name="value">
-      <number>-1</number>
-     </property>
-    </widget>
-   </item>
-   <item row="3" column="0">
-    <widget class="QLabel" name="lblDynamicRange">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>110</width>
-       <height>0</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>110</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="text">
-      <string>Dynamic Range:</string>
-     </property>
-    </widget>
-   </item>
-   <item row="5" column="2">
-    <spacer name="verticalSpacer">
+   <item row="2" column="14">
+    <spacer name="horizontalSpacer_2">
      <property name="orientation">
-      <enum>Qt::Vertical</enum>
+      <enum>Qt::Horizontal</enum>
      </property>
      <property name="sizeType">
-      <enum>QSizePolicy::Fixed</enum>
+      <enum>QSizePolicy::Expanding</enum>
      </property>
      <property name="sizeHint" stdset="0">
       <size>
        <width>20</width>
-       <height>190</height>
+       <height>20</height>
       </size>
      </property>
     </spacer>
    </item>
-   <item row="2" column="8">
-    <widget class="QPushButton" name="btnSetThreshold">
-     <property name="enabled">
-      <bool>true</bool>
-     </property>
-     <property name="sizePolicy">
-      <sizepolicy hsizetype="Fixed" vsizetype="Preferred">
-       <horstretch>0</horstretch>
-       <verstretch>0</verstretch>
-      </sizepolicy>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>100</width>
-       <height>30</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>16777215</width>
-       <height>30</height>
-      </size>
-     </property>
-     <property name="palette">
-      <palette>
-       <active>
-        <colorrole role="Shadow">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>20</red>
-           <green>20</green>
-           <blue>20</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </active>
-       <inactive>
-        <colorrole role="Shadow">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>20</red>
-           <green>20</green>
-           <blue>20</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </inactive>
-       <disabled>
-        <colorrole role="Shadow">
-         <brush brushstyle="SolidPattern">
-          <color alpha="255">
-           <red>20</red>
-           <green>20</green>
-           <blue>20</blue>
-          </color>
-         </brush>
-        </colorrole>
-       </disabled>
-      </palette>
-     </property>
-     <property name="focusPolicy">
-      <enum>Qt::TabFocus</enum>
-     </property>
-     <property name="text">
-      <string>Set</string>
-     </property>
-     <property name="icon">
-      <iconset resource="../include/icons.qrc">
-       <normaloff>:/icons/images/rightArrow.png</normaloff>:/icons/images/rightArrow.png</iconset>
-     </property>
-     <property name="flat">
-      <bool>false</bool>
-     </property>
-    </widget>
-   </item>
    <item row="0" column="0">
     <widget class="QLabel" name="lblSettings">
      <property name="enabled">
@@ -318,119 +111,6 @@
      </property>
     </widget>
    </item>
-   <item row="0" column="1">
-    <spacer name="horizontalSpacer">
-     <property name="orientation">
-      <enum>Qt::Horizontal</enum>
-     </property>
-     <property name="sizeType">
-      <enum>QSizePolicy::Fixed</enum>
-     </property>
-     <property name="sizeHint" stdset="0">
-      <size>
-       <width>20</width>
-       <height>20</height>
-      </size>
-     </property>
-    </spacer>
-   </item>
-   <item row="2" column="0">
-    <widget class="QLabel" name="lblThreshold">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>110</width>
-       <height>0</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>110</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="text">
-      <string>Threshold:</string>
-     </property>
-    </widget>
-   </item>
-   <item row="2" column="5">
-    <widget class="QSpinBox" name="spinThreshold2">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>140</width>
-       <height>25</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>140</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="keyboardTracking">
-      <bool>false</bool>
-     </property>
-     <property name="suffix">
-      <string> eV</string>
-     </property>
-     <property name="minimum">
-      <number>-100000</number>
-     </property>
-     <property name="maximum">
-      <number>100000</number>
-     </property>
-     <property name="singleStep">
-      <number>100</number>
-     </property>
-     <property name="value">
-      <number>-1</number>
-     </property>
-    </widget>
-   </item>
-   <item row="2" column="9">
-    <spacer name="horizontalSpacer_2">
-     <property name="orientation">
-      <enum>Qt::Horizontal</enum>
-     </property>
-     <property name="sizeType">
-      <enum>QSizePolicy::Expanding</enum>
-     </property>
-     <property name="sizeHint" stdset="0">
-      <size>
-       <width>20</width>
-       <height>20</height>
-      </size>
-     </property>
-    </spacer>
-   </item>
-   <item row="4" column="0">
-    <widget class="QLabel" name="lblCounter">
-     <property name="enabled">
-      <bool>false</bool>
-     </property>
-     <property name="minimumSize">
-      <size>
-       <width>110</width>
-       <height>0</height>
-      </size>
-     </property>
-     <property name="maximumSize">
-      <size>
-       <width>110</width>
-       <height>16777215</height>
-      </size>
-     </property>
-     <property name="text">
-      <string>Counters:</string>
-     </property>
-    </widget>
-   </item>
    <item row="4" column="2">
     <widget class="QCheckBox" name="chkCounter1">
      <property name="enabled">
@@ -450,7 +130,7 @@
      </property>
     </widget>
    </item>
-   <item row="0" column="2" colspan="3">
+   <item row="0" column="2" colspan="9">
     <widget class="QComboBox" name="comboSettings">
      <property name="enabled">
       <bool>true</bool>
@@ -589,6 +269,268 @@
      </item>
     </widget>
    </item>
+   <item row="2" column="11">
+    <widget class="QSpinBox" name="spinThreshold2">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>140</width>
+       <height>25</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>140</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="keyboardTracking">
+      <bool>false</bool>
+     </property>
+     <property name="suffix">
+      <string> eV</string>
+     </property>
+     <property name="minimum">
+      <number>-100000</number>
+     </property>
+     <property name="maximum">
+      <number>100000</number>
+     </property>
+     <property name="singleStep">
+      <number>100</number>
+     </property>
+     <property name="value">
+      <number>-1</number>
+     </property>
+    </widget>
+   </item>
+   <item row="2" column="13">
+    <widget class="QPushButton" name="btnSetThreshold">
+     <property name="enabled">
+      <bool>true</bool>
+     </property>
+     <property name="sizePolicy">
+      <sizepolicy hsizetype="Fixed" vsizetype="Preferred">
+       <horstretch>0</horstretch>
+       <verstretch>0</verstretch>
+      </sizepolicy>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>100</width>
+       <height>30</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>16777215</width>
+       <height>30</height>
+      </size>
+     </property>
+     <property name="palette">
+      <palette>
+       <active>
+        <colorrole role="Shadow">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>20</red>
+           <green>20</green>
+           <blue>20</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </active>
+       <inactive>
+        <colorrole role="Shadow">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>20</red>
+           <green>20</green>
+           <blue>20</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </inactive>
+       <disabled>
+        <colorrole role="Shadow">
+         <brush brushstyle="SolidPattern">
+          <color alpha="255">
+           <red>20</red>
+           <green>20</green>
+           <blue>20</blue>
+          </color>
+         </brush>
+        </colorrole>
+       </disabled>
+      </palette>
+     </property>
+     <property name="focusPolicy">
+      <enum>Qt::TabFocus</enum>
+     </property>
+     <property name="text">
+      <string>Set</string>
+     </property>
+     <property name="icon">
+      <iconset resource="../include/icons.qrc">
+       <normaloff>:/icons/images/rightArrow.png</normaloff>:/icons/images/rightArrow.png</iconset>
+     </property>
+     <property name="flat">
+      <bool>false</bool>
+     </property>
+    </widget>
+   </item>
+   <item row="0" column="1">
+    <spacer name="horizontalSpacer">
+     <property name="orientation">
+      <enum>Qt::Horizontal</enum>
+     </property>
+     <property name="sizeType">
+      <enum>QSizePolicy::Fixed</enum>
+     </property>
+     <property name="sizeHint" stdset="0">
+      <size>
+       <width>20</width>
+       <height>20</height>
+      </size>
+     </property>
+    </spacer>
+   </item>
+   <item row="2" column="12">
+    <widget class="QSpinBox" name="spinThreshold3">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>140</width>
+       <height>25</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>140</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="keyboardTracking">
+      <bool>false</bool>
+     </property>
+     <property name="suffix">
+      <string> eV</string>
+     </property>
+     <property name="minimum">
+      <number>-100000</number>
+     </property>
+     <property name="maximum">
+      <number>100000</number>
+     </property>
+     <property name="singleStep">
+      <number>100</number>
+     </property>
+     <property name="value">
+      <number>-1</number>
+     </property>
+    </widget>
+   </item>
+   <item row="2" column="2" colspan="9">
+    <widget class="QSpinBox" name="spinThreshold">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>140</width>
+       <height>25</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>140</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="keyboardTracking">
+      <bool>false</bool>
+     </property>
+     <property name="suffix">
+      <string> eV</string>
+     </property>
+     <property name="minimum">
+      <number>-100000</number>
+     </property>
+     <property name="maximum">
+      <number>100000</number>
+     </property>
+     <property name="singleStep">
+      <number>100</number>
+     </property>
+     <property name="value">
+      <number>-1</number>
+     </property>
+    </widget>
+   </item>
+   <item row="4" column="0">
+    <widget class="QLabel" name="lblCounter">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>110</width>
+       <height>0</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>110</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="text">
+      <string>Counters:</string>
+     </property>
+    </widget>
+   </item>
+   <item row="3" column="0">
+    <widget class="QLabel" name="lblDynamicRange">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>110</width>
+       <height>0</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>110</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="text">
+      <string>Dynamic Range:</string>
+     </property>
+    </widget>
+   </item>
+   <item row="5" column="2">
+    <spacer name="verticalSpacer">
+     <property name="orientation">
+      <enum>Qt::Vertical</enum>
+     </property>
+     <property name="sizeType">
+      <enum>QSizePolicy::Fixed</enum>
+     </property>
+     <property name="sizeHint" stdset="0">
+      <size>
+       <width>20</width>
+       <height>190</height>
+      </size>
+     </property>
+    </spacer>
+   </item>
    <item row="1" column="0">
     <widget class="QLabel" name="lblGainMode">
      <property name="enabled">
@@ -611,7 +553,70 @@
      </property>
     </widget>
    </item>
-   <item row="1" column="2">
+   <item row="3" column="2" colspan="9">
+    <widget class="QComboBox" name="comboDynamicRange">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="minimumSize">
+      <size>
+       <width>140</width>
+       <height>25</height>
+      </size>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>140</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <item>
+      <property name="text">
+       <string>1.67772e+07</string>
+      </property>
+     </item>
+     <item>
+      <property name="text">
+       <string>65535</string>
+      </property>
+     </item>
+     <item>
+      <property name="text">
+       <string>4095</string>
+      </property>
+     </item>
+     <item>
+      <property name="text">
+       <string>255</string>
+      </property>
+     </item>
+     <item>
+      <property name="text">
+       <string>7</string>
+      </property>
+     </item>
+    </widget>
+   </item>
+   <item row="4" column="3">
+    <widget class="QCheckBox" name="chkCounter2">
+     <property name="enabled">
+      <bool>false</bool>
+     </property>
+     <property name="maximumSize">
+      <size>
+       <width>50</width>
+       <height>16777215</height>
+      </size>
+     </property>
+     <property name="text">
+      <string>2</string>
+     </property>
+     <property name="checked">
+      <bool>true</bool>
+     </property>
+    </widget>
+   </item>
+   <item row="1" column="2" colspan="9">
     <widget class="QComboBox" name="comboGainMode">
      <property name="enabled">
       <bool>false</bool>

slsDetectorGui/include/qCloneWidget.h

@@ -5,6 +5,8 @@
 #include <QMainWindow>
 #include <QString>
 
+namespace sls {
+
 class SlsQtH1D;
 class SlsQt1DPlot;
 class SlsQt2DPlot;
@@ -43,3 +45,5 @@ class qCloneWidget : public QMainWindow, private Ui::ClonePlotObject {
 
     static int NumClones;
 };
+
+} // namespace sls

slsDetectorGui/include/qDacWidget.h

@@ -6,11 +6,13 @@
 #include "ui_form_dac.h"
 #include <string>
 
+namespace sls {
+
 class qDacWidget : public QWidget, private Ui::WidgetDacObject {
     Q_OBJECT
 
   public:
-    qDacWidget(QWidget *parent, sls::Detector *detector, bool d, std::string n,
+    qDacWidget(QWidget *parent, Detector *detector, bool d, std::string n,
                slsDetectorDefs::dacIndex i);
     ~qDacWidget();
     void SetDetectorIndex(int id);
@@ -25,8 +27,10 @@ class qDacWidget : public QWidget, private Ui::WidgetDacObject {
     void GetAdc();
     void Refresh();
 
-    sls::Detector *det;
+    Detector *det;
     bool isDac{true};
     slsDetectorDefs::dacIndex index;
     int detectorIndex{-1};
 };
+
+} // namespace sls

slsDetectorGui/include/qDefs.h

@@ -14,6 +14,8 @@
 #include <ostream>
 #include <string>
 
+namespace sls {
+
 using std::chrono::duration;
 using std::chrono::duration_cast;
 using std::chrono::hours;
@@ -47,9 +49,9 @@ class qDefs : public QWidget {
     static void DisplayExceptions(std::string emsg, std::string src) {
         try {
             throw;
-        } catch (const sls::SocketError &e) {
+        } catch (const SocketError &e) {
             throw;
-        } catch (const sls::SharedMemoryError &e) {
+        } catch (const SharedMemoryError &e) {
             throw;
         } catch (const std::exception &e) {
             ExceptionMessage(emsg, e.what(), src);
@@ -63,9 +65,9 @@ class qDefs : public QWidget {
                                  typename NonDeduced<CT>::type... Args) {
         try {
             throw;
-        } catch (const sls::SocketError &e) {
+        } catch (const SocketError &e) {
             throw;
-        } catch (const sls::SharedMemoryError &e) {
+        } catch (const SharedMemoryError &e) {
             throw;
         } catch (const std::exception &e) {
             ExceptionMessage(emsg, e.what(), src);
@@ -329,3 +331,5 @@ class qDefs : public QWidget {
                        source);
     }
 };
+
+} // namespace sls

slsDetectorGui/include/qDetectorMain.h

@@ -6,6 +6,11 @@
 #include "ui_form_detectormain.h"
 #include <QTabWidget>
 
+class QScrollArea;
+class QResizeEvent;
+
+namespace sls {
+
 class qDrawPlot;
 class qTabMeasurement;
 class qTabDataOutput;
@@ -15,8 +20,6 @@ class qTabSettings;
 class qTabDebugging;
 class qTabDeveloper;
 class qTabMessages;
-class QScrollArea;
-class QResizeEvent;
 
 /** To Over-ride the QTabWidget class to get the tabBar protected
  * methodTabWidget */
@@ -70,7 +73,7 @@ class qDetectorMain : public QMainWindow, private Ui::DetectorMainObject {
         NumberOfTabs
     };
     slsDetectorDefs::detectorType detType;
-    std::unique_ptr<sls::Detector> det;
+    std::unique_ptr<Detector> det;
     qDrawPlot *plot;
     MyTabWidget *tabs;
     QScrollArea *scroll[NumberOfTabs];
@@ -88,3 +91,5 @@ class qDetectorMain : public QMainWindow, private Ui::DetectorMainObject {
     QString zoomToolTip;
     QColor defaultTabColor;
 };
+
+} // namespace sls

slsDetectorGui/include/qDrawPlot.h

@@ -6,18 +6,21 @@
 #include "ui_form_plot.h"
 #include <mutex>
 
+class QResizeEvent;
+
+namespace sls {
+
 class SlsQt1DPlot;
 class SlsQtH1D;
 class SlsQt2DPlot;
 class qCloneWidget;
 class detectorData;
-class QResizeEvent;
 
 class qDrawPlot : public QWidget, private Ui::PlotObject {
     Q_OBJECT
 
   public:
-    qDrawPlot(QWidget *parent, sls::Detector *detector);
+    qDrawPlot(QWidget *parent, Detector *detector);
     ~qDrawPlot();
     bool GetIsRunning();
     void SetRunning(bool enable);
@@ -55,6 +58,7 @@ class qDrawPlot : public QWidget, private Ui::PlotObject {
     void EnableGainPlot(bool enable);
     void ClonePlot();
     void SavePlot();
+    void SetGapPixels(bool enable);
 
   protected:
     void resizeEvent(QResizeEvent *event);
@@ -91,9 +95,11 @@ class qDrawPlot : public QWidget, private Ui::PlotObject {
     void Update2dPlot();
     void Update1dXYRange();
     void Update2dXYRange();
+    void rearrangeGotthard25data(double *data);
 
     static const int NUM_PEDESTAL_FRAMES = 20;
-    sls::Detector *det;
+    static const int NUM_GOTTHARD25_CHANS = 1280;
+    Detector *det;
     slsDetectorDefs::detectorType detType;
 
     SlsQt1DPlot *plot1d{nullptr};
@@ -158,10 +164,16 @@ class qDrawPlot : public QWidget, private Ui::PlotObject {
     int64_t currentFrame{0};
     mutable std::mutex mPlots;
     int64_t currentAcqIndex{0};
+    slsDetectorDefs::ROI rxRoi{};
+    bool isRxRoiDisplayed{false};
+    bool isGapPixels{false};
 
     unsigned int nPixelsX{0};
     unsigned int nPixelsY{0};
     uint32_t pixelMask{0};
     uint32_t gainMask{0};
     int gainOffset{0};
+    bool gotthard25;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabAdvanced.h

@@ -4,13 +4,15 @@
 #include "sls/Detector.h"
 #include "ui_form_tab_advanced.h"
 
+namespace sls {
+
 class qDrawPlot;
 
 class qTabAdvanced : public QWidget, private Ui::TabAdvancedObject {
     Q_OBJECT
 
   public:
-    qTabAdvanced(QWidget *parent, sls::Detector *detector, qDrawPlot *p);
+    qTabAdvanced(QWidget *parent, Detector *detector, qDrawPlot *p);
     ~qTabAdvanced();
 
   public slots:
@@ -74,6 +76,8 @@ class qTabAdvanced : public QWidget, private Ui::TabAdvancedObject {
     void GetExposureTime();
     void GetGateDelay();
 
-    sls::Detector *det;
+    Detector *det;
     qDrawPlot *plot;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabDataOutput.h

@@ -4,11 +4,13 @@
 #include "sls/Detector.h"
 #include "ui_form_tab_dataoutput.h"
 
+namespace sls {
+
 class qTabDataOutput : public QWidget, private Ui::TabDataOutputObject {
     Q_OBJECT
 
   public:
-    qTabDataOutput(QWidget *parent, sls::Detector *detector);
+    qTabDataOutput(QWidget *parent, Detector *detector);
     ~qTabDataOutput();
     void Refresh();
 
@@ -39,7 +41,9 @@ class qTabDataOutput : public QWidget, private Ui::TabDataOutputObject {
     void GetSpeed();
     void GetParallel();
 
-    sls::Detector *det;
+    Detector *det;
     // Button group for radiobuttons for rate
     QButtonGroup *btnGroupRate;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabDebugging.h

@@ -7,11 +7,13 @@
 class QTreeWidget;
 class QTreeWidgetItem;
 
+namespace sls {
+
 class qTabDebugging : public QWidget, private Ui::TabDebuggingObject {
     Q_OBJECT
 
   public:
-    qTabDebugging(QWidget *parent, sls::Detector *detector);
+    qTabDebugging(QWidget *parent, Detector *detector);
     ~qTabDebugging();
     void Refresh();
 
@@ -26,10 +28,12 @@ class qTabDebugging : public QWidget, private Ui::TabDebuggingObject {
     void Initialization();
     void PopulateDetectors();
 
-    sls::Detector *det;
+    Detector *det;
     /** Tree Widget displaying the detectors, modules */
     QTreeWidget *treeDet;
     QLabel *lblDetectorHostname;
     QLabel *lblDetectorFirmware;
     QLabel *lblDetectorSoftware;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabDeveloper.h

@@ -6,13 +6,15 @@
 #include "ui_form_tab_developer.h"
 #include <vector>
 
+namespace sls {
+
 class qDacWidget;
 
 class qTabDeveloper : public QWidget, private Ui::TabDeveloperObject {
     Q_OBJECT
 
   public:
-    qTabDeveloper(QWidget *parent, sls::Detector *detector);
+    qTabDeveloper(QWidget *parent, Detector *detector);
     ~qTabDeveloper();
 
   public slots:
@@ -29,7 +31,7 @@ class qTabDeveloper : public QWidget, private Ui::TabDeveloperObject {
     slsDetectorDefs::dacIndex getSLSIndex(slsDetectorDefs::detectorType detType,
                                           int index);
 
-    sls::Detector *det;
+    Detector *det;
     std::vector<qDacWidget *> dacWidgets;
     std::vector<qDacWidget *> adcWidgets;
 
@@ -38,3 +40,5 @@ class qTabDeveloper : public QWidget, private Ui::TabDeveloperObject {
     static const int HV_MIN = 60;
     static const int HV_MAX = 200;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabMeasurement.h

@@ -4,14 +4,17 @@
 #include "sls/Detector.h"
 #include "ui_form_tab_measurement.h"
 
-class qDrawPlot;
 class QStandardItemModel;
 
+namespace sls {
+
+class qDrawPlot;
+
 class qTabMeasurement : public QWidget, private Ui::TabMeasurementObject {
     Q_OBJECT
 
   public:
-    qTabMeasurement(QWidget *parent, sls::Detector *detector, qDrawPlot *p);
+    qTabMeasurement(QWidget *parent, Detector *detector, qDrawPlot *p);
     ~qTabMeasurement();
 
     void Refresh();
@@ -81,7 +84,7 @@ class qTabMeasurement : public QWidget, private Ui::TabMeasurementObject {
     void FileNameChangedSignal(QString);
 
   private:
-    sls::Detector *det;
+    Detector *det;
     qDrawPlot *plot;
     // enum for the timing mode
     enum { AUTO, TRIGGER, GATED, BURST_TRIGGER, TRIGGER_GATED, NUMTIMINGMODES };
@@ -98,3 +101,5 @@ class qTabMeasurement : public QWidget, private Ui::TabMeasurementObject {
     int numMeasurements{1};
     int currentMeasurement{0};
 };
+
+} // namespace sls

slsDetectorGui/include/qTabMessages.h

@@ -6,6 +6,8 @@
 class QProcess;
 class QKeyEvent;
 
+namespace sls {
+
 class qTabMessages : public QWidget, private Ui::TabMessagesObject {
     Q_OBJECT
 
@@ -34,3 +36,5 @@ class qTabMessages : public QWidget, private Ui::TabMessagesObject {
     QProcess *process;
     QStringList lastCommand;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabPlot.h

@@ -4,13 +4,15 @@
 #include "sls/Detector.h"
 #include "ui_form_tab_plot.h"
 
+namespace sls {
+
 class qDrawPlot;
 
 class qTabPlot : public QWidget, private Ui::TabPlotObject {
     Q_OBJECT
 
   public:
-    qTabPlot(QWidget *parent, sls::Detector *detector, qDrawPlot *p);
+    qTabPlot(QWidget *parent, Detector *detector, qDrawPlot *p);
     ~qTabPlot();
     void SetScanArgument();
     void Refresh();
@@ -53,7 +55,7 @@ class qTabPlot : public QWidget, private Ui::TabPlotObject {
     void SetXYRange();
     void MaintainAspectRatio(int dimension);
 
-    sls::Detector *det;
+    Detector *det;
     qDrawPlot *plot;
     bool is1d;
 
@@ -65,3 +67,5 @@ class qTabPlot : public QWidget, private Ui::TabPlotObject {
     static QString defaultImageYAxisTitle;
     static QString defaultImageZAxisTitle;
 };
+
+} // namespace sls

slsDetectorGui/include/qTabSettings.h

@@ -5,11 +5,13 @@
 #include "ui_form_tab_settings.h"
 #include <QCheckBox>
 
+namespace sls {
+
 class qTabSettings : public QWidget, private Ui::TabSettingsObject {
     Q_OBJECT
 
   public:
-    qTabSettings(QWidget *parent, sls::Detector *detector);
+    qTabSettings(QWidget *parent, Detector *detector);
     ~qTabSettings();
     void Refresh();
   public slots:
@@ -37,7 +39,7 @@ class qTabSettings : public QWidget, private Ui::TabSettingsObject {
     void GetThresholdEnergies();
     void GetCounterMask();
 
-    sls::Detector *det;
+    Detector *det;
     std::vector<QCheckBox *> counters;
 
     enum {
@@ -69,5 +71,13 @@ class qTabSettings : public QWidget, private Ui::TabSettingsObject {
     enum { DYNAMIC, FORCE_SWITCH_G1, FORCE_SWITCH_G2, FIX_G1, FIX_G2, FIX_G0 };
     bool isVisibleFixG0{false};
 
-    enum { DYNAMICRANGE_32, DYNAMICRANGE_16, DYNAMICRANGE_8, DYNAMICRANGE_4 };
+    enum {
+        DYNAMICRANGE_32,
+        DYNAMICRANGE_16,
+        DYNAMICRANGE_12,
+        DYNAMICRANGE_8,
+        DYNAMICRANGE_4
+    };
 };
+
+} // namespace sls

slsDetectorGui/slsDetectorPlotting/include/SlsQt1DPlot.h

@@ -9,11 +9,15 @@
 #include <qwt_plot_curve.h>
 #include <qwt_plot_marker.h>
 #include <qwt_scale_div.h>
+#include <qwt_plot_shapeitem.h>
 
 class QPen;
-class SlsQt1DPlot;
 class QwtSymbol;
 
+namespace sls {
+
+class SlsQt1DPlot;
+
 class SlsQtH1D : public QwtPlotCurve {
 
   public:
@@ -136,6 +140,9 @@ class SlsQt1DPlot : public QwtPlot {
     void SetLogX(bool yes = 1);
     void SetLogY(bool yes = 1);
 
+    void EnableRoiBox(std::array<int, 4> roi);  
+    void DisableRoiBox();
+
   private:
     SlsQtH1DList *hist_list{nullptr};
     SlsQt1DZoomer *zoomer{nullptr};
@@ -159,9 +166,15 @@ class SlsQt1DPlot : public QwtPlot {
     friend void SlsQtH1D::Attach(SlsQt1DPlot *p);
     friend void SlsQtH1D::Detach(SlsQt1DPlot *p);
 
+    QwtPlotShapeItem *roiBox{nullptr};
+
   public slots:
     void UnZoom();
     void Update();
 };
 
+} // namespace sls
+
 #endif
+
+

slsDetectorGui/slsDetectorPlotting/include/SlsQt1DZoomer.h

@@ -8,6 +8,8 @@
 #include <qwt_plot_panner.h>
 #include <qwt_plot_zoomer.h>
 
+namespace sls {
+
 class SlsQtH1D;
 
 class SlsQt1DZoomer : public QwtPlotZoomer {
@@ -51,4 +53,6 @@ class SlsQt1DZoomer : public QwtPlotZoomer {
     }
 };
 
+} // namespace sls
+
 #endif

slsDetectorGui/slsDetectorPlotting/include/SlsQt2DHist.h

@@ -9,6 +9,8 @@
 #include <qwt_scale_draw.h>
 #include <qwt_scale_widget.h>
 
+namespace sls {
+
 class SlsQt2DHist : public QwtRasterData {
 
   private:
@@ -125,4 +127,6 @@ class SlsQt2DHist : public QwtRasterData {
     }
 };
 
+} // namespace sls
+
 #endif

slsDetectorGui/slsDetectorPlotting/include/SlsQt2DPlot.h

@@ -6,11 +6,14 @@
 #include <qlist.h>
 #include <qwt_plot.h>
 #include <qwt_plot_spectrogram.h>
+#include <qwt_plot_shapeitem.h>
 
 class QwtPlotPanner;
 class QwtScaleWidget;
 class QwtLinearColorMap;
 
+namespace sls {
+
 class SlsQt2DPlot : public QwtPlot {
     Q_OBJECT
 
@@ -67,6 +70,8 @@ class SlsQt2DPlot : public QwtPlot {
     void SetLogz(bool enable, bool isMin, bool isMax, double min, double max);
     void SetZRange(bool isMin, bool isMax, double min, double max);
     void LogZ(bool on = 1);
+    void EnableRoiBox(std::array<int, 4> roi);  
+    void DisableRoiBox();
 
   public slots:
     void showSpectrogram(bool on);
@@ -86,4 +91,7 @@ class SlsQt2DPlot : public QwtPlot {
     QList<double> contourLevelsLog;
     bool disableZoom{false};
     int isLog;
+    QwtPlotShapeItem *roiBox{nullptr};
 };
+
+} // namespace sls

slsDetectorGui/slsDetectorPlotting/include/SlsQt2DZoomer.h

@@ -7,6 +7,8 @@
 #include <qwt_plot_panner.h>
 #include <qwt_plot_zoomer.h>
 
+namespace sls {
+
 class SlsQt2DZoomer : public QwtPlotZoomer {
   private:
     SlsQt2DHist *hist;
@@ -40,4 +42,6 @@ class SlsQt2DZoomer : public QwtPlotZoomer {
     }
 };
 
+} // namespace sls
+
 #endif

slsDetectorGui/slsDetectorPlotting/src/SlsQt1DPlot.cpp

@@ -15,6 +15,8 @@
 #include <qwt_symbol.h>
 #include <stdlib.h>
 
+namespace sls {
+
 #define QwtLog10ScaleEngine QwtLogScaleEngine // hmm
 
 SlsQtH1D::SlsQtH1D(QString title, int n, double min, double max, double *data)
@@ -442,6 +444,28 @@ void SlsQt1DPlot::SetLog(int axisId, bool yes) {
     Update();
 }
 
+
+void SlsQt1DPlot::EnableRoiBox(std::array<int, 4> roi) {
+    if (roiBox == nullptr) {
+        roiBox = new QwtPlotShapeItem();
+        roiBox->attach(this);
+        roiBox->setPen(QColor(Qt::yellow), 2.0, Qt::SolidLine);
+    } 
+
+    // TopLeft - BottomRight (max points are +1 on graph)
+    QRect myRect(QPoint(roi[0], roi[2]), QPoint(roi[1] - 1, roi[3] - 1));
+    roiBox->setRect( QRectF(myRect) );
+    replot();
+}
+
+void SlsQt1DPlot::DisableRoiBox() {
+    if (roiBox != nullptr) {
+        roiBox->detach();
+        replot();
+    }
+}
+
+
 void SlsQt1DPlot::UnZoom() {
     setAxisScale(QwtPlot::xBottom, zoomer->x(), zoomer->x() + zoomer->w());
     setAxisScale(QwtPlot::yLeft, zoomer->y(), zoomer->y() + zoomer->h());
@@ -580,3 +604,5 @@ void SlsQt1DPlot::DisableZoom(bool disable) {
         }
     }
 }
+
+} // namespace sls

slsDetectorGui/slsDetectorPlotting/src/SlsQt1DZoomer.cpp

@@ -7,6 +7,8 @@
 #include <qwt_plot.h>
 #include <qwt_scale_div.h>
 
+namespace sls {
+
 void SlsQt1DZoomer::ResetZoomBase() {
     SetZoomBase(x0, y0, x1 - x0,
                 y1 - y0); // for going between log and nonlog plots
@@ -93,3 +95,5 @@ void SlsQt1DZoomer::ExtendZoomBase(SlsQtH1D *h) {
 
     ResetZoomBase();
 }
+
+} // namespace sls

slsDetectorGui/slsDetectorPlotting/src/SlsQt2DHist.cpp

@@ -9,6 +9,8 @@
 using std::cout;
 using std::endl;
 
+namespace sls {
+
 SlsQt2DHist::SlsQt2DHist(int nbinsx, double xmin, double xmax, int nbinsy,
                          double ymin, double ymax, double *d, double zmin,
                          double zmax)
@@ -143,3 +145,5 @@ double SlsQt2DHist::SetMinimumToFirstGreaterThanZero() {
 
     return z_min;
 }
+
+} // namespace sls

slsDetectorGui/slsDetectorPlotting/src/SlsQt2DPlot.cpp

@@ -18,6 +18,8 @@
 #include <cmath>
 #include <iostream>
 
+namespace sls {
+
 SlsQt2DPlot::SlsQt2DPlot(QWidget *parent) : QwtPlot(parent) {
     isLog = 0;
     axisScaleEngine(QwtPlot::yLeft)->setAttribute(QwtScaleEngine::Floating);
@@ -289,4 +291,27 @@ void SlsQt2DPlot::showSpectrogram(bool on) {
     d_spectrogram->setDisplayMode(QwtPlotSpectrogram::ImageMode, on);
     d_spectrogram->setDefaultContourPen(on ? QPen() : QPen(Qt::NoPen));
     Update();
-}
+}
+
+void SlsQt2DPlot::EnableRoiBox(std::array<int, 4> roi) {
+    if (roiBox == nullptr) {
+        roiBox = new QwtPlotShapeItem();
+    }
+    roiBox->setPen(QColor(Qt::yellow), 2.0, Qt::SolidLine);
+
+    // TopLeft - BottomRight (max points are +1 on graph)
+    QRect myRect(QPoint(roi[0], roi[2]), QPoint(roi[1] - 1, roi[3] - 1));
+    roiBox->setRect( QRectF(myRect) );
+
+    roiBox->attach(this);
+    replot();
+}
+
+void SlsQt2DPlot::DisableRoiBox() {
+    if (roiBox != nullptr) {
+        roiBox->detach();
+        replot();
+    }
+}
+
+} // namespace sls

slsDetectorGui/src/qCloneWidget.cpp

@@ -11,6 +11,8 @@
 #include <QPainter>
 #include <qwt_text.h>
 
+namespace sls {
+
 int qCloneWidget::NumClones{0};
 
 qCloneWidget::qCloneWidget(QWidget *parent, SlsQt1DPlot *p1, SlsQt2DPlot *p2,
@@ -44,7 +46,7 @@ qCloneWidget::~qCloneWidget() {
 void qCloneWidget::SetupWidgetWindow(QString title) {
 
     std::string winTitle = std::string("Snapshot:") + std::to_string(id) +
-                           std::string("  -  ") + sls::Logger::Timestamp();
+                           std::string("  -  ") + Logger::Timestamp();
     setWindowTitle(QString(winTitle.c_str()));
 
     boxPlot->setFont(QFont("Sans Serif", qDefs::Q_FONT_SIZE, QFont::Normal));
@@ -146,4 +148,6 @@ void qCloneWidget::resizeEvent(QResizeEvent *event) {
                                    qDefs::DATA_GAIN_PLOT_RATIO);
     }
     event->accept();
-}
+}
+
+} // namespace sls

slsDetectorGui/src/qDacWidget.cpp

@@ -3,7 +3,9 @@
 #include "qDacWidget.h"
 #include "qDefs.h"
 
-qDacWidget::qDacWidget(QWidget *parent, sls::Detector *detector, bool d,
+namespace sls {
+
+qDacWidget::qDacWidget(QWidget *parent, Detector *detector, bool d,
                        std::string n, slsDetectorDefs::dacIndex i)
     : QWidget(parent), det(detector), isDac(d), index(i) {
     setupUi(this);
@@ -94,3 +96,5 @@ void qDacWidget::Refresh() {
         GetAdc();
     }
 }
+
+} // namespace sls

slsDetectorGui/src/qDetectorMain.cpp

@@ -59,7 +59,7 @@ int main(int argc, char **argv) {
 
         case 'f':
             fname = optarg;
-            LOG(logDEBUG) << long_options[option_index].name << " " << optarg;
+            LOG(sls::logDEBUG) << long_options[option_index].name << " " << optarg;
             break;
 
         case 'd':
@@ -72,7 +72,7 @@ int main(int argc, char **argv) {
 
         case 'v':
             tempval = APIGUI;
-            LOG(logINFO) << "SLS Detector GUI " << GITBRANCH << " (0x"
+            LOG(sls::logINFO) << "SLS Detector GUI " << GITBRANCH << " (0x"
                          << std::hex << tempval << ")";
             return 0;
 
@@ -88,7 +88,7 @@ int main(int argc, char **argv) {
                 "i. Default: 0. Required \n" +
                 "\t                            only when more than one multi "
                 "detector object is needed.\n\n";
-            LOG(logERROR) << help_message;
+            LOG(sls::logERROR) << help_message;
             return -1;
         }
     }
@@ -96,16 +96,18 @@ int main(int argc, char **argv) {
     QApplication app(argc, argv);
     app.setStyle(new QPlastiqueStyle); // style is deleted by QApplication
     try {
-        qDetectorMain det(multiId, fname, isDeveloper);
+        sls::qDetectorMain det(multiId, fname, isDeveloper);
         det.show();
         app.exec();
     } catch (const std::exception &e) {
-        qDefs::Message(qDefs::CRITICAL,
+        sls::qDefs::Message(sls::qDefs::CRITICAL,
                        std::string(e.what()) + "\nExiting Gui :'( ", "main");
     }
     return 0;
 }
 
+namespace sls {
+
 qDetectorMain::qDetectorMain(int multiId, const std::string &fname,
                              bool isDevel)
     : QMainWindow(nullptr), detType(slsDetectorDefs::GENERIC),
@@ -195,6 +197,7 @@ void qDetectorMain::SetUpWidgetWindow() {
     tabs->setTabEnabled(ADVANCED, false);
     tabs->setTabEnabled(DEVELOPER, isDeveloper);
     actionLoadTrimbits->setVisible(false);
+    actionSaveTrimbits->setVisible(false);
 
     dockWidgetPlot->setFloating(false);
     dockWidgetPlot->setFeatures(QDockWidget::NoDockWidgetFeatures);
@@ -212,7 +215,7 @@ void qDetectorMain::SetUpWidgetWindow() {
 void qDetectorMain::SetUpDetector(const std::string &config_file, int multiID) {
 
     // instantiate detector and set window title
-    det = sls::make_unique<sls::Detector>(multiID);
+    det = make_unique<Detector>(multiID);
 
     // create messages tab to capture config file loading logs
     tabMessages = new qTabMessages(this);
@@ -225,10 +228,12 @@ void qDetectorMain::SetUpDetector(const std::string &config_file, int multiID) {
     detType = det->getDetectorType().tsquash(
         "Different detector type for all modules.");
     actionLoadTrimbits->setEnabled(false);
+    actionSaveTrimbits->setEnabled(false);
     switch (detType) {
     case slsDetectorDefs::EIGER:
     case slsDetectorDefs::MYTHEN3:
         actionLoadTrimbits->setEnabled(true);
+        actionSaveTrimbits->setEnabled(true);
         break;
     case slsDetectorDefs::GOTTHARD:
     case slsDetectorDefs::JUNGFRAU:
@@ -238,15 +243,15 @@ void qDetectorMain::SetUpDetector(const std::string &config_file, int multiID) {
     default:
         std::ostringstream os;
         os << det->getHostname() << " has "
-           << sls::ToString(det->getDetectorType().squash())
+           << ToString(det->getDetectorType().squash())
            << " detector type (" << std::to_string(detType)
            << "). Exiting GUI.";
         std::string errorMess = os.str();
-        throw sls::RuntimeError(errorMess.c_str());
+        throw RuntimeError(errorMess.c_str());
     }
     std::ostringstream os;
     os << "SLS Detector GUI : "
-       << sls::ToString(det->getDetectorType().squash()) << " - "
+       << ToString(det->getDetectorType().squash()) << " - "
        << det->getHostname();
     std::string title = os.str();
     LOG(logINFO) << title;
@@ -339,9 +344,9 @@ void qDetectorMain::EnableModes(QAction *action) {
         enable = actionExpert->isChecked();
 
         tabs->setTabEnabled(ADVANCED, enable);
-        actionLoadTrimbits->setVisible(enable &&
-                                       (detType == slsDetectorDefs::EIGER ||
-                                        detType == slsDetectorDefs::MYTHEN3));
+        bool visible = enable && (detType == slsDetectorDefs::EIGER || detType == slsDetectorDefs::MYTHEN3);
+        actionLoadTrimbits->setVisible(visible);
+        actionSaveTrimbits->setVisible(visible);
         tabSettings->SetExportMode(enable);
         LOG(logINFO) << "Expert Mode: " << qDefs::stringEnable(enable);
     }
@@ -417,6 +422,22 @@ void qDetectorMain::ExecuteUtilities(QAction *action) {
                 LOG(logINFO) << "Trimbits loaded successfully";
             }
         }
+
+        else if (action == actionSaveTrimbits) {
+            QString fPath =
+                QString((det->getSettingsPath().squash("/tmp/")).c_str());
+            LOG(logDEBUG) << "Saving Trimbits";
+            QString fName = QFileDialog::getSaveFileName(
+                this, tr("Save Detector Trimbits"), fPath,
+                tr("Trimbit files (*.trim noise.sn*);;All Files(*)"));
+            if (!fName.isEmpty()) {
+                det->saveTrimbits(std::string(fName.toAscii().constData()));
+                qDefs::Message(qDefs::INFORMATION,
+                               "The Trimbits have been saved successfully.",
+                               "qDetectorMain::ExecuteUtilities");
+                LOG(logINFO) << "Trimbits saved successfully";
+            }
+        }
     }
     CATCH_DISPLAY("Could not execute utilities.",
                   "qDetectorMain::ExecuteUtilities")
@@ -441,10 +462,10 @@ void qDetectorMain::ExecuteHelp(QAction *action) {
         LOG(logINFO) << "About Common GUI for Jungfrau, Eiger, Mythen3, "
                         "Gotthard, Gotthard2 and Moench detectors";
 
-        std::string guiVersion = sls::ToStringHex(APIGUI);
+        std::string guiVersion = ToStringHex(APIGUI);
         std::string clientVersion = "unknown";
         try {
-            clientVersion = sls::ToStringHex(det->getClientVersion());
+            clientVersion = ToStringHex(det->getClientVersion());
         }
         CATCH_DISPLAY("Could not get client version.",
                       "qDetectorMain::ExecuteHelp")
@@ -577,6 +598,8 @@ void qDetectorMain::EnableTabs(bool enable) {
     tabs->setTabEnabled(ADVANCED, expertTab);
     actionLoadTrimbits->setVisible(expertTab &&
                                    detType == slsDetectorDefs::EIGER);
+    actionSaveTrimbits->setVisible(expertTab &&
+                                   detType == slsDetectorDefs::EIGER);
 
     // moved to here, so that its all in order, instead of signals and different
     // threads
@@ -609,3 +632,5 @@ void qDetectorMain::SetZoomToolTip(bool disable) {
     else
         dockWidgetPlot->setToolTip(zoomToolTip);
 }
+
+} // namespace sls

slsDetectorGui/src/qDrawPlot.cpp

@@ -14,7 +14,9 @@
 #include <QResizeEvent>
 #include <QtConcurrentRun>
 
-qDrawPlot::qDrawPlot(QWidget *parent, sls::Detector *detector)
+namespace sls {
+
+qDrawPlot::qDrawPlot(QWidget *parent, Detector *detector)
     : QWidget(parent), det(detector) {
     setupUi(this);
     SetupWidgetWindow();
@@ -80,6 +82,10 @@ void qDrawPlot::SetupWidgetWindow() {
         fileSaveName = "Image";
     }
 
+    gotthard25 = ((detType == slsDetectorDefs::GOTTHARD2 ||
+                   detType == slsDetectorDefs::GOTTHARD) &&
+                  det->size() == 2);
+
     SetupPlots();
     SetDataCallBack(true);
     det->registerAcquisitionFinishedCallback(&(GetAcquisitionFinishedCallBack),
@@ -274,11 +280,13 @@ void qDrawPlot::Select1dPlot(bool enable) {
 }
 
 void qDrawPlot::SetPlotTitlePrefix(QString title) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting Title to " << title.toAscii().constData();
     plotTitlePrefix = title;
 }
 
 void qDrawPlot::SetXAxisTitle(QString title) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting X Axis Title to " << title.toAscii().constData();
     if (is1d) {
         xTitle1d = title;
@@ -288,6 +296,7 @@ void qDrawPlot::SetXAxisTitle(QString title) {
 }
 
 void qDrawPlot::SetYAxisTitle(QString title) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting Y Axis Title to " << title.toAscii().constData();
     if (is1d) {
         yTitle1d = title;
@@ -297,6 +306,7 @@ void qDrawPlot::SetYAxisTitle(QString title) {
 }
 
 void qDrawPlot::SetZAxisTitle(QString title) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting Z Axis Title to " << title.toAscii().constData();
     zTitle2d = title;
 }
@@ -314,6 +324,7 @@ void qDrawPlot::SetXYRangeChanged(bool disable, double *xy, bool *isXY) {
 }
 
 void qDrawPlot::SetZRange(double *z, bool *isZ) {
+    std::lock_guard<std::mutex> lock(mPlots);
     std::copy(z, z + 2, zRange);
     std::copy(isZ, isZ + 2, isZRange);
 }
@@ -347,6 +358,7 @@ double qDrawPlot::GetYMaximum() {
 }
 
 void qDrawPlot::SetDataCallBack(bool enable) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting data call back to " << std::boolalpha << enable
                  << std::noboolalpha;
     try {
@@ -365,6 +377,7 @@ void qDrawPlot::SetDataCallBack(bool enable) {
 }
 
 void qDrawPlot::SetBinary(bool enable, int from, int to) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << (enable ? "Enabling" : "Disabling")
                  << " Binary output from " << from << " to " << to;
     binaryFrom = from;
@@ -373,6 +386,7 @@ void qDrawPlot::SetBinary(bool enable, int from, int to) {
 }
 
 void qDrawPlot::SetPersistency(int val) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting Persistency to " << val;
     persistency = val;
 }
@@ -454,17 +468,20 @@ void qDrawPlot::ResetAccumulate() {
 }
 
 void qDrawPlot::DisplayStatistics(bool enable) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << (enable ? "Enabling" : "Disabling")
                  << " Statistics Display";
     displayStatistics = enable;
 }
 
 void qDrawPlot::SetNumDiscardBits(int value) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << "Setting number of bits to discard: " << value;
     numDiscardBits = value;
 }
 
 void qDrawPlot::EnableGainPlot(bool enable) {
+    std::lock_guard<std::mutex> lock(mPlots);
     LOG(logINFO) << (enable ? "Enabling" : "Disabling") << " Gain Plot";
     hasGainData = enable;
 }
@@ -605,6 +622,13 @@ void qDrawPlot::SavePlot() {
     }
 }
 
+void qDrawPlot::SetGapPixels(bool enable) {
+    LOG(logDEBUG) << "Gap pixels enabled";
+    std::lock_guard<std::mutex> lock(mPlots);
+    isGapPixels = enable;
+}
+
+
 void qDrawPlot::GetStatistics(double &min, double &max, double &sum) {
     LOG(logDEBUG) << "Calculating Statistics";
     double *array = data2d;
@@ -638,6 +662,7 @@ void qDrawPlot::StartAcquisition() {
     currentFrame = 0;
     boxPlot->setTitle("Old Plot");
     det->clearAcquiringFlag(); // (from previous exit) or if running
+    isRxRoiDisplayed = false;
 
     // ensure data streaming in receiver (if plot enabled)
     if (isPlot) {
@@ -705,7 +730,7 @@ void qDrawPlot::AcquisitionFinished(double currentProgress,
                                     int detectorStatus) {
     progress = currentProgress;
     std::string status =
-        sls::ToString(static_cast<slsDetectorDefs::runStatus>(detectorStatus));
+        ToString(static_cast<slsDetectorDefs::runStatus>(detectorStatus));
 
     if (detectorStatus == slsDetectorDefs::ERROR) {
         qDefs::Message(qDefs::WARNING,
@@ -738,6 +763,7 @@ void qDrawPlot::GetData(detectorData *data, uint64_t frameIndex,
                   << "  \t dynamic range: " << data->dynamicRange << std::endl
                   << "  \t file index: " << data->fileIndex << std::endl
                   << "  \t complete image: " << data->completeImage << std::endl
+                  << "  \t rx Roi: " << ToString(data->rxRoi) << std::endl
                   << "  ]";
 
     progress = data->progressIndex;
@@ -745,6 +771,22 @@ void qDrawPlot::GetData(detectorData *data, uint64_t frameIndex,
     currentFrame = frameIndex;
     LOG(logDEBUG) << "[ Progress:" << progress << "%, Frame:" << currentFrame
                   << " ]";
+    if (!isRxRoiDisplayed) {
+        rxRoi.xmin = data->rxRoi[0];
+        rxRoi.xmax = data->rxRoi[1];
+        rxRoi.ymin = data->rxRoi[2];
+        rxRoi.ymax = data->rxRoi[3];
+        // only for 2d anyway
+        if (isGapPixels) {
+            rxRoi.xmin += ((rxRoi.xmin/1024) * 6 + (rxRoi.xmin/256) * 2);
+            rxRoi.xmax += ((rxRoi.xmax/1024) * 6 + (rxRoi.xmax/256) * 2);
+            rxRoi.ymin += ((rxRoi.ymin/512) * 34 + (rxRoi.ymin/256) * 2);
+            rxRoi.ymax += ((rxRoi.ymax/512) * 34 + (rxRoi.ymax/256) * 2);
+            LOG(logINFO) << "Rx_roi recalculated with gap pixels: " << ToString(rxRoi);
+        }
+        LOG(logDEBUG) << "Rx_roi: " << ToString(rxRoi);
+    }
+    
 
     // 1d check if npixelX has changed (m3 for different counters enabled)
     if (is1d && static_cast<int>(nPixelsX) != data->nx) {
@@ -807,6 +849,11 @@ void qDrawPlot::GetData(detectorData *data, uint64_t frameIndex,
         isGainDataExtracted = false;
     }
 
+    // gotthard25um rearranging
+    if (gotthard25) {
+        rearrangeGotthard25data(rawData);
+    }
+
     // title and frame index titles
     plotTitle =
         plotTitlePrefix + QString(data->fileName.c_str()).section('/', -1);
@@ -978,6 +1025,26 @@ void qDrawPlot::Update1dPlot() {
         xyRangeChanged = false;
     }
     plot1d->DisableZoom(disableZoom);
+    if (!isRxRoiDisplayed) {
+        isRxRoiDisplayed = true;
+        if (rxRoi.completeRoi()) {
+            plot1d->DisableRoiBox();
+            if (isGainDataExtracted) {
+                gainplot1d->DisableRoiBox();
+            }
+            lblRxRoiEnabled->hide();
+        } else {
+            plot1d->EnableRoiBox(std::array<int, 4>{rxRoi.xmin, rxRoi.xmax, (int)plot1d->GetYMinimum(), (int)plot1d->GetYMaximum()});
+            if (isGainDataExtracted) {
+                gainplot1d->EnableRoiBox(std::array<int, 4>{rxRoi.xmin, rxRoi.xmax, 0, 3});
+            }
+            lblRxRoiEnabled->show();
+        }
+    }
+    // ymin and ymax could change (so replot roi every time)
+    if (!rxRoi.completeRoi()) {
+        plot1d->EnableRoiBox(std::array<int, 4>{rxRoi.xmin, rxRoi.xmax, (int)plot1d->GetYMinimum(), (int)plot1d->GetYMaximum()});
+    } 
 }
 
 void qDrawPlot::Update2dPlot() {
@@ -1006,6 +1073,22 @@ void qDrawPlot::Update2dPlot() {
     }
     plot2d->DisableZoom(disableZoom);
     plot2d->SetZRange(isZRange[0], isZRange[1], zRange[0], zRange[1]);
+    if (!isRxRoiDisplayed) {
+        isRxRoiDisplayed = true;
+        if (rxRoi.completeRoi()) {
+            plot2d->DisableRoiBox();
+            if (isGainDataExtracted) {
+                gainplot2d->DisableRoiBox();
+            }
+            lblRxRoiEnabled->hide();
+        } else {
+            plot2d->EnableRoiBox(rxRoi.getIntArray());
+            if (isGainDataExtracted) {
+                gainplot2d->EnableRoiBox(rxRoi.getIntArray());
+            }
+            lblRxRoiEnabled->show();
+        }
+    }
 }
 
 void qDrawPlot::Update1dXYRange() {
@@ -1064,6 +1147,8 @@ void qDrawPlot::toDoublePixelData(double *dest, char *source, int size,
     // mythen3 / gotthard2 debugging
     int discardBits = numDiscardBits;
 
+    uint16_t temp = 0;
+    uint8_t *src = (uint8_t *)source;
     switch (dr) {
 
     case 4:
@@ -1083,6 +1168,19 @@ void qDrawPlot::toDoublePixelData(double *dest, char *source, int size,
         }
         break;
 
+    case 12:
+        for (ichan = 0; ichan < size; ++ichan) {
+            temp = (*src++ & 0xFF);
+            temp |= ((*src & 0xF) << 8u);
+            dest[ichan] = (double)temp;
+            ++ichan;
+
+            temp = ((*src++ & 0xF0) >> 4u);
+            temp |= ((*src++ & 0xFF) << 4u);
+            dest[ichan] = (double)temp;
+        }
+        break;
+
     case 16:
         if (detType == slsDetectorDefs::JUNGFRAU ||
             detType == slsDetectorDefs::GOTTHARD2) {
@@ -1130,6 +1228,18 @@ void qDrawPlot::toDoublePixelData(double *dest, char *source, int size,
     }
 }
 
+void qDrawPlot::rearrangeGotthard25data(double *data) {
+    const int nChans = NUM_GOTTHARD25_CHANS;
+    double temp[nChans * 2] = {0.0};
+    for (int i = 0; i != nChans; ++i) {
+        // master module
+        temp[i * 2] = data[i];
+        // slave module
+        temp[i * 2 + 1] = data[nChans + i];
+    }
+    memcpy(data, temp, nChans * 2 * sizeof(double));
+}
+
 void qDrawPlot::UpdatePlot() {
     std::lock_guard<std::mutex> lock(mPlots);
     LOG(logDEBUG) << "Update Plot";
@@ -1164,3 +1274,5 @@ void qDrawPlot::UpdatePlot() {
 
     LOG(logDEBUG) << "End of Update Plot";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabAdvanced.cpp

@@ -5,7 +5,9 @@
 #include "qDrawPlot.h"
 #include "sls/network_utils.h"
 
-qTabAdvanced::qTabAdvanced(QWidget *parent, sls::Detector *detector,
+namespace sls {
+
+qTabAdvanced::qTabAdvanced(QWidget *parent, Detector *detector,
                            qDrawPlot *p)
     : QWidget(parent), det(detector), plot(p) {
     setupUi(this);
@@ -443,7 +445,7 @@ void qTabAdvanced::SetDetectorUDPIP(bool force) {
         std::string s = dispDetectorUDPIP->text().toAscii().constData();
         LOG(logINFO) << "Setting Detector UDP IP:" << s;
         try {
-            det->setSourceUDPIP(sls::IpAddr{s},
+            det->setSourceUDPIP(IpAddr{s},
                                 {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Detector UDP IP.",
@@ -461,7 +463,7 @@ void qTabAdvanced::SetDetectorUDPMAC(bool force) {
         std::string s = dispDetectorUDPMAC->text().toAscii().constData();
         LOG(logINFO) << "Setting Detector UDP MAC:" << s;
         try {
-            det->setSourceUDPMAC(sls::MacAddr{s},
+            det->setSourceUDPMAC(MacAddr{s},
                                  {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Detector UDP MAC.",
@@ -489,7 +491,7 @@ void qTabAdvanced::SetCltZMQIP(bool force) {
         std::string s = dispZMQIP->text().toAscii().constData();
         LOG(logINFO) << "Setting Client ZMQ IP:" << s;
         try {
-            det->setClientZmqIp(sls::IpAddr{s},
+            det->setClientZmqIp(IpAddr{s},
                                 {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Client ZMQ IP.",
@@ -547,7 +549,7 @@ void qTabAdvanced::SetRxrUDPIP(bool force) {
         std::string s = dispRxrUDPIP->text().toAscii().constData();
         LOG(logINFO) << "Setting Receiver UDP IP:" << s;
         try {
-            det->setDestinationUDPIP(sls::IpAddr{s},
+            det->setDestinationUDPIP(IpAddr{s},
                                      {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Receiver UDP IP.",
@@ -565,7 +567,7 @@ void qTabAdvanced::SetRxrUDPMAC(bool force) {
         std::string s = dispRxrUDPMAC->text().toAscii().constData();
         LOG(logINFO) << "Setting Receiver UDP MAC:" << s;
         try {
-            det->setDestinationUDPMAC(sls::MacAddr{s},
+            det->setDestinationUDPMAC(MacAddr{s},
                                       {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Receiver UDP MAC.",
@@ -593,7 +595,7 @@ void qTabAdvanced::SetRxrZMQIP(bool force) {
         std::string s = dispRxrZMQIP->text().toAscii().constData();
         LOG(logINFO) << "Setting Receiver ZMQ IP:" << s;
         try {
-            det->setRxZmqIP(sls::IpAddr{s}, {comboDetector->currentIndex()});
+            det->setRxZmqIP(IpAddr{s}, {comboDetector->currentIndex()});
         }
         CATCH_HANDLE("Could not set Receiver ZMQ IP.",
                      "qTabAdvanced::SetRxrZMQIP", this,
@@ -891,3 +893,5 @@ void qTabAdvanced::Refresh() {
     }
     LOG(logDEBUG) << "**Updated Advanced Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabDataOutput.cpp

@@ -11,7 +11,9 @@
 
 #include <unistd.h>
 
-qTabDataOutput::qTabDataOutput(QWidget *parent, sls::Detector *detector)
+namespace sls {
+
+qTabDataOutput::qTabDataOutput(QWidget *parent, Detector *detector)
     : QWidget(parent), det(detector), btnGroupRate(nullptr) {
     setupUi(this);
     SetupWidgetWindow();
@@ -232,7 +234,7 @@ void qTabDataOutput::GetFileFormat() {
             comboFileFormat->setCurrentIndex(static_cast<int>(retval));
             break;
         default:
-            throw sls::RuntimeError(std::string("Unknown file format: ") +
+            throw RuntimeError(std::string("Unknown file format: ") +
                                     std::to_string(static_cast<int>(retval)));
         }
     }
@@ -339,7 +341,7 @@ void qTabDataOutput::EnableRateCorrection() {
     LOG(logINFO) << "Disabling Rate correction";
     // disable
     try {
-        det->setRateCorrection(sls::ns(0));
+        det->setRateCorrection(ns(0));
     }
     CATCH_HANDLE("Could not switch off rate correction.",
                  "qTabDataOutput::EnableRateCorrection", this,
@@ -357,7 +359,7 @@ void qTabDataOutput::SetRateCorrection() {
             int64_t deadtime = spinCustomDeadTime->value();
             LOG(logINFO) << "Setting Rate Correction with custom dead time: "
                          << deadtime;
-            det->setRateCorrection(sls::ns(deadtime));
+            det->setRateCorrection(ns(deadtime));
         }
         // default dead time
         else {
@@ -442,3 +444,5 @@ void qTabDataOutput::Refresh() {
 
     LOG(logDEBUG) << "**Updated DataOutput Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabDebugging.cpp

@@ -7,7 +7,9 @@
 #include <QGridLayout>
 #include <QTreeWidget>
 
-qTabDebugging::qTabDebugging(QWidget *parent, sls::Detector *detector)
+namespace sls {
+
+qTabDebugging::qTabDebugging(QWidget *parent, Detector *detector)
     : QWidget(parent), det(detector), treeDet(nullptr),
       lblDetectorHostname(nullptr), lblDetectorFirmware(nullptr),
       lblDetectorSoftware(nullptr) {
@@ -62,7 +64,7 @@ void qTabDebugging::GetDetectorStatus() {
     LOG(logDEBUG) << "Getting Status";
 
     try {
-        std::string status = sls::ToString(
+        std::string status = ToString(
             det->getDetectorStatus({comboDetector->currentIndex()})[0]);
         lblStatus->setText(QString(status.c_str()).toUpper());
     }
@@ -88,7 +90,7 @@ void qTabDebugging::GetInfo() {
     lblDetectorFirmware->setFixedWidth(100);
     layout->addWidget(dispFrame, 0, 1);
     QString detName =
-        QString(sls::ToString(det->getDetectorType().squash()).c_str());
+        QString(ToString(det->getDetectorType().squash()).c_str());
 
     switch (det->getDetectorType().squash()) {
 
@@ -241,3 +243,5 @@ void qTabDebugging::Refresh() {
     GetDetectorStatus();
     LOG(logDEBUG) << "**Updated Debugging Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabDeveloper.cpp

@@ -4,7 +4,9 @@
 #include "qDacWidget.h"
 #include "qDefs.h"
 
-qTabDeveloper::qTabDeveloper(QWidget *parent, sls::Detector *detector)
+namespace sls {
+
+qTabDeveloper::qTabDeveloper(QWidget *parent, Detector *detector)
     : QWidget(parent), det(detector) {
     setupUi(this);
     SetupWidgetWindow();
@@ -324,7 +326,7 @@ void qTabDeveloper::GetHighVoltage() {
         // spinHV
         if (spinHV->isVisible()) {
             if (retval != 0 && retval < hvmin && retval > HV_MAX) {
-                throw sls::RuntimeError(std::string("Unknown High Voltage: ") +
+                throw RuntimeError(std::string("Unknown High Voltage: ") +
                                         std::to_string(retval));
             }
             spinHV->setValue(retval);
@@ -354,7 +356,7 @@ void qTabDeveloper::GetHighVoltage() {
                 comboHV->setCurrentIndex(HV_200);
                 break;
             default:
-                throw sls::RuntimeError(std::string("Unknown High Voltage: ") +
+                throw RuntimeError(std::string("Unknown High Voltage: ") +
                                         std::to_string(retval));
             }
         }
@@ -431,7 +433,7 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 22:
             return slsDetectorDefs::TEMPERATURE_FPGA;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
@@ -458,7 +460,7 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 9:
             return slsDetectorDefs::TEMPERATURE_FPGA;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
@@ -484,7 +486,7 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 8:
             return slsDetectorDefs::TEMPERATURE_ADC;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
@@ -508,7 +510,7 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 7:
             return slsDetectorDefs::IBIAS_SFP;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
@@ -550,7 +552,7 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 16:
             return slsDetectorDefs::VTHRESHOLD;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
@@ -586,13 +588,13 @@ qTabDeveloper::getSLSIndex(slsDetectorDefs::detectorType detType, int index) {
         case 13:
             return slsDetectorDefs::VCOM_ADC2;
         default:
-            throw sls::RuntimeError(std::string("Unknown dac/adc index") +
+            throw RuntimeError(std::string("Unknown dac/adc index") +
                                     std::to_string(index));
         }
         break;
 
     default:
-        throw sls::RuntimeError(std::string("Unknown detector type"));
+        throw RuntimeError(std::string("Unknown detector type"));
     }
 }
 
@@ -607,3 +609,5 @@ void qTabDeveloper::Refresh() {
     GetHighVoltage();
     LOG(logDEBUG) << "**Updated Developer Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabMeasurement.cpp

@@ -7,7 +7,9 @@
 #include <QStandardItemModel>
 #include <QTimer>
 
-qTabMeasurement::qTabMeasurement(QWidget *parent, sls::Detector *detector,
+namespace sls {
+
+qTabMeasurement::qTabMeasurement(QWidget *parent, Detector *detector,
                                  qDrawPlot *p)
     : QWidget(parent), det(detector), plot(p), progressTimer(nullptr) {
     setupUi(this);
@@ -337,9 +339,26 @@ void qTabMeasurement::GetTimingMode() {
     disconnect(comboTimingMode, SIGNAL(currentIndexChanged(int)), this,
                SLOT(SetTimingMode(int)));
     try {
+        
+        slsDetectorDefs::timingMode retval{slsDetectorDefs::AUTO_TIMING};
+        // m3: remove slave modes (always trigger) before squashing
+        if (det->getDetectorType().squash() == slsDetectorDefs::MYTHEN3) {
+            auto retvals = det->getTimingMode();
+            auto is_master = det->getMaster();
+            Result<slsDetectorDefs::timingMode> masterRetvals;
+            for (size_t i = 0; i != is_master.size(); ++i) {
+                if (is_master[i]) {
+                    masterRetvals.push_back(retvals[i]);
+                }
+            }
+            retval = masterRetvals.tsquash(
+                "Inconsistent timing mode for all detectors.");
+        } else {
+            retval = det->getTimingMode().tsquash(
+                "Inconsistent timing mode for all detectors.");
+        }
+
         auto oldMode = comboTimingMode->currentIndex();
-        auto retval = det->getTimingMode().tsquash(
-            "Inconsistent timing mode for all detectors.");
         switch (retval) {
         case slsDetectorDefs::AUTO_TIMING:
         case slsDetectorDefs::TRIGGER_EXPOSURE:
@@ -353,7 +372,7 @@ void qTabMeasurement::GetTimingMode() {
             }
             break;
         default:
-            throw sls::RuntimeError(std::string("Unknown timing mode: ") +
+            throw RuntimeError(std::string("Unknown timing mode: ") +
                                     std::to_string(retval));
         }
     }
@@ -390,7 +409,7 @@ void qTabMeasurement::GetBurstMode() {
             ShowTriggerDelay();
             break;
         default:
-            throw sls::RuntimeError(std::string("Unknown burst mode: ") +
+            throw RuntimeError(std::string("Unknown burst mode: ") +
                                     std::to_string(retval));
         }
     }
@@ -1000,3 +1019,5 @@ void qTabMeasurement::Refresh() {
 
     LOG(logDEBUG) << "**Updated Measurement Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabMessages.cpp

@@ -11,6 +11,8 @@
 #include <QTextStream>
 #include <string>
 
+namespace sls {
+
 qTabMessages::qTabMessages(QWidget *parent) : QWidget(parent) {
     setupUi(this);
     SetupWidgetWindow();
@@ -142,3 +144,5 @@ void qTabMessages::Refresh() {
     dispCommand->clear();
     dispCommand->setFocus();
 }
+
+} // namespace sls

slsDetectorGui/src/qTabPlot.cpp

@@ -6,6 +6,8 @@
 #include <QStackedLayout>
 #include <QStandardItemModel>
 
+namespace sls {
+
 QString qTabPlot::defaultPlotTitle("");
 QString qTabPlot::defaultHistXAxisTitle("Channel Number");
 QString qTabPlot::defaultHistYAxisTitle("Counts");
@@ -13,7 +15,7 @@ QString qTabPlot::defaultImageXAxisTitle("Pixel");
 QString qTabPlot::defaultImageYAxisTitle("Pixel");
 QString qTabPlot::defaultImageZAxisTitle("Intensity");
 
-qTabPlot::qTabPlot(QWidget *parent, sls::Detector *detector, qDrawPlot *p)
+qTabPlot::qTabPlot(QWidget *parent, Detector *detector, qDrawPlot *p)
     : QWidget(parent), det(detector), plot(p), is1d(false) {
     setupUi(this);
     SetupWidgetWindow();
@@ -74,6 +76,10 @@ void qTabPlot::SetupWidgetWindow() {
     // set zmq high water mark to GUI_ZMQ_RCV_HWM (2)
     spinSndHwm->setValue(qDefs::GUI_ZMQ_RCV_HWM);
     spinRcvHwm->setValue(qDefs::GUI_ZMQ_RCV_HWM);
+
+    if (chkGapPixels->isEnabled()) {
+        chkGapPixels->setChecked(true);
+    }
 }
 
 void qTabPlot::Initialization() {
@@ -327,6 +333,7 @@ void qTabPlot::SetGapPixels(bool enable) {
     LOG(logINFO) << "Setting Gap Pixels Enable to " << enable;
     try {
         det->setGapPixelsinCallback(enable);
+        plot->SetGapPixels(enable);
     }
     CATCH_HANDLE("Could not set gap pixels enable.", "qTabPlot::SetGapPixels",
                  this, &qTabPlot::GetGapPixels)
@@ -792,3 +799,5 @@ void qTabPlot::Refresh() {
 
     LOG(logDEBUG) << "**Updated Plot Tab";
 }
+
+} // namespace sls

slsDetectorGui/src/qTabSettings.cpp

@@ -6,7 +6,9 @@
 #include "sls/bit_utils.h"
 #include <QStandardItemModel>
 
-qTabSettings::qTabSettings(QWidget *parent, sls::Detector *detector)
+namespace sls {
+
+qTabSettings::qTabSettings(QWidget *parent, Detector *detector)
     : QWidget(parent), det(detector) {
     setupUi(this);
     SetupWidgetWindow();
@@ -60,13 +62,19 @@ void qTabSettings::SetupWidgetWindow() {
         QStandardItemModel *model =
             qobject_cast<QStandardItemModel *>(comboDynamicRange->model());
         if (model) {
-            QModelIndex index;
             QStandardItem *item;
-            index =
-                model->index(DYNAMICRANGE_4, comboDynamicRange->modelColumn(),
-                             comboDynamicRange->rootModelIndex());
-            item = model->itemFromIndex(index);
-            item->setEnabled(false);
+            int dr = DYNAMICRANGE_4;
+            for (int i = 0; i != 2; ++i) {
+                // disable dr 4
+                QModelIndex index =
+                    model->index(dr, comboDynamicRange->modelColumn(),
+                                 comboDynamicRange->rootModelIndex());
+                item = model->itemFromIndex(index);
+                item->setEnabled(false);
+
+                // disable dr 12
+                dr = DYNAMICRANGE_12;
+            }
         }
     } else if (detType == slsDetectorDefs::EIGER) {
         lblDynamicRange->setEnabled(true);
@@ -209,7 +217,7 @@ void qTabSettings::GetSettings() {
             break;
         default:
             if ((int)retval < -1 || (int)retval >= comboSettings->count()) {
-                throw sls::RuntimeError(std::string("Unknown settings: ") +
+                throw RuntimeError(std::string("Unknown settings: ") +
                                         std::to_string(retval));
             }
             comboSettings->setCurrentIndex(retval);
@@ -225,7 +233,7 @@ void qTabSettings::SetSettings(int index) {
     // settings
     auto val = static_cast<slsDetectorDefs::detectorSettings>(index);
     try {
-        LOG(logINFO) << "Setting Settings to " << sls::ToString(val);
+        LOG(logINFO) << "Setting Settings to " << ToString(val);
         det->setSettings(val);
     }
     CATCH_HANDLE("Could not set settings.", "qTabSettings::SetSettings", this,
@@ -244,7 +252,7 @@ void qTabSettings::GetGainMode() {
         auto retval = det->getGainMode().tsquash(
             "Inconsistent gain mode for all detectors.");
         if ((int)retval < 0 || (int)retval >= comboGainMode->count()) {
-            throw sls::RuntimeError(std::string("Unknown gain mode: ") +
+            throw RuntimeError(std::string("Unknown gain mode: ") +
                                     std::to_string(retval));
         }
         // warning when using fix_g0 and not in export mode
@@ -305,6 +313,9 @@ void qTabSettings::GetDynamicRange() {
         case 16:
             comboDynamicRange->setCurrentIndex(DYNAMICRANGE_16);
             break;
+        case 12:
+            comboDynamicRange->setCurrentIndex(DYNAMICRANGE_12);
+            break;
         case 8:
             comboDynamicRange->setCurrentIndex(DYNAMICRANGE_8);
             break;
@@ -312,7 +323,7 @@ void qTabSettings::GetDynamicRange() {
             comboDynamicRange->setCurrentIndex(DYNAMICRANGE_4);
             break;
         default:
-            throw sls::RuntimeError(std::string("Unknown dynamic range: ") +
+            throw RuntimeError(std::string("Unknown dynamic range: ") +
                                     std::to_string(retval));
         }
     }
@@ -333,6 +344,9 @@ void qTabSettings::SetDynamicRange(int index) {
         case DYNAMICRANGE_16:
             det->setDynamicRange(16);
             break;
+        case DYNAMICRANGE_12:
+            det->setDynamicRange(12);
+            break;
         case DYNAMICRANGE_8:
             det->setDynamicRange(8);
             break;
@@ -340,7 +354,7 @@ void qTabSettings::SetDynamicRange(int index) {
             det->setDynamicRange(4);
             break;
         default:
-            throw sls::RuntimeError(std::string("Unknown dynamic range: ") +
+            throw RuntimeError(std::string("Unknown dynamic range: ") +
                                     std::to_string(index));
         }
     }
@@ -387,7 +401,7 @@ void qTabSettings::SetThresholdEnergies() {
     slsDetectorDefs::detectorSettings sett =
         static_cast<slsDetectorDefs::detectorSettings>(
             comboSettings->currentIndex());
-    LOG(logINFO) << "Setting Threshold Energies to " << sls::ToString(eV)
+    LOG(logINFO) << "Setting Threshold Energies to " << ToString(eV)
                  << " (eV)";
     try {
         det->setThresholdEnergy(eV, sett);
@@ -418,7 +432,7 @@ void qTabSettings::GetCounterMask() {
     disconnect(chkCounter3, SIGNAL(toggled(bool)), this,
                SLOT(SetCounterMask()));
     try {
-        auto retval = sls::getSetBits(det->getCounterMask().tsquash(
+        auto retval = getSetBits(det->getCounterMask().tsquash(
             "Counter mask is inconsistent for all detectors."));
         // default to unchecked
         for (auto p : counters) {
@@ -427,7 +441,7 @@ void qTabSettings::GetCounterMask() {
         // if retval[i] = 2, chkCounter2 is checked
         for (auto i : retval) {
             if (i > 3) {
-                throw sls::RuntimeError(
+                throw RuntimeError(
                     std::string("Unknown counter index : ") +
                     std::to_string(static_cast<int>(i)));
             }
@@ -484,3 +498,5 @@ void qTabSettings::Refresh() {
 
     LOG(logDEBUG) << "**Updated Settings Tab";
 }
+
+} // namespace sls

slsDetectorServers/ctbDetectorServer/slsDetectorFunctionList.c

@@ -433,16 +433,21 @@ void initControlServer() {
 }
 
 void initStopServer() {
-
-    usleep(CTRL_SRVR_INIT_TIME_US);
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
+        sharedMemory_setStop(0);
 #endif
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -702,8 +707,16 @@ void resetPeripheral() {
 }
 
 /* set parameters -  dr, adcenablemask */
+int setDynamicRange(int dr) {
+    if (dr == 16)
+        return OK;
+    return FAIL;
+}
 
-int setDynamicRange(int dr) { return DYNAMIC_RANGE; }
+int getDynamicRange(int *retval) {
+    *retval = DYNAMIC_RANGE;
+    return OK;
+}
 
 int setADCEnableMask(uint32_t mask) {
     if (mask == 0u) {
@@ -2047,8 +2060,8 @@ void *start_timer(void *arg) {
             header->frameNumber = frameNr + iframes;
             header->packetNumber = i;
             header->modId = 0;
-            header->row = detPos[X];
-            header->column = detPos[Y];
+            header->row = detPos[Y];
+            header->column = detPos[X];
 
             // fill data
             memcpy(packetData + sizeof(sls_detector_header),

slsDetectorServers/eigerDetectorServer/Beb.c

@@ -177,7 +177,7 @@ void Beb_AdjustIPChecksum(struct udp_header_type *ip) {
     ip->ip_header_checksum[1] = ip_checksum & 0xff;
 }
 
-void Beb_GetModuleConfiguration(int *master, int *top, int *normal) {
+int Beb_GetModuleConfiguration(int *master, int *top, int *normal) {
     *top = 0;
     *master = 0;
     // mapping new memory to read master top module configuration
@@ -187,6 +187,7 @@ void Beb_GetModuleConfiguration(int *master, int *top, int *normal) {
     int fd = Beb_open(&csp0base, XPAR_PLB_GPIO_SYS_BASEADDR);
     if (fd < 0) {
         LOG(logERROR, ("Module Configuration FAIL\n"));
+        return FAIL;
     } else {
         // read data
         ret = Beb_Read32(csp0base, BEB_CONFIG_RD_OFST);
@@ -202,6 +203,7 @@ void Beb_GetModuleConfiguration(int *master, int *top, int *normal) {
         // close file pointer
         Beb_close(fd, csp0base);
     }
+    return OK;
 }
 
 int Beb_IsTransmitting(int *retval, int tengiga, int waitForDelay) {
@@ -492,6 +494,11 @@ int Beb_SetDataStream(enum portPosition port, int enable) {
         u_int32_t reg = XPAR_GPIO_P15_STREAMING_REG;
         u_int32_t mask = (port == LEFT ? XPAR_GPIO_LFT_STRM_DSBL_MSK
                                        : XPAR_GPIO_RGHT_STRM_DSBL_MSK);
+        // invert left/right if bottom
+        if (!Beb_top) {
+            mask = (port == LEFT ? XPAR_GPIO_RGHT_STRM_DSBL_MSK
+                                 : XPAR_GPIO_LFT_STRM_DSBL_MSK);
+        }
 
         u_int32_t value = Beb_Read32(csp0base, reg);
         // disabling in firmware
@@ -529,6 +536,11 @@ int Beb_GetDataStream(enum portPosition port, int *retval) {
         u_int32_t reg = XPAR_GPIO_P15_STREAMING_REG;
         u_int32_t mask = (port == LEFT ? XPAR_GPIO_LFT_STRM_DSBL_MSK
                                        : XPAR_GPIO_RGHT_STRM_DSBL_MSK);
+        // invert left/right if bottom
+        if (!Beb_top) {
+            mask = (port == LEFT ? XPAR_GPIO_RGHT_STRM_DSBL_MSK
+                                 : XPAR_GPIO_LFT_STRM_DSBL_MSK);
+        }
 
         u_int32_t value = Beb_Read32(csp0base, reg);
         // disabling in firmware
@@ -682,6 +694,10 @@ int Beb_GetTransmissionDelayLeft() {
         return Beb_deactivated_transmission_delay_left;
     }
     u_int32_t offset = TXM_DELAY_LEFT_OFFSET;
+    // invert left/right if bottom
+    if (!Beb_top) {
+        offset = TXM_DELAY_RIGHT_OFFSET;
+    }
     u_int32_t *csp0base = 0;
     int fd = Beb_open(&csp0base, XPAR_PLB_GPIO_SYS_BASEADDR);
     if (fd <= 0) {
@@ -706,6 +722,10 @@ int Beb_SetTransmissionDelayLeft(int value) {
         return 1;
     }
     u_int32_t offset = TXM_DELAY_LEFT_OFFSET;
+    // invert left/right if bottom
+    if (!Beb_top) {
+        offset = TXM_DELAY_RIGHT_OFFSET;
+    }
     u_int32_t *csp0base = 0;
     int fd = Beb_open(&csp0base, XPAR_PLB_GPIO_SYS_BASEADDR);
     if (fd <= 0) {
@@ -726,6 +746,10 @@ int Beb_GetTransmissionDelayRight() {
     }
 
     u_int32_t offset = TXM_DELAY_RIGHT_OFFSET;
+    // invert left/right if bottom
+    if (!Beb_top) {
+        offset = TXM_DELAY_LEFT_OFFSET;
+    }
     u_int32_t *csp0base = 0;
     int fd = Beb_open(&csp0base, XPAR_PLB_GPIO_SYS_BASEADDR);
     if (fd <= 0) {
@@ -750,6 +774,10 @@ int Beb_SetTransmissionDelayRight(int value) {
         return 1;
     }
     u_int32_t offset = TXM_DELAY_RIGHT_OFFSET;
+    // invert left/right if bottom
+    if (!Beb_top) {
+        offset = TXM_DELAY_LEFT_OFFSET;
+    }
     u_int32_t *csp0base = 0;
     int fd = Beb_open(&csp0base, XPAR_PLB_GPIO_SYS_BASEADDR);
     if (fd <= 0) {
@@ -836,11 +864,17 @@ void Beb_ResetFrameNumber() {
 }
 
 int Beb_SetUpTransferParameters(short the_bit_mode) {
-    if (the_bit_mode != 4 && the_bit_mode != 8 && the_bit_mode != 16 &&
-        the_bit_mode != 32)
+    switch (the_bit_mode) {
+    case 4:
+    case 8:
+    case 12:
+    case 16:
+    case 32:
+        Beb_bit_mode = the_bit_mode;
+        return 1;
+    default:
         return 0;
-    Beb_bit_mode = the_bit_mode;
-    return 1;
+    }
 }
 
 int Beb_StopAcquisition() {
@@ -1061,19 +1095,19 @@ int *Beb_GetDetectorPosition() { return Beb_positions; }
 int Beb_SetDetectorPosition(int pos[]) {
     if (!Beb_activated)
         return OK;
-    LOG(logINFO, ("Got Position values %d %d...\n", pos[0], pos[1]));
+    LOG(logINFO, ("Setting Position: (%d, %d)\n", pos[X], pos[Y]));
 
     // save positions
-    Beb_positions[0] = pos[0];
-    Beb_positions[1] = pos[1];
+    Beb_positions[Y] = pos[Y];
+    Beb_positions[X] = pos[X];
 
     // get left and right
-    int posLeft[2] = {pos[0], Beb_top ? pos[1] : pos[1] + 1};
-    int posRight[2] = {pos[0], Beb_top ? pos[1] + 1 : pos[1]};
+    int posLeft[2] = {Beb_top ? pos[X] : pos[X] + 1, pos[Y]};
+    int posRight[2] = {Beb_top ? pos[X] + 1 : pos[X], pos[Y]};
 
     if (Beb_quadEnable) {
-        posRight[0] = 1; // right is next row
-        posRight[1] = 0; // right same first column
+        posRight[Y] = 1; // right is next row
+        posRight[X] = 0; // right same first column
     }
 
     int ret = FAIL;
@@ -1088,7 +1122,7 @@ int Beb_SetDetectorPosition(int pos[]) {
         uint32_t value = 0;
         ret = OK;
         // x left
-        int posval = Beb_swap_uint16(posLeft[0]);
+        int posval = Beb_swap_uint16(posLeft[Y]);
         value = Beb_Read32(csp0base, UDP_HEADER_A_LEFT_OFST);
         value &= UDP_HEADER_ID_MSK; // to keep previous id value
         Beb_Write32(csp0base, UDP_HEADER_A_LEFT_OFST,
@@ -1100,7 +1134,7 @@ int Beb_SetDetectorPosition(int pos[]) {
             ret = FAIL;
         }
         // x right
-        posval = Beb_swap_uint16(posRight[0]);
+        posval = Beb_swap_uint16(posRight[Y]);
         value = Beb_Read32(csp0base, UDP_HEADER_A_RIGHT_OFST);
         value &= UDP_HEADER_ID_MSK; // to keep previous id value
         Beb_Write32(csp0base, UDP_HEADER_A_RIGHT_OFST,
@@ -1113,7 +1147,7 @@ int Beb_SetDetectorPosition(int pos[]) {
         }
 
         // y left (column)
-        posval = Beb_swap_uint16(posLeft[1]);
+        posval = Beb_swap_uint16(posLeft[X]);
         value = Beb_Read32(csp0base, UDP_HEADER_B_LEFT_OFST);
         value &= UDP_HEADER_Z_MSK; // to keep previous z value
         Beb_Write32(csp0base, UDP_HEADER_B_LEFT_OFST,
@@ -1126,7 +1160,7 @@ int Beb_SetDetectorPosition(int pos[]) {
         }
 
         // y right
-        posval = Beb_swap_uint16(posRight[1]);
+        posval = Beb_swap_uint16(posRight[X]);
         value = Beb_Read32(csp0base, UDP_HEADER_B_RIGHT_OFST);
         value &= UDP_HEADER_Z_MSK; // to keep previous z value
         Beb_Write32(csp0base, UDP_HEADER_B_RIGHT_OFST,
@@ -1142,10 +1176,10 @@ int Beb_SetDetectorPosition(int pos[]) {
         Beb_close(fd, csp0base);
     }
     if (ret == OK) {
-        LOG(logINFO, ("Position set to...\n"
+        LOG(logINFO, ("Position set to (col, row):\n"
                       "\tLeft: [%d, %d]\n"
                       "\tRight:[%d, %d]\n",
-                      posLeft[0], posLeft[1], posRight[0], posRight[1]));
+                      posLeft[X], posLeft[Y], posRight[X], posRight[Y]));
     }
 
     return ret;
@@ -1225,20 +1259,20 @@ int Beb_GetNextFrameNumber(uint64_t *retval, int tengigaEnable) {
 
     else {
         uint64_t left10g =
-            Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_1G_LEFT_MSB_OFST);
-        temp = Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_1G_LEFT_LSB_OFST);
+            Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_10G_LEFT_MSB_OFST);
+        temp = Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_10G_LEFT_LSB_OFST);
         left10g = ((left10g << 32) | temp) >> 16;
         ++left10g; // increment for firmware
 
         uint64_t right10g =
-            Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_1G_LEFT_MSB_OFST);
-        temp = Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_1G_LEFT_LSB_OFST);
+            Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_10G_LEFT_MSB_OFST);
+        temp = Beb_Read32(csp0base, UDP_HEADER_GET_FNUM_10G_LEFT_LSB_OFST);
         right10g = ((right10g << 32) | temp) >> 16;
         Beb_close(fd, csp0base);
         ++right10g; // increment for firmware
 
         if (left10g != right10g) {
-            LOG(logERROR, ("Retrieved inconsistent frame numbers from `0g left "
+            LOG(logERROR, ("Retrieved inconsistent frame numbers from 10g left "
                            "%llu and right %llu\n",
                            (long long int)left10g, (long long int)right10g));
             *retval = (left10g > right10g)

slsDetectorServers/eigerDetectorServer/Beb.h

@@ -15,7 +15,7 @@ int Beb_SetHeaderData(uint64_t src_mac, uint32_t src_ip, uint16_t src_port,
                       uint64_t dst_mac, uint32_t dst_ip, uint16_t dst_port);
 void Beb_AdjustIPChecksum(struct udp_header_type *ip);
 
-void Beb_GetModuleConfiguration(int *master, int *top, int *normal);
+int Beb_GetModuleConfiguration(int *master, int *top, int *normal);
 int Beb_IsTransmitting(int *retval, int tengiga, int waitForDelay);
 
 void Beb_SetTopVariable(int val);

slsDetectorServers/eigerDetectorServer/CMakeLists.txt

@@ -16,91 +16,31 @@ include_directories(
     ../../slsSupportLib/include
 )
 
-add_executable(eigerDetectorServerMaster_virtual 
+add_executable(eigerDetectorServer_virtual 
     ${src}
 )
 
-target_include_directories(eigerDetectorServerMaster_virtual
+target_include_directories(eigerDetectorServer_virtual
     PUBLIC ${CMAKE_CURRENT_SOURCE_DIR}
 )
 
-target_compile_definitions(eigerDetectorServerMaster_virtual
-    PUBLIC EIGERD PCCOMPILE STOP_SERVER
-    PUBLIC VIRTUAL #VIRTUAL_9M
-    PUBLIC VIRTUAL_MASTER
-)
-
-target_link_libraries(eigerDetectorServerMaster_virtual
-    PUBLIC pthread rt slsProjectCSettings
-)
-
-set_target_properties(eigerDetectorServerMaster_virtual PROPERTIES
-    RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin
-)
-
-install(TARGETS eigerDetectorServerMaster_virtual 
-    RUNTIME  DESTINATION ${CMAKE_INSTALL_BINDIR}
-)
-
-
-
-
-
-add_executable(eigerDetectorServerSlaveTop_virtual 
-    ${src}
-)
-
-target_include_directories(eigerDetectorServerSlaveTop_virtual
-    PUBLIC ${CMAKE_CURRENT_SOURCE_DIR}
-)
-
-target_compile_definitions(eigerDetectorServerSlaveTop_virtual
-    PUBLIC EIGERD PCCOMPILE STOP_SERVER
-    PUBLIC VIRTUAL #VIRTUAL_9M
-    PUBLIC VIRTUAL_TOP
-)
-
-target_link_libraries(eigerDetectorServerSlaveTop_virtual
-    PUBLIC pthread rt slsProjectCSettings
-)
-
-set_target_properties(eigerDetectorServerSlaveTop_virtual PROPERTIES
-    RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin
-)
-
-install(TARGETS eigerDetectorServerSlaveTop_virtual
-    RUNTIME  DESTINATION ${CMAKE_INSTALL_BINDIR}
-)
-
-
-
-
-add_executable(eigerDetectorServerSlaveBottom_virtual 
-    ${src}
-)
-
-target_include_directories(eigerDetectorServerSlaveBottom_virtual
-    PUBLIC ${CMAKE_CURRENT_SOURCE_DIR}
-)
-
-target_compile_definitions(eigerDetectorServerSlaveBottom_virtual
+target_compile_definitions(eigerDetectorServer_virtual
     PUBLIC EIGERD PCCOMPILE STOP_SERVER
     PUBLIC VIRTUAL #VIRTUAL_9M
 )
 
-target_link_libraries(eigerDetectorServerSlaveBottom_virtual
+target_link_libraries(eigerDetectorServer_virtual
     PUBLIC pthread rt slsProjectCSettings
 )
 
-set_target_properties(eigerDetectorServerSlaveBottom_virtual PROPERTIES
+set_target_properties(eigerDetectorServer_virtual PROPERTIES
     RUNTIME_OUTPUT_DIRECTORY ${CMAKE_BINARY_DIR}/bin
 )
 
-install(TARGETS eigerDetectorServerSlaveBottom_virtual
+install(TARGETS eigerDetectorServer_virtual 
     RUNTIME  DESTINATION ${CMAKE_INSTALL_BINDIR}
 )
 
 
-
 configure_file(config_eiger.txt ${CMAKE_BINARY_DIR}/bin/config_eiger.txt COPYONLY)
 configure_file(detid_eiger.txt ${CMAKE_BINARY_DIR}/bin/detid_eiger.txt COPYONLY)

slsDetectorServers/eigerDetectorServer/FebControl.c

@@ -18,7 +18,7 @@
 const unsigned int Feb_Control_leftAddress = 0x100;
 const unsigned int Feb_Control_rightAddress = 0x200;
 
-int Feb_Control_master = 0;
+int Feb_Control_master = -1;
 int Feb_Control_normal = 0;
 int Feb_Control_activated = 1;
 
@@ -50,17 +50,16 @@ double ratemax = -1;
 // setup
 void Feb_Control_activate(int activate) { Feb_Control_activated = activate; }
 
-void Feb_Control_FebControl() {
-    Feb_Control_staticBits = Feb_Control_acquireNReadoutMode =
-        Feb_Control_triggerMode = Feb_Control_externalEnableMode =
-            Feb_Control_subFrameMode = 0;
+int Feb_Control_FebControl(int normal) {
+    Feb_Control_staticBits = 0;
+    Feb_Control_acquireNReadoutMode = 0;
+    Feb_Control_triggerMode = 0;
+    Feb_Control_externalEnableMode = 0;
+    Feb_Control_subFrameMode = 0;
     Feb_Control_trimbit_size = 263680;
     Feb_Control_last_downloaded_trimbits =
         malloc(Feb_Control_trimbit_size * sizeof(int));
-}
 
-int Feb_Control_Init(int master, int normal) {
-    Feb_Control_master = master;
     Feb_Control_normal = normal;
     Feb_Interface_SetAddress(Feb_Control_rightAddress, Feb_Control_leftAddress);
     if (Feb_Control_activated) {
@@ -931,7 +930,10 @@ unsigned int Feb_Control_ConvertTimeToRegister(float time_in_sec) {
 
 int Feb_Control_PrepareForAcquisition() {
     LOG(logINFOBLUE, ("Preparing for Acquisition\n"));
-    Feb_Control_PrintAcquisitionSetup();
+    if (!Feb_Control_PrintAcquisitionSetup()) {
+        LOG(logERROR, ("Could not prepare acquisition\n"));
+        return 0;
+    }
 
     if (Feb_Control_Reset() == STATUS_ERROR) {
         LOG(logERROR, ("Trouble reseting daq or data stream\n"));
@@ -988,20 +990,26 @@ int Feb_Control_PrepareForAcquisition() {
     return 1;
 }
 
-void Feb_Control_PrintAcquisitionSetup() {
+int Feb_Control_PrintAcquisitionSetup() {
     time_t rawtime;
     time(&rawtime);
     struct tm *timeinfo = localtime(&rawtime);
-    LOG(logINFO,
-        ("Starting an exposure: (%s)"
-         "\t Dynamic range nbits: %d\n"
-         "\t Trigger mode: 0x%x\n"
-         "\t Number of exposures: %d\n"
-         "\t Exsposure time (if used): %f seconds.\n"
-         "\t Exsposure period (if used): %f seconds.\n\n",
-         asctime(timeinfo), Feb_Control_GetDynamicRange(),
-         Feb_Control_triggerMode, Feb_Control_GetNExposures(),
-         Feb_Control_exposure_time_in_sec, Feb_Control_exposure_period_in_sec));
+    int dr = 0;
+    if (!Feb_Control_GetDynamicRange(&dr)) {
+        LOG(logERROR, ("Could not print acquisition set up\n"));
+        return 0;
+    }
+    LOG(logINFO, ("Starting an exposure: (%s)"
+                  "\t Dynamic range nbits: %d\n"
+                  "\t Trigger mode: 0x%x\n"
+                  "\t Number of exposures: %d\n"
+                  "\t Exsposure time (if used): %f seconds.\n"
+                  "\t Exsposure period (if used): %f seconds.\n\n",
+                  asctime(timeinfo), dr, Feb_Control_triggerMode,
+                  Feb_Control_GetNExposures(), Feb_Control_exposure_time_in_sec,
+                  Feb_Control_exposure_period_in_sec));
+
+    return 1;
 }
 
 int Feb_Control_StartAcquisition() {
@@ -1169,49 +1177,106 @@ int Feb_Control_SoftwareTrigger(int block) {
 }
 
 // parameters
-int Feb_Control_SetDynamicRange(unsigned int four_eight_sixteen_or_thirtytwo) {
+int Feb_Control_SetDynamicRange(int dr) {
     static unsigned int everything_but_bit_mode = DAQ_STATIC_BIT_PROGRAM |
                                                   DAQ_STATIC_BIT_CHIP_TEST |
                                                   DAQ_STATIC_BIT_ROTEST;
-    if (four_eight_sixteen_or_thirtytwo == 4) {
+    switch (dr) {
+    case 4:
         Feb_Control_staticBits =
             DAQ_STATIC_BIT_M4 |
             (Feb_Control_staticBits &
              everything_but_bit_mode); // leave test bits in currernt state
         Feb_Control_subFrameMode &= ~DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING;
-    } else if (four_eight_sixteen_or_thirtytwo == 8) {
+        break;
+    case 8:
         Feb_Control_staticBits = DAQ_STATIC_BIT_M8 | (Feb_Control_staticBits &
                                                       everything_but_bit_mode);
         Feb_Control_subFrameMode &= ~DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING;
-    } else if (four_eight_sixteen_or_thirtytwo == 16) {
+        break;
+    case 12:
+    case 16:
         Feb_Control_staticBits = DAQ_STATIC_BIT_M12 | (Feb_Control_staticBits &
                                                        everything_but_bit_mode);
         Feb_Control_subFrameMode &= ~DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING;
-    } else if (four_eight_sixteen_or_thirtytwo == 32) {
+
+        // disable 16 bit conversion if 12 bit mode  (enable if 16 bit)
+        if (!Feb_Control_Disable16bitConversion(dr == 12))
+            return 0;
+        break;
+    case 32:
         Feb_Control_staticBits = DAQ_STATIC_BIT_M12 | (Feb_Control_staticBits &
                                                        everything_but_bit_mode);
         Feb_Control_subFrameMode |= DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING;
-    } else {
-        LOG(logERROR, ("dynamic range (%d) not valid, not setting bit mode.\n",
-                       four_eight_sixteen_or_thirtytwo));
+        break;
+    default:
+        LOG(logERROR,
+            ("dynamic range (%d) not valid, not setting bit mode.\n", dr));
         LOG(logINFO, ("Set dynamic range int must equal 4,8 16, or 32.\n"));
         return 0;
     }
 
-    LOG(logINFO,
-        ("Dynamic range set to %d\n", four_eight_sixteen_or_thirtytwo));
+    LOG(logINFO, ("Dynamic range set to %d\n", dr));
     return 1;
 }
 
-unsigned int Feb_Control_GetDynamicRange() {
-    if (Feb_Control_subFrameMode & DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING)
-        return 32;
-    else if (DAQ_STATIC_BIT_M4 & Feb_Control_staticBits)
-        return 4;
-    else if (DAQ_STATIC_BIT_M8 & Feb_Control_staticBits)
-        return 8;
+int Feb_Control_GetDynamicRange(int *retval) {
+    if (Feb_Control_subFrameMode & DAQ_NEXPOSURERS_ACTIVATE_AUTO_SUBIMAGING) {
+        *retval = 32;
+    } else if (DAQ_STATIC_BIT_M4 & Feb_Control_staticBits) {
+        *retval = 4;
+    } else if (DAQ_STATIC_BIT_M8 & Feb_Control_staticBits) {
+        *retval = 8;
+    } else {
+        int disable16 = 0;
+        if (!Feb_Control_Get16bitConversionDisabled(&disable16)) {
+            LOG(logERROR, ("Could not get dynamic range (12 or 16 bit)\n"));
+            return 0;
+        }
+        if (disable16) {
+            *retval = 12;
+        } else {
+            *retval = 16;
+        }
+    }
 
-    return 16;
+    return 1;
+}
+
+int Feb_Control_Disable16bitConversion(int disable) {
+    LOG(logINFO, ("%s 16 bit expansion\n", disable ? "Disabling" : "Enabling"));
+    unsigned int regval = 0;
+    if (!Feb_Control_ReadRegister(DAQ_REG_HRDWRE, &regval)) {
+        LOG(logERROR, ("Could not %s 16 bit expansion (bit mode)\n",
+                       (disable ? "disable" : "enable")));
+        return 0;
+    }
+    if (disable) {
+        regval |= DAQ_REG_HRDWRE_DSBL_16BIT_MSK;
+    } else {
+        regval &= ~DAQ_REG_HRDWRE_DSBL_16BIT_MSK;
+    }
+
+    if (!Feb_Control_WriteRegister(DAQ_REG_HRDWRE, regval)) {
+        LOG(logERROR, ("Could not %s 16 bit expansion (bit mode)\n",
+                       (disable ? "disable" : "enable")));
+        return 0;
+    }
+    return 1;
+}
+
+int Feb_Control_Get16bitConversionDisabled(int *ret) {
+    unsigned int regval = 0;
+    if (!Feb_Control_ReadRegister(DAQ_REG_HRDWRE, &regval)) {
+        LOG(logERROR, ("Could not get 16 bit expansion (bit mode)\n"));
+        return 0;
+    }
+    if (regval & DAQ_REG_HRDWRE_DSBL_16BIT_MSK) {
+        *ret = 1;
+    } else {
+        *ret = 0;
+    }
+    return 1;
 }
 
 int Feb_Control_SetReadoutSpeed(unsigned int readout_speed) {
@@ -1490,9 +1555,8 @@ int Feb_Control_SetTop(enum TOPINDEX ind, int left, int right) {
     return 1;
 }
 
-void Feb_Control_SetMasterVariable(int val) { Feb_Control_master = val; }
-
 int Feb_Control_SetMaster(enum MASTERINDEX ind) {
+
     uint32_t offset = DAQ_REG_HRDWRE;
     unsigned int addr[2] = {Feb_Control_leftAddress, Feb_Control_rightAddress};
     char *master_names[] = {MASTER_NAMES};
@@ -1529,9 +1593,31 @@ int Feb_Control_SetMaster(enum MASTERINDEX ind) {
     LOG(logINFOBLUE, ("%s Master flag to %s Feb\n",
                       (ind == MASTER_HARDWARE ? "Resetting" : "Overwriting"),
                       master_names[ind]));
+
     return 1;
 }
 
+int Feb_Control_SetMasterEffects(int master, int controlServer) {
+    int prevMaster = Feb_Control_master;
+
+    Feb_Control_master = master;
+    // change in master for 9m
+    if (controlServer && prevMaster != Feb_Control_master &&
+        !Feb_Control_normal) {
+        if (prevMaster) {
+            Feb_Control_CloseSerialCommunication();
+        }
+        if (Feb_Control_master) {
+            if (!Feb_Control_OpenSerialCommunication()) {
+                LOG(logERROR, ("Could not intitalize feb control serial "
+                               "communication\n"));
+                return FAIL;
+            }
+        }
+    }
+    return OK;
+}
+
 int Feb_Control_SetQuad(int val) {
     LOG(logINFO, ("Setting Quad to %d in Feb\n", val));
     Feb_Control_quadMode = val;
@@ -1554,7 +1640,10 @@ int Feb_Control_SetChipSignalsToTrimQuad(int enable) {
             regval &= ~(DAQ_REG_HRDWRE_PROGRAM_MSK | DAQ_REG_HRDWRE_M8_MSK);
         }
 
-        return Feb_Control_WriteRegister(DAQ_REG_HRDWRE, regval);
+        if (!Feb_Control_WriteRegister(DAQ_REG_HRDWRE, regval)) {
+            LOG(logERROR, ("Could not set chip signals to trim quad\n"));
+            return 0;
+        }
     }
     return 1;
 }
@@ -1604,7 +1693,7 @@ int Feb_Control_WriteRegister(uint32_t offset, uint32_t data) {
 
     for (int iloop = 0; iloop < 2; ++iloop) {
         if (run[iloop]) {
-            LOG(logINFO,
+            LOG(logDEBUG1,
                 ("Writing 0x%x to %s 0x%x\n", data, side[iloop], actualOffset));
             if (!Feb_Interface_WriteRegister(addr[iloop], actualOffset, data, 0,
                                              0)) {
@@ -1612,6 +1701,18 @@ int Feb_Control_WriteRegister(uint32_t offset, uint32_t data) {
                                side[iloop], actualOffset));
                 return 0;
             }
+            uint32_t regVal = 0;
+            if (!Feb_Interface_ReadRegister(addr[iloop], actualOffset,
+                                            &regVal)) {
+                LOG(logERROR, ("Could not read %s register\n", addr[iloop]));
+                return 0;
+            }
+            if (regVal != data) {
+                LOG(logERROR,
+                    ("Could not write %s register. Write 0x%x, read 0x%x\n",
+                     addr[iloop], data, regVal));
+                return 0;
+            }
         }
     }
 
@@ -1648,8 +1749,8 @@ int Feb_Control_ReadRegister(uint32_t offset, uint32_t *retval) {
                                side[iloop], actualOffset));
                 return 0;
             }
-            LOG(logINFO, ("Read 0x%x from %s 0x%x\n", value[iloop], side[iloop],
-                          actualOffset));
+            LOG(logDEBUG1, ("Read 0x%x from %s 0x%x\n", value[iloop],
+                            side[iloop], actualOffset));
             *retval = value[iloop];
             // if not the other (left, not right OR right, not left), return the
             // value
@@ -1824,7 +1925,11 @@ int64_t Feb_Control_Get_RateTable_Period_in_nsec() {
 
 int Feb_Control_SetRateCorrectionTau(int64_t tau_in_Nsec) {
     // period = exptime if 16bit, period = subexptime if 32 bit
-    int dr = Feb_Control_GetDynamicRange();
+    int dr = 0;
+    if (!Feb_Control_GetDynamicRange(&dr)) {
+        LOG(logERROR, ("Could not set rate correction tau\n"));
+        return 0;
+    }
     double period_in_sec =
         (double)(Feb_Control_GetSubFrameExposureTime()) / (double)1e9;
     if (dr == 16)

slsDetectorServers/eigerDetectorServer/FebControl.h

@@ -7,8 +7,7 @@
 
 // setup
 void Feb_Control_activate(int activate);
-void Feb_Control_FebControl();
-int Feb_Control_Init(int master, int normal);
+int Feb_Control_FebControl(int normal);
 int Feb_Control_OpenSerialCommunication();
 void Feb_Control_CloseSerialCommunication();
 int Feb_Control_CheckSetup();
@@ -55,7 +54,7 @@ int Feb_Control_ResetChipPartially();
 int Feb_Control_SendBitModeToBebServer();
 unsigned int Feb_Control_ConvertTimeToRegister(float time_in_sec);
 int Feb_Control_PrepareForAcquisition();
-void Feb_Control_PrintAcquisitionSetup();
+int Feb_Control_PrintAcquisitionSetup();
 int Feb_Control_StartAcquisition();
 int Feb_Control_StopAcquisition();
 int Feb_Control_IsReadyForTrigger(int *readyForTrigger);
@@ -63,8 +62,10 @@ int Feb_Control_SendSoftwareTrigger();
 int Feb_Control_SoftwareTrigger(int block);
 
 // parameters
-int Feb_Control_SetDynamicRange(unsigned int four_eight_sixteen_or_thirtytwo);
-unsigned int Feb_Control_GetDynamicRange();
+int Feb_Control_SetDynamicRange(int dr);
+int Feb_Control_GetDynamicRange(int *retval);
+int Feb_Control_Disable16bitConversion(int disable);
+int Feb_Control_Get16bitConversionDisabled();
 int Feb_Control_SetReadoutSpeed(unsigned int readout_speed);
 int Feb_Control_SetReadoutMode(unsigned int readout_mode);
 int Feb_Control_SetTriggerMode(unsigned int trigger_mode);
@@ -86,8 +87,8 @@ int Feb_Control_Get_Counter_Bit();
 int Feb_Control_SetInterruptSubframe(int val);
 int Feb_Control_GetInterruptSubframe();
 int Feb_Control_SetTop(enum TOPINDEX ind, int left, int right);
-void Feb_Control_SetMasterVariable(int val);
 int Feb_Control_SetMaster(enum MASTERINDEX ind);
+int Feb_Control_SetMasterEffects(int master, int controlServer);
 int Feb_Control_SetQuad(int val);
 int Feb_Control_SetChipSignalsToTrimQuad(int enable);
 int Feb_Control_SetReadNRows(int value);

slsDetectorServers/eigerDetectorServer/FebRegisterDefs.h

@@ -29,6 +29,8 @@
 #define DAQ_REG_HRDWRE_OW_MASTER_MSK   (0x00000001 << DAQ_REG_HRDWRE_OW_MASTER_OFST)
 #define DAQ_REG_HRDWRE_MASTER_OFST     (4)
 #define DAQ_REG_HRDWRE_MASTER_MSK      (0x00000001 << DAQ_REG_HRDWRE_MASTER_OFST)
+#define DAQ_REG_HRDWRE_DSBL_16BIT_OFST (5)
+#define DAQ_REG_HRDWRE_DSBL_16BIT_MSK  (0x00000001 << DAQ_REG_HRDWRE_DSBL_16BIT_OFST)
 #define DAQ_REG_HRDWRE_PROGRAM_OFST    (30)
 #define DAQ_REG_HRDWRE_PROGRAM_MSK     (0x00000001 << DAQ_REG_HRDWRE_PROGRAM_OFST)
 #define DAQ_REG_HRDWRE_M8_OFST         (31)

slsDetectorServers/eigerDetectorServer/slsDetectorServer_defs.h

@@ -5,7 +5,7 @@
 
 #define LINKED_SERVER_NAME "eigerDetectorServer"
 
-#define REQUIRED_FIRMWARE_VERSION (29)
+#define REQUIRED_FIRMWARE_VERSION (30)
 // virtual ones renamed for consistency
 // real ones keep previous name for compatibility (already in production)
 #ifdef VIRTUAL

slsDetectorServers/gotthard2DetectorServer/slsDetectorFunctionList.c

@@ -28,12 +28,16 @@ extern int updateFlag;
 extern int checkModuleFlag;
 extern udpStruct udpDetails[MAX_UDP_DESTINATION];
 extern const enum detectorType myDetectorType;
+extern int ignoreConfigFileFlag;
 
 // Global variable from communication_funcs.c
 extern int isControlServer;
 extern void getMacAddressinString(char *cmac, int size, uint64_t mac);
 extern void getIpAddressinString(char *cip, uint32_t ip);
 
+// Variables that will be exported
+int masterCommandLine = -1;
+
 int initError = OK;
 int initCheckDone = 0;
 char initErrorMessage[MAX_STR_LENGTH];
@@ -69,6 +73,7 @@ int64_t burstPeriodReg = 0;
 int filterResistor = 0;
 int cdsGain = 0;
 int detPos[2] = {};
+int master = 1;
 
 int isInitCheckDone() { return initCheckDone; }
 
@@ -295,6 +300,18 @@ void setModuleId(int modid) {
           bus_r(MOD_ID_REG) | ((modid << MOD_ID_OFST) & MOD_ID_MSK));
 }
 
+int updateModuleId() {
+    int modid = getModuleIdInFile(&initError, initErrorMessage, ID_FILE);
+    if (initError == FAIL) {
+        return FAIL;
+    }
+#ifdef VIRTUAL
+    virtual_moduleid = modid;
+#endif
+    setModuleId(modid);
+    return OK;
+}
+
 u_int64_t getDetectorMAC() {
 #ifdef VIRTUAL
     return 0;
@@ -358,16 +375,27 @@ void initControlServer() {
 }
 
 void initStopServer() {
-
-    usleep(CTRL_SRVR_INIT_TIME_US);
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        LOG(logINFOBLUE, ("Configuring Stop server\n"));
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
+        sharedMemory_setStop(0);
+        // not reading config file (nothing of interest to stop server)
+        if (checkCommandLineConfiguration() == FAIL) {
+            initCheckDone = 1;
+            return;
+        }
 #endif
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -480,15 +508,13 @@ void setupDetector() {
         return;
     }
 
-    // set module id in register
-    int modid = getModuleIdInFile(&initError, initErrorMessage, ID_FILE);
-#ifdef VIRTUAL
-    virtual_moduleid = modid;
-#endif
-    if (initError == FAIL) {
+    // master for virtual
+    if (checkCommandLineConfiguration() == FAIL)
+        return;
+
+    if (updateModuleId() == FAIL) {
         return;
     }
-    setModuleId(modid);
 
     setBurstMode(DEFAULT_BURST_MODE);
     setFilterResistor(DEFAULT_FILTER_RESISTOR);
@@ -600,6 +626,11 @@ int readConfigFile() {
         return initError;
     }
 
+    if (ignoreConfigFileFlag) {
+        LOG(logWARNING, ("Ignoring Config file\n"));
+        return OK;
+    }
+
     // require a sleep before and after the rst dac signal
     usleep(INITIAL_STARTUP_WAIT);
 
@@ -924,6 +955,21 @@ int readConfigFile() {
     return initError;
 }
 
+int checkCommandLineConfiguration() {
+    if (masterCommandLine != -1) {
+#ifdef VIRTUAL
+        master = masterCommandLine;
+#else
+        initError = FAIL;
+        strcpy(initErrorMessage,
+               "Cannot set Master from command line for this detector. "
+               "Should have been caught before!\n");
+        return FAIL;
+#endif
+    }
+    return OK;
+}
+
 /* firmware functions (resets) */
 
 void cleanFifos() {
@@ -952,7 +998,16 @@ void resetPeripheral() {
 
 /* set parameters -  dr, roi */
 
-int setDynamicRange(int dr) { return DYNAMIC_RANGE; }
+int setDynamicRange(int dr) {
+    if (dr == 16)
+        return OK;
+    return FAIL;
+}
+
+int getDynamicRange(int *retval) {
+    *retval = DYNAMIC_RANGE;
+    return OK;
+}
 
 /* parameters - timer */
 void setNumFrames(int64_t val) {
@@ -1442,6 +1497,11 @@ int setHighVoltage(int val) {
 
 /* parameters - timing */
 
+int isMaster(int *retval) {
+    *retval = master;
+    return OK;
+}
+
 void updatingRegisters() {
     LOG(logINFO, ("\tUpdating registers\n"));
     // burst
@@ -1857,7 +1917,7 @@ int setDetectorPosition(int pos[]) {
     int ret = OK;
 
     // row
-    value = detPos[X];
+    value = detPos[Y];
     bus_w(addr, (bus_r(addr) & ~COORD_ROW_MSK) |
                     ((value << COORD_ROW_OFST) & COORD_ROW_MSK));
     valueRead = ((bus_r(addr) & COORD_ROW_MSK) >> COORD_ROW_OFST);
@@ -1868,7 +1928,7 @@ int setDetectorPosition(int pos[]) {
     }
 
     // col
-    value = detPos[Y];
+    value = detPos[X];
     bus_w(addr, (bus_r(addr) & ~COORD_COL_MSK) |
                     ((value << COORD_COL_OFST) & COORD_COL_MSK));
     valueRead = ((bus_r(addr) & COORD_COL_MSK) >> COORD_COL_OFST);
@@ -1879,7 +1939,8 @@ int setDetectorPosition(int pos[]) {
     }
 
     if (ret == OK) {
-        LOG(logINFO, ("\tPosition set to [%d, %d]\n", detPos[X], detPos[Y]));
+        LOG(logINFO,
+            ("\tPosition set to [%d, %d] #(col, row)\n", detPos[X], detPos[Y]));
     }
 
     return ret;
@@ -1921,9 +1982,17 @@ int checkDetectorType() {
         return -2;
     }
 
-    if ((abs(type - TYPE_GOTTHARD2_MODULE_VAL) > TYPE_TOLERANCE) &&
-        (abs(type - TYPE_GOTTHARD2_25UM_MASTER_MODULE_VAL) > TYPE_TOLERANCE) &&
-        (abs(type - TYPE_GOTTHARD2_25UM_SLAVE_MODULE_VAL) > TYPE_TOLERANCE)) {
+    if (abs(type - TYPE_GOTTHARD2_25UM_MASTER_MODULE_VAL) <= TYPE_TOLERANCE) {
+        LOG(logINFOBLUE, ("MASTER 25um Module\n"));
+        master = 1;
+    } else if (abs(type - TYPE_GOTTHARD2_25UM_SLAVE_MODULE_VAL) <=
+               TYPE_TOLERANCE) {
+        master = 0;
+        LOG(logINFOBLUE, ("SLAVE 25um Module\n"));
+    } else if (abs(type - TYPE_GOTTHARD2_MODULE_VAL) <= TYPE_TOLERANCE) {
+        master = -1;
+        LOG(logINFOBLUE, ("50um Module\n"));
+    } else {
         LOG(logERROR,
             ("Wrong Module attached! Expected %d, %d or %d for Gotthard2, got "
              "%d\n",
@@ -2228,6 +2297,24 @@ int setClockDivider(enum CLKINDEX ind, int val) {
             setPhase(i, oldPhases[i], 1);
         }
     }
+
+    // update system frequency and time settings that depend on it
+    if (ind == SYSTEM_C0) {
+        LOG(logINFO, ("\tUpdating time settings (sys freq change)\n"));
+        int64_t exptime = getExpTime();
+        int64_t period = getPeriod();
+        int64_t delayAfterTrigger = getDelayAfterTrigger();
+        int64_t burstPeriod = getBurstPeriod();
+        
+        systemFrequency = ((double)getVCOFrequency(SYSTEM_C0) /
+                        (double)clkDivider[SYSTEM_C0]);
+
+        setExpTime(exptime);
+        setPeriod(period);
+        setDelayAfterTrigger(delayAfterTrigger);
+        setBurstPeriod(burstPeriod);
+        LOG(logINFO, ("\tDone updating time settings\n"));
+    }
     return OK;
 }
 
@@ -2729,13 +2816,10 @@ void setTimingSource(enum timingSourceType value) {
     case TIMING_INTERNAL:
         LOG(logINFO, ("Setting timing source to internal\n"));
         bus_w(addr, (bus_r(addr) & ~CONTROL_TIMING_SOURCE_EXT_MSK));
-        systemFrequency = INT_SYSTEM_C0_FREQUENCY;
         break;
     case TIMING_EXTERNAL:
         LOG(logINFO, ("Setting timing source to exernal\n"));
         bus_w(addr, (bus_r(addr) | CONTROL_TIMING_SOURCE_EXT_MSK));
-        systemFrequency = ((double)getVCOFrequency(SYSTEM_C0) /
-                           (double)clkDivider[SYSTEM_C0]);
         break;
     default:
         LOG(logERROR, ("Unknown timing source %d\n", value));
@@ -3027,8 +3111,8 @@ void *start_timer(void *arg) {
             header->frameNumber = virtual_currentFrameNumber;
             header->packetNumber = 0;
             header->modId = virtual_moduleid;
-            header->row = detPos[X];
-            header->column = detPos[Y];
+            header->row = detPos[Y];
+            header->column = detPos[X];
             // fill data
             memcpy(packetData + sizeof(sls_detector_header), imageData,
                    datasize);

slsDetectorServers/gotthardDetectorServer/slsDetectorFunctionList.c

@@ -25,9 +25,11 @@ extern int debugflag;
 extern int updateFlag;
 extern udpStruct udpDetails[MAX_UDP_DESTINATION];
 extern const enum detectorType myDetectorType;
+extern int ignoreConfigFileFlag;
 
 // Variables that will be exported
 int phaseShift = DEFAULT_PHASE_SHIFT;
+int masterCommandLine = -1;
 
 // Global variable from communication_funcs.c
 extern int isControlServer;
@@ -359,16 +361,28 @@ void initControlServer() {
 }
 
 void initStopServer() {
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        LOG(logINFOBLUE, ("Configuring Stop server\n"));
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
+        sharedMemory_setStop(0);
 #endif
-    // to get master from file
-    readConfigFile();
+        // to get master from file
+        if (readConfigFile() == FAIL ||
+            checkCommandLineConfiguration() == FAIL) {
+            initCheckDone = 1;
+            return;
+        }
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -418,9 +432,18 @@ void setupDetector() {
     // roi, gbit readout
     rois.xmin = -1;
     rois.xmax = -1;
+    rois.ymin = -1;
+    rois.ymax = -1;
     setROI(rois); // set adcsyncreg, daqreg, chipofinterestreg, cleanfifos,
     setGbitReadout();
 
+    // no config file or not first time server
+    if (readConfigFile() == FAIL)
+        return;
+
+    if (checkCommandLineConfiguration() == FAIL)
+        return;
+
     // master, slave (25um)
     setMasterSlaveConfiguration();
 
@@ -624,6 +647,16 @@ void setGbitReadout() {
 }
 
 int readConfigFile() {
+
+    if (initError == FAIL) {
+        return initError;
+    }
+
+    if (ignoreConfigFileFlag) {
+        LOG(logWARNING, ("Ignoring Config file\n"));
+        return OK;
+    }
+
     const int fileNameSize = 128;
     char fname[fileNameSize];
     if (getAbsPath(fname, fileNameSize, CONFIG_FILE) == FAIL) {
@@ -647,7 +680,6 @@ int readConfigFile() {
     memset(key, 0, keySize);
     char value[keySize];
     memset(value, 0, keySize);
-    int scan = OK;
 
     // keep reading a line
     while (fgets(line, lineSize, fd)) {
@@ -667,19 +699,22 @@ int readConfigFile() {
                 master = 0;
                 LOG(logINFOBLUE, ("\tSlave or No Master\n"));
             } else {
-                LOG(logERROR,
-                    ("\tCould not scan masterflags %s value from config file\n",
-                     value));
-                scan = FAIL;
-                break;
+                initError = FAIL;
+                sprintf(
+                    initErrorMessage,
+                    "Could not scan masterflags %s value from config file\n",
+                    value);
+                LOG(logERROR, (initErrorMessage))
+                fclose(fd);
+                return FAIL;
             }
 
             // not first server since detector power on
             if (!detectorFirstServer) {
-                LOG(logINFOBLUE, ("\tServer has been started up before. "
-                                  "Ignoring rest of config file\n"));
+                LOG(logWARNING, ("\tServer has been started up before. "
+                                 "Ignoring rest of config file\n"));
                 fclose(fd);
-                return FAIL;
+                return OK;
             }
         }
 
@@ -688,11 +723,14 @@ int readConfigFile() {
             // convert value to int
             int ival = 0;
             if (sscanf(value, "%d", &ival) <= 0) {
-                LOG(logERROR, ("\tCould not scan parameter %s value %s from "
-                               "config file\n",
-                               key, value));
-                scan = FAIL;
-                break;
+                initError = FAIL;
+                sprintf(initErrorMessage,
+                        "Could not scan parameter %s value %s from "
+                        "config file\n",
+                        key, value);
+                LOG(logERROR, (initErrorMessage))
+                fclose(fd);
+                return FAIL;
             }
             // set value
             if (!strcasecmp(key, "masterdefaultdelay"))
@@ -710,16 +748,16 @@ int readConfigFile() {
             else if (!strcasecmp(key, "startacqdelay"))
                 startacqdelay = ival;
             else {
-                LOG(logERROR,
-                    ("\tCould not scan parameter %s from config file\n", key));
-                scan = FAIL;
-                break;
+                initError = FAIL;
+                sprintf(initErrorMessage,
+                        "Could not scan parameter %s from config file\n", key);
+                LOG(logERROR, (initErrorMessage))
+                fclose(fd);
+                return FAIL;
             }
         }
     }
     fclose(fd);
-    if (scan == FAIL)
-        exit(EXIT_FAILURE);
 
     LOG(logINFOBLUE,
         ("\tmasterdefaultdelay:%d\n"
@@ -734,13 +772,28 @@ int readConfigFile() {
     return OK;
 }
 
+int checkCommandLineConfiguration() {
+    if (masterCommandLine != -1) {
+#ifdef VIRTUAL
+        master = masterCommandLine;
+#else
+        initError = FAIL;
+        strcpy(initErrorMessage,
+               "Cannot set Master from command line for this detector. "
+               "Should have been caught before!\n");
+        return FAIL;
+#endif
+    }
+    return OK;
+}
+
 void setMasterSlaveConfiguration() {
-    LOG(logINFO, ("Reading Master Slave Configuration\n"));
-
-    // no config file or not first time server
-    if (readConfigFile() == FAIL)
+    // not the first time its being read
+    if (!detectorFirstServer) {
         return;
+    }
 
+    LOG(logINFO, ("Reading Master Slave Configuration\n"));
     // master configuration
     if (master) {
         // master default delay set, so reset delay
@@ -788,7 +841,16 @@ void setMasterSlaveConfiguration() {
 
 /* set parameters -  dr, roi */
 
-int setDynamicRange(int dr) { return DYNAMIC_RANGE; }
+int setDynamicRange(int dr) {
+    if (dr == 16)
+        return OK;
+    return FAIL;
+}
+
+int getDynamicRange(int *retval) {
+    *retval = DYNAMIC_RANGE;
+    return OK;
+}
 
 int setROI(ROI arg) {
 
@@ -797,8 +859,10 @@ int setROI(ROI arg) {
         LOG(logINFO, ("Clearing ROI\n"));
         rois.xmin = -1;
         rois.xmax = -1;
+        rois.ymin = -1;
+        rois.ymax = -1;
     } else {
-        LOG(logINFO, ("Setting ROI:(%d, %d)\n", arg.xmin, arg.xmax));
+        LOG(logINFO, ("Setting ROI:(%d, %d, %d, %d)\n", arg.xmin, arg.xmax, arg.ymin, arg.ymax));
         // validation
         // xmin divisible by 256 and less than 1280
         if (((arg.xmin % NCHAN_PER_ADC) != 0) ||
@@ -832,7 +896,7 @@ ROI getROI() {
     if (rois.xmin == -1) {
         LOG(logINFO, ("\tROI: None\n"));
     } else {
-        LOG(logINFO, ("ROI: (%d,%d)\n", rois.xmin, rois.xmax));
+        LOG(logINFO, ("ROI: (%d,%d,%d,%d)\n", rois.xmin, rois.xmax, rois.ymin, rois.ymax));
     }
     return rois;
 }
@@ -1238,7 +1302,10 @@ int setHighVoltage(int val) {
 
 /* parameters - timing, extsig */
 
-int isMaster() { return master; }
+int isMaster(int *retval) {
+    *retval = master;
+    return OK;
+}
 
 void setTiming(enum timingMode arg) {
     u_int32_t addr = EXT_SIGNAL_REG;

slsDetectorServers/jungfrauDetectorServer/CMakeLists.txt

@@ -25,7 +25,7 @@ target_include_directories(jungfrauDetectorServer_virtual
 )
 
 target_compile_definitions(jungfrauDetectorServer_virtual
-    PUBLIC JUNGFRAUD VIRTUAL STOP_SERVER
+    PUBLIC JUNGFRAUD VIRTUAL STOP_SERVER #TEST_MOD_GEOMETRY
 )
 
 target_link_libraries(jungfrauDetectorServer_virtual

slsDetectorServers/jungfrauDetectorServer/slsDetectorFunctionList.c

@@ -21,13 +21,14 @@
 #include <pthread.h>
 #include <time.h>
 #endif
-
+extern int portno;
 // Global variable from slsDetectorServer_funcs
 extern int debugflag;
 extern int updateFlag;
 extern udpStruct udpDetails[MAX_UDP_DESTINATION];
 extern int numUdpDestinations;
 extern const enum detectorType myDetectorType;
+extern int ignoreConfigFileFlag;
 
 // Global variable from communication_funcs.c
 extern int isControlServer;
@@ -392,19 +393,29 @@ void initControlServer() {
 }
 
 void initStopServer() {
-
-    usleep(CTRL_SRVR_INIT_TIME_US);
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        LOG(logINFOBLUE, ("Configuring Stop server\n"));
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
+        if (readConfigFile() == FAIL) {
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
-    // temp threshold and reset event (read by stop server)
-    setThresholdTemperature(DEFAULT_TMP_THRSHLD);
-    setTemperatureEvent(0);
+        sharedMemory_setStop(0);
+        // temp threshold and reset event (read by stop server)
+        setThresholdTemperature(DEFAULT_TMP_THRSHLD);
+        setTemperatureEvent(0);
 #endif
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -643,6 +654,11 @@ int readConfigFile() {
         return initError;
     }
 
+    if (ignoreConfigFileFlag) {
+        LOG(logWARNING, ("Ignoring Config file\n"));
+        return OK;
+    }
+
     const int fileNameSize = 128;
     char fname[fileNameSize];
     if (getAbsPath(fname, fileNameSize, CONFIG_FILE) == FAIL) {
@@ -796,7 +812,16 @@ void resetPeripheral() {
 
 /* set parameters -  dr, roi */
 
-int setDynamicRange(int dr) { return DYNAMIC_RANGE; }
+int setDynamicRange(int dr) {
+    if (dr == 16)
+        return OK;
+    return FAIL;
+}
+
+int getDynamicRange(int *retval) {
+    *retval = DYNAMIC_RANGE;
+    return OK;
+}
 
 void setADCInvertRegister(uint32_t val) {
     LOG(logINFO, ("Setting ADC Port Invert Reg to 0x%x\n", val));
@@ -1596,6 +1621,7 @@ int configureMAC() {
 
 int setDetectorPosition(int pos[]) {
     int ret = OK;
+    // row, col
     uint32_t innerPos[2] = {pos[X], pos[Y]};
     uint32_t outerPos[2] = {pos[X], pos[Y]};
     int selInterface = getPrimaryInterface();
@@ -1605,15 +1631,16 @@ int setDetectorPosition(int pos[]) {
             ("Setting detector position: 1 Interface %s \n(%d, %d)\n",
              (selInterface ? "Inner" : "Outer"), innerPos[X], innerPos[Y]));
     } else {
-        ++outerPos[X];
+        // top has row incremented by 1
+        ++innerPos[Y];
         LOG(logDEBUG, ("Setting detector position: 2 Interfaces \n"
                        "  inner top(%d, %d), outer bottom(%d, %d)\n",
                        innerPos[X], innerPos[Y], outerPos[X], outerPos[Y]));
     }
-    detPos[0] = innerPos[0];
-    detPos[1] = innerPos[1];
-    detPos[2] = outerPos[0];
-    detPos[3] = outerPos[1];
+    detPos[0] = innerPos[X];
+    detPos[1] = innerPos[Y];
+    detPos[2] = outerPos[X];
+    detPos[3] = outerPos[Y];
 
     // row
     // outer
@@ -1651,8 +1678,8 @@ int setDetectorPosition(int pos[]) {
 
     if (ret == OK) {
         if (getNumberofUDPInterfaces() == 1) {
-            LOG(logINFOBLUE,
-                ("Position set to [%d, %d]\n", innerPos[X], innerPos[Y]));
+            LOG(logINFOBLUE, ("Position set to [%d, %d] #(col, row)\n",
+                              innerPos[X], innerPos[Y]));
         } else {
             LOG(logINFOBLUE, (" Inner (top) position set to [%d, %d]\n",
                               innerPos[X], innerPos[Y]));
@@ -1675,7 +1702,7 @@ int setReadNRows(int value) {
     }
     if (isHardwareVersion2()) {
         LOG(logERROR, ("Could not set number of rows. Only available for "
-                    "Hardware Board version 2.0.\n"));
+                       "Hardware Board version 2.0.\n"));
         return FAIL;
     }
 
@@ -2175,7 +2202,7 @@ int getFlipRows() {
 void setFlipRows(int arg) {
     if (isHardwareVersion2()) {
         LOG(logERROR, ("Could not set flip rows. Only available for "
-                "Hardware Board version 2.0.\n"));
+                       "Hardware Board version 2.0.\n"));
         return;
     }
     if (arg >= 0) {
@@ -2506,8 +2533,16 @@ void *start_timer(void *arg) {
             if (i > 0 && i % pixelsPerPacket == 0) {
                 ++pixelVal;
             }
+// to debug multi module geometry (row, column) in virtual servers (all pixels
+// in a module set to particular value)
+#ifdef TEST_MOD_GEOMETRY
+            *((uint16_t *)(imageData + i * sizeof(uint16_t))) =
+                portno % 1900 + (i >= npixels / 2 ? 1 : 0);
+#else
             *((uint16_t *)(imageData + i * sizeof(uint16_t))) =
                 virtual_image_test_mode ? 0x0FFE : (uint16_t)pixelVal;
+
+#endif
         }
     }
 
@@ -2532,6 +2567,10 @@ void *start_timer(void *arg) {
 
             int srcOffset = 0;
             int srcOffset2 = DATA_BYTES / 2;
+            int row0 = (numInterfaces == 1 ? detPos[1] : detPos[3]);
+            int col0 = (numInterfaces == 1 ? detPos[0] : detPos[2]);
+            int row1 = detPos[1];
+            int col1 = detPos[0];
             // loop packet (128 packets)
             for (int i = 0; i != maxPacketsPerFrame; ++i) {
 
@@ -2551,8 +2590,8 @@ void *start_timer(void *arg) {
                     header->frameNumber = frameNr + iframes;
                     header->packetNumber = pnum;
                     header->modId = 0;
-                    header->row = detPos[0];
-                    header->column = detPos[1];
+                    header->row = row0;
+                    header->column = col0;
 
                     // fill data
                     memcpy(packetData + sizeof(sls_detector_header),
@@ -2578,8 +2617,8 @@ void *start_timer(void *arg) {
                     header->frameNumber = frameNr + iframes;
                     header->packetNumber = pnum;
                     header->modId = 0;
-                    header->row = detPos[2];
-                    header->column = detPos[3];
+                    header->row = row1;
+                    header->column = col1;
 
                     // fill data
                     memcpy(packetData2 + sizeof(sls_detector_header),

slsDetectorServers/moenchDetectorServer/slsDetectorFunctionList.c

@@ -67,7 +67,13 @@ int defaultDacValues[NDAC] = DEFAULT_DAC_VALS;
 int vLimit = 0;
 enum detectorSettings thisSettings = UNINITIALIZED;
 int highvoltage = 0;
+
+// getNumberofchannels return 0 for y in --update mode (virtual servers)
+#ifdef VIRTUAL
+int nSamples = DEFAULT_NUM_SAMPLES;
+#else
 int nSamples = 1;
+#endif
 int detPos[2] = {0, 0};
 
 int isInitCheckDone() { return initCheckDone; }
@@ -430,16 +436,22 @@ void initControlServer() {
 }
 
 void initStopServer() {
-
-    usleep(CTRL_SRVR_INIT_TIME_US);
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        LOG(logINFOBLUE, ("Configuring Stop server\n"));
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
+        sharedMemory_setStop(0);
 #endif
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -700,7 +712,16 @@ void resetPeripheral() {
 
 /* set parameters -  dr, adcenablemask */
 
-int setDynamicRange(int dr) { return DYNAMIC_RANGE; }
+int setDynamicRange(int dr) {
+    if (dr == 16)
+        return OK;
+    return FAIL;
+}
+
+int getDynamicRange(int *retval) {
+    *retval = DYNAMIC_RANGE;
+    return OK;
+}
 
 int setADCEnableMask(uint32_t mask) {
     if (mask == 0u) {
@@ -1710,8 +1731,8 @@ void *start_timer(void *arg) {
             header->frameNumber = frameNr + iframes;
             header->packetNumber = i;
             header->modId = 0;
-            header->row = detPos[X];
-            header->column = detPos[Y];
+            header->row = detPos[Y];
+            header->column = detPos[X];
 
             // fill data
             memcpy(packetData + sizeof(sls_detector_header),

slsDetectorServers/mythen3DetectorServer/mythen3.c

@@ -10,20 +10,6 @@
 
 #include <string.h>
 
-/*
-// Common C/C++ structure to handle pattern data
-typedef struct __attribute__((packed)) {
-    uint64_t word[MAX_PATTERN_LENGTH];
-    uint64_t ioctrl;
-    uint32_t limits[2];
-    // loop0 start, loop0 stop .. loop2 start, loop2 stop
-    uint32_t loop[6];
-    uint32_t nloop[3];
-    uint32_t wait[3];
-    uint64_t waittime[3];
-} patternParameters;
-*/
-
 int chipStatusRegister = 0;
 
 int setBit(int ibit, int patword) { return patword |= (1 << ibit); }
@@ -32,44 +18,6 @@ int clearBit(int ibit, int patword) { return patword &= ~(1 << ibit); }
 
 int getChipStatusRegister() { return chipStatusRegister; }
 
-int gainCapsToCsr(int caps) {
-    // Translates bit representation
-    int csr = 0;
-    if (!(caps & M3_C10pre))
-        csr |= 1 << _CSR_C10pre;
-    if (caps & M3_C15sh)
-        csr |= 1 << CSR_C15sh;
-    if (caps & M3_C30sh)
-        csr |= 1 << CSR_C30sh;
-    if (caps & M3_C50sh)
-        csr |= 1 << CSR_C50sh;
-    if (caps & M3_C225ACsh)
-        csr |= 1 << CSR_C225ACsh;
-    if (!(caps & M3_C15pre))
-        csr |= 1 << _CSR_C15pre;
-
-    return csr;
-}
-
-int csrToGainCaps(int csr) {
-    // Translates bit representation
-    int caps = 0;
-    if (!(csr & (1 << _CSR_C10pre)))
-        caps |= M3_C10pre;
-    if (csr & (1 << CSR_C15sh))
-        caps |= M3_C15sh;
-    if (csr & (1 << CSR_C30sh))
-        caps |= M3_C30sh;
-    if (csr & (1 << CSR_C50sh))
-        caps |= M3_C50sh;
-    if (csr & (1 << CSR_C225ACsh))
-        caps |= M3_C225ACsh;
-    if (!(csr & (1 << _CSR_C15pre)))
-        caps |= M3_C15pre;
-
-    return caps;
-}
-
 patternParameters *setChipStatusRegisterPattern(int csr) {
     int iaddr = 0;
     int nbits = 18;
@@ -149,54 +97,116 @@ patternParameters *setChipStatusRegisterPattern(int csr) {
     return pat;
 }
 
-patternParameters *setInterpolation(int mask) {
-    int csr;
-    if (mask)
-        csr = chipStatusRegister | (1 << CSR_interp);
-    else
-        csr = chipStatusRegister & ~(1 << CSR_interp);
+int getGainCaps() {
+    int csr = chipStatusRegister;
+    // Translates bit representation
+    int caps = 0;
+    if (!(csr & (1 << _CSR_C10pre)))
+        caps |= M3_C10pre;
+    if (csr & (1 << CSR_C15sh))
+        caps |= M3_C15sh;
+    if (csr & (1 << CSR_C30sh))
+        caps |= M3_C30sh;
+    if (csr & (1 << CSR_C50sh))
+        caps |= M3_C50sh;
+    if (csr & (1 << CSR_C225ACsh))
+        caps |= M3_C225ACsh;
+    if (!(csr & (1 << _CSR_C15pre)))
+        caps |= M3_C15pre;
 
-    return setChipStatusRegisterPattern(csr);
+    return caps;
 }
 
-patternParameters *setPumpProbe(int mask) {
-    int csr;
-    if (mask)
-        csr = chipStatusRegister | (1 << CSR_pumprobe);
-    else
-        csr = chipStatusRegister & ~(1 << CSR_pumprobe);
+int M3SetGainCaps(int caps) {
+    int csr = chipStatusRegister & ~GAIN_MASK;
 
-    return setChipStatusRegisterPattern(csr);
+    // Translates bit representation
+    if (!(caps & M3_C10pre))
+        csr |= 1 << _CSR_C10pre;
+    if (caps & M3_C15sh)
+        csr |= 1 << CSR_C15sh;
+    if (caps & M3_C30sh)
+        csr |= 1 << CSR_C30sh;
+    if (caps & M3_C50sh)
+        csr |= 1 << CSR_C50sh;
+    if (caps & M3_C225ACsh)
+        csr |= 1 << CSR_C225ACsh;
+    if (!(caps & M3_C15pre))
+        csr |= 1 << _CSR_C15pre;
+
+    return csr;
 }
-patternParameters *setDigitalPulsing(int mask) {
 
-    int csr;
-    if (mask)
-        csr = chipStatusRegister | (1 << CSR_dpulse);
-    else
-        csr = chipStatusRegister & ~(1 << CSR_dpulse);
-
-    return setChipStatusRegisterPattern(csr);
+int getInterpolation() {
+    return ((chipStatusRegister & CSR_interp_MSK) >> CSR_interp);
 }
-patternParameters *setAnalogPulsing(int mask) {
 
-    int csr;
-    if (mask)
-        csr = chipStatusRegister | (1 << CSR_apulse);
+int M3SetInterpolation(int enable) {
+    int csr = 0;
+    if (enable)
+        csr = chipStatusRegister | CSR_interp_MSK;
     else
-        csr = chipStatusRegister & ~(1 << CSR_apulse);
-
-    return setChipStatusRegisterPattern(csr);
+        csr = chipStatusRegister & ~CSR_interp_MSK;
+    return csr;
 }
-patternParameters *setNegativePolarity(int mask) {
 
-    int csr;
-    if (mask)
-        csr = chipStatusRegister | (1 << CSR_invpol);
+int getPumpProbe() {
+    return ((chipStatusRegister & CSR_pumprobe_MSK) >> CSR_pumprobe);
+}
+
+int M3SetPumpProbe(int enable) {
+    LOG(logINFO, ("%s Pump Probe\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = 0;
+    if (enable)
+        csr = chipStatusRegister | CSR_pumprobe_MSK;
     else
-        csr = chipStatusRegister & ~(1 << CSR_invpol);
+        csr = chipStatusRegister & ~CSR_pumprobe_MSK;
+    return csr;
+}
 
-    return setChipStatusRegisterPattern(csr);
+int getDigitalPulsing() {
+    return ((chipStatusRegister & CSR_dpulse_MSK) >> CSR_dpulse);
+}
+
+int M3SetDigitalPulsing(int enable) {
+    LOG(logINFO,
+        ("%s Digital Pulsing\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = 0;
+    if (enable)
+        csr = chipStatusRegister | CSR_dpulse_MSK;
+    else
+        csr = chipStatusRegister & ~CSR_dpulse_MSK;
+    return csr;
+}
+
+int getAnalogPulsing() {
+    return ((chipStatusRegister & CSR_apulse_MSK) >> CSR_apulse);
+}
+
+int M3SetAnalogPulsing(int enable) {
+    LOG(logINFO,
+        ("%s Analog Pulsing\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = 0;
+    if (enable)
+        csr = chipStatusRegister | CSR_apulse_MSK;
+    else
+        csr = chipStatusRegister & ~CSR_apulse_MSK;
+    return csr;
+}
+
+int getNegativePolarity() {
+    return ((chipStatusRegister & CSR_invpol_MSK) >> CSR_invpol);
+}
+
+int M3SetNegativePolarity(int enable) {
+    LOG(logINFO,
+        ("%s Negative Polarity\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = 0;
+    if (enable)
+        csr = chipStatusRegister | CSR_invpol_MSK;
+    else
+        csr = chipStatusRegister & ~CSR_invpol_MSK;
+    return csr;
 }
 
 patternParameters *setChannelRegisterChip(int ichip, int *mask, int *trimbits) {

slsDetectorServers/mythen3DetectorServer/mythen3.h

@@ -49,6 +49,12 @@
        // shaper)
 #define _CSR_C15pre 14 // negative polarity
 
+#define CSR_invpol_MSK   (0x1 << CSR_invpol)
+#define CSR_dpulse_MSK   (0x1 << CSR_dpulse)
+#define CSR_interp_MSK   (0x1 << CSR_interp)
+#define CSR_pumprobe_MSK (0x1 << CSR_pumprobe)
+#define CSR_apulse_MSK   (0x1 << CSR_apulse)
+
 #define CSR_default (1 << _CSR_C10pre) | (1 << CSR_C30sh)
 
 #define GAIN_MASK                                                              \
@@ -58,15 +64,20 @@
 int setBit(int ibit, int patword);
 int clearBit(int ibit, int patword);
 int getChipStatusRegister();
-int gainCapsToCsr(int caps);
-int csrToGainCaps(int csr);
 
 patternParameters *setChipStatusRegisterPattern(int csr);
 patternParameters *setChannelRegisterChip(int ichip, int *mask, int *trimbits);
-patternParameters *setInterpolation(int mask);
-patternParameters *setPumpProbe(int mask);
-patternParameters *setDigitalPulsing(int mask);
-patternParameters *setAnalogPulsing(int mask);
-patternParameters *setNegativePolarity(int mask);
+int getGainCaps();
+int M3SetGainCaps(int caps);
+int getInterpolation();
+int M3SetInterpolation(int enable);
+int getPumpProbe();
+int M3SetPumpProbe(int enable);
+int getDigitalPulsing();
+int M3SetDigitalPulsing(int enable);
+int getAnalogPulsing();
+int M3SetAnalogPulsing(int enable);
+int getNegativePolarity();
+int M3SetNegativePolarity(int enable);
 
 #endif

slsDetectorServers/mythen3DetectorServer/slsDetectorFunctionList.c

@@ -35,6 +35,9 @@ extern int isControlServer;
 extern void getMacAddressinString(char *cmac, int size, uint64_t mac);
 extern void getIpAddressinString(char *cip, uint32_t ip);
 
+// Variables that will be exported
+int masterCommandLine = -1;
+
 int initError = OK;
 int initCheckDone = 0;
 char initErrorMessage[MAX_STR_LENGTH];
@@ -65,6 +68,7 @@ int64_t exptimeReg[NCOUNTERS] = {0, 0, 0};
 int64_t gateDelayReg[NCOUNTERS] = {0, 0, 0};
 int vthEnabledVals[NCOUNTERS] = {0, 0, 0};
 int detID = 0;
+int counterMask = 0x0;
 
 int isInitCheckDone() { return initCheckDone; }
 
@@ -289,6 +293,18 @@ void setModuleId(int modid) {
           bus_r(MOD_ID_REG) | ((modid << MOD_ID_OFST) & MOD_ID_MSK));
 }
 
+int updateModuleId() {
+    int modid = getModuleIdInFile(&initError, initErrorMessage, ID_FILE);
+    if (initError == FAIL) {
+        return FAIL;
+    }
+#ifdef VIRTUAL
+    virtual_moduleid = modid;
+#endif
+    setModuleId(modid);
+    return OK;
+}
+
 u_int64_t getDetectorMAC() {
 #ifdef VIRTUAL
     return 0;
@@ -352,16 +368,26 @@ void initControlServer() {
 }
 
 void initStopServer() {
-
-    usleep(CTRL_SRVR_INIT_TIME_US);
-    if (mapCSP0() == FAIL) {
-        LOG(logERROR,
-            ("Stop Server: Map Fail. Dangerous to continue. Goodbye!\n"));
-        exit(EXIT_FAILURE);
-    }
+    if (!updateFlag && initError == OK) {
+        usleep(CTRL_SRVR_INIT_TIME_US);
+        LOG(logINFOBLUE, ("Configuring Stop server\n"));
+        if (mapCSP0() == FAIL) {
+            initError = FAIL;
+            strcpy(initErrorMessage,
+                   "Stop Server: Map Fail. Dangerous to continue. Goodbye!\n");
+            LOG(logERROR, (initErrorMessage));
+            initCheckDone = 1;
+            return;
+        }
 #ifdef VIRTUAL
-    sharedMemory_setStop(0);
+        sharedMemory_setStop(0);
+        if (checkCommandLineConfiguration() == FAIL) {
+            initCheckDone = 1;
+            return;
+        }
 #endif
+    }
+    initCheckDone = 1;
 }
 
 /* set up detector */
@@ -396,7 +422,7 @@ void allocateDetectorStructureMemory() {
         detectorDacs[idac] = 0;
     }
 
-    // trimbits start at 0 //TODO: restart server will not have 0 always
+    // trimbits start at 0 
     for (int ichan = 0; ichan < (detectorModules->nchan); ichan++) {
         *((detectorModules->chanregs) + ichan) = 0;
     }
@@ -407,6 +433,12 @@ void setupDetector() {
 
     allocateDetectorStructureMemory();
 
+    if (checkCommandLineConfiguration() == FAIL)
+        return;
+
+    if (updateModuleId() == FAIL)
+        return;
+
     clkDivider[READOUT_C0] = DEFAULT_READOUT_C0;
     clkDivider[READOUT_C1] = DEFAULT_READOUT_C1;
     clkDivider[SYSTEM_C0] = DEFAULT_SYSTEM_C0;
@@ -443,27 +475,19 @@ void setupDetector() {
 
     // defaults
     setHighVoltage(DEFAULT_HIGH_VOLTAGE);
-    resetToDefaultDacs(0);
     setASICDefaults();
     setADIFDefaults();
 
-    // set module id in register
-    int modid = getModuleIdInFile(&initError, initErrorMessage, ID_FILE);
-#ifdef VIRTUAL
-    virtual_moduleid = modid;
-#endif
-    if (initError == FAIL) {
-        return;
-    }
-    setModuleId(modid);
+    // enable all counters before setting dacs (vthx)
+    setCounterMask(MAX_COUNTER_MSK);
+    resetToDefaultDacs(0);
 
     // set trigger flow for m3 (for all timing modes)
     bus_w(FLOW_TRIGGER_REG, bus_r(FLOW_TRIGGER_REG) | FLOW_TRIGGER_MSK);
 
     // dynamic range
     setDynamicRange(DEFAULT_DYNAMIC_RANGE);
-    // enable all counters
-    setCounterMask(MAX_COUNTER_MSK);
+
 
     // Initialization of acquistion parameters
     setNumFrames(DEFAULT_NUM_FRAMES);
@@ -480,10 +504,6 @@ void setupDetector() {
     setInitialExtSignals();
     // 10G UDP
     enableTenGigabitEthernet(1);
-    getModuleIdInFile(&initError, initErrorMessage, ID_FILE);
-    if (initError == FAIL) {
-        return;
-    }
     setSettings(DEFAULT_SETTINGS);
 
     // check module type attached if not in debug mode
@@ -579,8 +599,8 @@ int resetToDefaultDacs(int hardReset) {
             }
         }
 
-        // set to defualt
-        setDAC((enum DACINDEX)i, value, 0);
+        // set to default (last arg to ensure counter check)
+        setDAC((enum DACINDEX)i, value, 0, 1);
         if (detectorDacs[i] != value) {
             LOG(logERROR, ("Setting dac %d failed, wrote %d, read %d\n", i,
                            value, detectorDacs[i]));
@@ -700,6 +720,27 @@ void setADIFDefaults() {
                           ADIF_ADDTNL_OFST_MSK)));
 }
 
+int checkCommandLineConfiguration() {
+    if (masterCommandLine != -1) {
+#ifdef VIRTUAL
+        if (masterCommandLine == 1) {
+            bus_w(SYSTEM_STATUS_REG,
+                  bus_r(SYSTEM_STATUS_REG) & ~SYSTEM_STATUS_SLV_BRD_DTCT_MSK);
+        } else {
+            bus_w(SYSTEM_STATUS_REG,
+                  bus_r(SYSTEM_STATUS_REG) | SYSTEM_STATUS_SLV_BRD_DTCT_MSK);
+        }
+#else
+        initError = FAIL;
+        strcpy(initErrorMessage,
+               "Cannot set Master from command line for this detector. "
+               "Should have been caught before!\n");
+        return FAIL;
+#endif
+    }
+    return OK;
+}
+
 /* firmware functions (resets) */
 
 void cleanFifos() {
@@ -729,46 +770,54 @@ void resetPeripheral() {
 /* set parameters -  dr, roi */
 
 int setDynamicRange(int dr) {
-    if (dr > 0) {
-        uint32_t regval = 0;
-        switch (dr) {
-        /*case 1: TODO:Not implemented in firmware yet
-            regval = CONFIG_DYNAMIC_RANGE_1_VAL;
-            break;*/
-        case 8:
-            regval = CONFIG_DYNAMIC_RANGE_8_VAL;
-            break;
-        case 16:
-            regval = CONFIG_DYNAMIC_RANGE_16_VAL;
-            break;
-        case 32:
-            regval = CONFIG_DYNAMIC_RANGE_24_VAL;
-            break;
-        default:
-            LOG(logERROR, ("Invalid dynamic range %d\n", dr));
-            return -1;
-        }
-        // set it
-        bus_w(CONFIG_REG, bus_r(CONFIG_REG) & ~CONFIG_DYNAMIC_RANGE_MSK);
-        bus_w(CONFIG_REG, bus_r(CONFIG_REG) | regval);
-        updatePacketizing();
+    if (dr <= 0) {
+        return FAIL;
     }
+    uint32_t regval = 0;
+    switch (dr) {
+    /*case 1: TODO:Not implemented in firmware yet
+        regval = CONFIG_DYNAMIC_RANGE_1_VAL;
+        break;*/
+    case 8:
+        regval = CONFIG_DYNAMIC_RANGE_8_VAL;
+        break;
+    case 16:
+        regval = CONFIG_DYNAMIC_RANGE_16_VAL;
+        break;
+    case 32:
+        regval = CONFIG_DYNAMIC_RANGE_24_VAL;
+        break;
+    default:
+        LOG(logERROR, ("Invalid dynamic range %d\n", dr));
+        return -1;
+    }
+    // set it
+    bus_w(CONFIG_REG, bus_r(CONFIG_REG) & ~CONFIG_DYNAMIC_RANGE_MSK);
+    bus_w(CONFIG_REG, bus_r(CONFIG_REG) | regval);
+    updatePacketizing();
+    return OK;
+}
 
+int getDynamicRange(int *retval) {
     uint32_t regval = bus_r(CONFIG_REG) & CONFIG_DYNAMIC_RANGE_MSK;
     switch (regval) {
     /*case CONFIG_DYNAMIC_RANGE_1_VAL: TODO:Not implemented in firmware yet
         return 1;*/
     case CONFIG_DYNAMIC_RANGE_8_VAL:
-        return 8;
+        *retval = 8;
+        break;
     case CONFIG_DYNAMIC_RANGE_16_VAL:
-        return 16;
+        *retval = 16;
+        break;
     case CONFIG_DYNAMIC_RANGE_24_VAL:
-        return 32;
+        *retval = 32;
+        break;
     default:
         LOG(logERROR, ("Invalid dynamic range %d read back\n",
                        regval >> CONFIG_DYNAMIC_RANGE_OFST));
-        return -1;
+        return FAIL;
     }
+    return OK;
 }
 
 /* set parameters -  readout */
@@ -1041,12 +1090,44 @@ int64_t getGateDelay(int gateIndex) {
     return retval / (1E-9 * getFrequency(SYSTEM_C0));
 }
 
+void updateVthAndCounterMask() {
+    LOG(logINFO, ("\tUpdating Vth and countermask\n"));
+    int interpolation = getInterpolation();
+    int pumpProbe = getPumpProbe();
+
+    if (interpolation) {
+        // enable all counters
+        setCounterMaskWithUpdateFlag(MAX_COUNTER_MSK, 0);
+        // disable vth3
+        setVthDac(2, 0);
+    } else {
+        // previous counter values
+        setCounterMaskWithUpdateFlag(counterMask, 0);        
+    }
+    if (pumpProbe) {
+        // enable only vth2
+        setVthDac(0, 0);
+        setVthDac(1, 1);
+        setVthDac(2, 0);
+    } else {
+        setVthDac(0, (counterMask & (1 << 0)));
+        setVthDac(1, (counterMask & (1 << 1)));
+    }
+    if (!interpolation && !pumpProbe) {
+        setVthDac(2, (counterMask & (1 << 2)));
+    }
+}
+
 void setCounterMask(uint32_t arg) {
+    setCounterMaskWithUpdateFlag(arg, 1);
+    updateVthAndCounterMask();
+}
+
+void setCounterMaskWithUpdateFlag(uint32_t arg, int updateMaskFlag) {
     if (arg == 0 || arg > MAX_COUNTER_MSK) {
         return;
     }
-    uint32_t oldmask = getCounterMask();
-    LOG(logINFO, ("Setting counter mask to  0x%x\n", arg));
+    LOG(logINFO, ("\tSetting counter mask to  0x%x\n", arg));
     uint32_t addr = CONFIG_REG;
     bus_w(addr, bus_r(addr) & ~CONFIG_COUNTERS_ENA_MSK);
     bus_w(addr, bus_r(addr) | ((arg << CONFIG_COUNTERS_ENA_OFST) &
@@ -1062,19 +1143,8 @@ void setCounterMask(uint32_t arg) {
         setGateDelay(i, ns);
     }
 
-    LOG(logINFO, ("\tUpdating Vth dacs\n"));
-    enum DACINDEX vthdacs[] = {M_VTH1, M_VTH2, M_VTH3};
-    for (int i = 0; i < NCOUNTERS; ++i) {
-        // if change in enable
-        if ((arg & (1 << i)) ^ (oldmask & (1 << i))) {
-            // disable, disable value
-            int value = DEFAULT_COUNTER_DISABLED_VTH_VAL;
-            // enable, set saved values
-            if (arg & (1 << i)) {
-                value = vthEnabledVals[i];
-            }
-            setGeneralDAC(vthdacs[i], value, 0);
-        }
+    if (updateMaskFlag) {
+        counterMask = arg;
     }
 }
 
@@ -1091,7 +1161,8 @@ void updatePacketizing() {
 
     // 10g
     if (tgEnable) {
-        const int dr = setDynamicRange(-1);
+        int dr = 0;
+        getDynamicRange(&dr);
         packetsPerFrame = 1;
         if (dr == 32 && ncounters > 1) {
             packetsPerFrame = 2;
@@ -1194,7 +1265,8 @@ int64_t getMeasurementTime() {
 int setDACS(int *dacs) {
     for (int i = 0; i < NDAC; ++i) {
         if (dacs[i] != -1) {
-            setDAC((enum DACINDEX)i, dacs[i], 0);
+            // set to default (last arg to ensure counter check)
+            setDAC((enum DACINDEX)i, dacs[i], 0, 1);
             if (dacs[i] != detectorDacs[i]) {
                 // dont complain if that counter was disabled
                 if ((i == M_VTH1 || i == M_VTH2 || i == M_VTH3) &&
@@ -1208,21 +1280,55 @@ int setDACS(int *dacs) {
     return OK;
 }
 
+void getModule(sls_detector_module* myMod) {
+    // serial number
+    myMod->serialnumber = detectorModules->serialnumber;
+    // csr reg
+    myMod->reg = detectorModules->reg;
+    // eV
+    myMod->eV[0] = detectorModules->eV[0];
+    myMod->eV[1] = detectorModules->eV[1];
+    myMod->eV[2] = detectorModules->eV[2];
+    // dacs
+    for (int idac = 0; idac < (detectorModules->ndac); idac++) {
+        *((myMod->dacs) + idac) = *((detectorModules->dacs) + idac);
+    }
+    // trimbits
+    for (int ichan = 0; ichan < (detectorModules->nchan); ichan++) {
+        *((myMod->chanregs) + ichan) = *((detectorModules->chanregs) + ichan);
+    }
+}
+
 int setModule(sls_detector_module myMod, char *mess) {
     LOG(logINFO, ("Setting module\n"));
 
+    if (((myMod.nchan) > (detectorModules->nchan)) || ((myMod.ndac) > (detectorModules->ndac))) {
+        strcpy(mess, "Could not set module as the number of channels or dacs do not match to the one in the detector server\n");
+        LOG(logERROR, (mess));
+        return FAIL;
+    }
+
+    // serial number (pointless)
+    detectorModules->serialnumber = myMod.serialnumber;
+
+    // csr reg
     if (setChipStatusRegister(myMod.reg)) {
         sprintf(mess, "Could not CSR from module\n");
         LOG(logERROR, (mess));
         return FAIL;
     }
 
+    // dacs
     if (setDACS(myMod.dacs)) {
         sprintf(mess, "Could not set dacs\n");
         LOG(logERROR, (mess));
         return FAIL;
     }
 
+    // update vth and countermask
+    updateVthAndCounterMask();
+
+    // threshold energy
     for (int i = 0; i < NCOUNTERS; ++i) {
         if (myMod.eV[i] >= 0) {
             setThresholdEnergy(i, myMod.eV[i]);
@@ -1253,7 +1359,7 @@ int setTrimbits(int *trimbits) {
     uint32_t prevRunClk = clkDivider[SYSTEM_C0];
 
     // set to trimming clock
-    if (setClockDivider(SYSTEM_C0, DEFAULT_TRIMMING_RUN_CLKDIV) == FAIL) {
+    if (setClockDividerWithTimeUpdateOption(SYSTEM_C0, DEFAULT_TRIMMING_RUN_CLKDIV, 0) == FAIL) {
         LOG(logERROR,
             ("Could not start trimming. Could not set to trimming clock\n"));
         return FAIL;
@@ -1286,11 +1392,17 @@ int setTrimbits(int *trimbits) {
     }
 
     // set back to previous clock
-    if (setClockDivider(SYSTEM_C0, prevRunClk) == FAIL) {
+    if (setClockDividerWithTimeUpdateOption(SYSTEM_C0, prevRunClk, 0) == FAIL) {
         LOG(logERROR, ("Could not set to previous run clock after trimming\n"));
         return FAIL;
     }
 
+    // copying trimbits locally (if tirmbit value > -1)
+    for (int ichan = 0; ichan < (detectorModules->nchan); ichan++) {
+        if (*(trimbits + ichan) >= 0)
+            *((detectorModules->chanregs) + ichan) = *(trimbits + ichan);
+    }
+
     return (error ? FAIL : OK);
 }
 
@@ -1356,7 +1468,8 @@ enum detectorSettings setSettings(enum detectorSettings sett) {
     // set special dacs
     const int specialDacs[] = SPECIALDACINDEX;
     for (int i = 0; i < NSPECIALDACS; ++i) {
-        setDAC(specialDacs[i], dacVals[i], 0);
+        // set to default (last arg to ensure counter check)
+        setDAC(specialDacs[i], dacVals[i], 0, 1);
     }
 
     LOG(logINFO, ("Settings: %d\n", thisSettings));
@@ -1364,6 +1477,9 @@ enum detectorSettings setSettings(enum detectorSettings sett) {
 }
 
 void validateSettings() {
+    LOG(logWARNING, ("Not validating dac settings temporarily"));
+    return;
+    
     // if any special dac value is changed individually => undefined
     const int specialDacs[NSPECIALDACS] = SPECIALDACINDEX;
     int *specialDacValues[] = {defaultDacValue_standard, defaultDacValue_fast,
@@ -1413,7 +1529,8 @@ void setThresholdEnergy(int counterIndex, int eV) {
 }
 
 /* parameters - dac, hv */
-void setDAC(enum DACINDEX ind, int val, int mV) {
+// counterEnableCheck false only if setDAC called directly
+void setDAC(enum DACINDEX ind, int val, int mV, int counterEnableCheck) {
     // invalid value
     if (val < 0) {
         return;
@@ -1424,7 +1541,10 @@ void setDAC(enum DACINDEX ind, int val, int mV) {
         return;
     }
 
-    // threshold dacs (remember value, vthreshold: skip disabled)
+    // threshold dacs 
+    // remember value, vthreshold: skip disabled,
+    // others: disable or enable dac if counter mask
+    // setDAC called directly: will set independent of counter enable
     if (ind == M_VTHRESHOLD || ind == M_VTH1 || ind == M_VTH2 ||
         ind == M_VTH3) {
         char *dac_names[] = {DAC_NAMES};
@@ -1435,7 +1555,6 @@ void setDAC(enum DACINDEX ind, int val, int mV) {
                 int dacval = val;
                 // if not disabled value, remember value
                 if (dacval != DEFAULT_COUNTER_DISABLED_VTH_VAL) {
-                    // convert mv to dac
                     if (mV) {
                         if (LTC2620_D_VoltageToDac(val, &dacval) == FAIL) {
                             return;
@@ -1445,9 +1564,16 @@ void setDAC(enum DACINDEX ind, int val, int mV) {
                     LOG(logINFO,
                         ("Remembering %s [%d]\n", dac_names[ind], dacval));
                 }
-                // if vthreshold,skip for disabled counters
-                if ((ind == M_VTHRESHOLD) && (!(counters & (1 << i)))) {
-                    continue;
+                // disabled counter
+                if (!(counters & (1 << i))) {
+                    // skip setting vthx dac (value remembered anyway)
+                    if (ind == M_VTHRESHOLD) {
+                        continue;
+                    }          
+                    // disable dac (except when setting dac directly) 
+                    if (counterEnableCheck) {
+                        val = DEFAULT_COUNTER_DISABLED_VTH_VAL;
+                    }
                 }
                 setGeneralDAC(vthdacs[i], val, mV);
             }
@@ -1488,6 +1614,19 @@ void setGeneralDAC(enum DACINDEX ind, int val, int mV) {
     }
 }
 
+void setVthDac(int index, int enable) {
+    LOG(logINFO, ("\t%s vth%d\n", (enable ? "Enabling" : "Disabing"), index));
+    // enables (from remembered values) or disables vthx
+    enum DACINDEX vthdacs[] = {M_VTH1, M_VTH2, M_VTH3};
+    // disable value
+    int value = DEFAULT_COUNTER_DISABLED_VTH_VAL;
+    // enable, set saved values
+    if (enable) {
+        value = vthEnabledVals[index];
+    }
+    setGeneralDAC(vthdacs[index], value, 0);   
+}
+
 int getDAC(enum DACINDEX ind, int mV) {
     if (ind == M_VTHRESHOLD) {
         int ret = -1, ret1 = -1;
@@ -1545,14 +1684,18 @@ int setHighVoltage(int val) {
 
 /* parameters - timing */
 
-int isMaster() {
-    return !((bus_r(SYSTEM_STATUS_REG) & SYSTEM_STATUS_SLV_BRD_DTCT_MSK) >>
-             SYSTEM_STATUS_SLV_BRD_DTCT_OFST);
+int isMaster(int *retval) {
+    int slave = ((bus_r(SYSTEM_STATUS_REG) & SYSTEM_STATUS_SLV_BRD_DTCT_MSK) >>
+                 SYSTEM_STATUS_SLV_BRD_DTCT_OFST);
+    *retval = (slave == 0 ? 1 : 0);
+    return OK;
 }
 
 void setTiming(enum timingMode arg) {
 
-    if (!isMaster() && arg == AUTO_TIMING)
+    int master = 0;
+    isMaster(&master);
+    if (!master && arg == AUTO_TIMING)
         arg = TRIGGER_EXPOSURE;
 
     uint32_t addr = CONFIG_REG;
@@ -1638,6 +1781,56 @@ void setInitialExtSignals() {
                                         DOUTIF_RISING_LNGTH_PORT_1_MSK));
 }
 
+int setGainCaps(int caps) {
+    LOG(logINFO, ("Setting gain caps to: %u\n", caps));
+    int csr = M3SetGainCaps(caps);
+    return setChipStatusRegister(csr);
+}
+
+int setInterpolation(int enable) {
+    LOG(logINFO,
+        ("%s Interpolation\n", enable == 0 ? "Disabling" : "Enabling"));
+    
+    int csr = M3SetInterpolation(enable);
+    int ret = setChipStatusRegister(csr);
+    if (ret == OK) {
+        updateVthAndCounterMask();  
+    }
+    return ret;
+}
+
+int setPumpProbe(int enable) {
+    LOG(logINFO, ("%s Pump Probe\n", enable == 0 ? "Disabling" : "Enabling"));
+
+    int csr = M3SetPumpProbe(enable);
+    int ret = setChipStatusRegister(csr);
+    if (ret == OK) {
+        updateVthAndCounterMask();
+    }
+    return ret;
+}
+
+int setDigitalPulsing(int enable) {
+    LOG(logINFO,
+        ("%s Digital Pulsing\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = M3SetDigitalPulsing(enable);
+    return setChipStatusRegister(csr);
+}
+
+int setAnalogPulsing(int enable) {
+    LOG(logINFO,
+        ("%s Analog Pulsing\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = M3SetAnalogPulsing(enable);
+    return setChipStatusRegister(csr);
+}
+
+int setNegativePolarity(int enable) {
+    LOG(logINFO,
+        ("%s Negative Polarity\n", enable == 0 ? "Disabling" : "Enabling"));
+    int csr = M3SetNegativePolarity(enable);
+    return setChipStatusRegister(csr);
+}
+
 void setExtSignal(int signalIndex, enum externalSignalFlag mode) {
     LOG(logDEBUG1, ("Setting signal flag[%d] to %d\n", signalIndex, mode));
 
@@ -1841,7 +2034,7 @@ int setDetectorPosition(int pos[]) {
     int ret = OK;
 
     // row
-    value = detPos[X];
+    value = detPos[Y];
     bus_w(addr, (bus_r(addr) & ~COORD_ROW_MSK) |
                     ((value << COORD_ROW_OFST) & COORD_ROW_MSK));
     valueRead = ((bus_r(addr) & COORD_ROW_MSK) >> COORD_ROW_OFST);
@@ -1852,7 +2045,7 @@ int setDetectorPosition(int pos[]) {
     }
 
     // col
-    value = detPos[Y];
+    value = detPos[X];
     bus_w(addr, (bus_r(addr) & ~COORD_COL_MSK) |
                     ((value << COORD_COL_OFST) & COORD_COL_MSK));
     valueRead = ((bus_r(addr) & COORD_COL_MSK) >> COORD_COL_OFST);
@@ -1863,7 +2056,8 @@ int setDetectorPosition(int pos[]) {
     }
 
     if (ret == OK) {
-        LOG(logINFO, ("\tPosition set to [%d, %d]\n", detPos[X], detPos[Y]));
+        LOG(logINFO,
+            ("\tPosition set to [%d, %d] #(col, row)\n", detPos[X], detPos[Y]));
     }
 
     return ret;
@@ -2074,6 +2268,10 @@ int getVCOFrequency(enum CLKINDEX ind) {
 int getMaxClockDivider() { return ALTERA_PLL_C10_GetMaxClockDivider(); }
 
 int setClockDivider(enum CLKINDEX ind, int val) {
+    return setClockDividerWithTimeUpdateOption(ind, val, 1);
+}
+
+int setClockDividerWithTimeUpdateOption(enum CLKINDEX ind, int val, int timeUpdate) {
     if (ind < 0 || ind >= NUM_CLOCKS) {
         LOG(logERROR, ("Unknown clock index %d to set clock divider\n", ind));
         return FAIL;
@@ -2098,6 +2296,32 @@ int setClockDivider(enum CLKINDEX ind, int val) {
     int pllIndex = (int)(ind >= SYSTEM_C0 ? SYSTEM_PLL : READOUT_PLL);
     int clkIndex = (int)(ind >= SYSTEM_C0 ? ind - SYSTEM_C0 : ind);
     ALTERA_PLL_C10_SetOuputClockDivider(pllIndex, clkIndex, val);
+
+    // Update time settings that depend on system frequency
+    // timeUpdate = 0 for setChipRegister/setTrimbits etc
+    // as clk reverted back again
+    if (timeUpdate && ind == SYSTEM_C0) {
+        LOG(logINFO, ("\tUpdating time settings (sys freq change)\n"));
+        int64_t exptime[3] = {0, 0, 0};
+        int64_t gateDelay[3] = {0, 0, 0};
+        for (int i = 0; i != 3; ++i) {
+            exptime[i] = getExpTime(i);
+            gateDelay[i] = getGateDelay(i);
+        }
+        int64_t period = getPeriod();
+        int64_t delayAfterTrigger = getDelayAfterTrigger();
+        
+        clkDivider[ind] = val;
+
+        for (int i = 0; i != 3; ++i) {
+            setExpTime(i, exptime[i]);
+            setGateDelay(i, gateDelay[i]);
+        }
+        setPeriod(period);
+        setDelayAfterTrigger(delayAfterTrigger);
+        LOG(logINFO, ("\tDone updating time settings\n"));
+    }
+
     clkDivider[ind] = val;
     LOG(logINFO, ("\t%s clock (%d) divider set to %d\n", clock_names[ind], ind,
                   clkDivider[ind]));
@@ -2202,7 +2426,8 @@ void *start_timer(void *arg) {
 
     const int imageSize = calculateDataBytes();
     const int tgEnable = enableTenGigabitEthernet(-1);
-    const int dr = setDynamicRange(-1);
+    int dr = 0;
+    getDynamicRange(&dr);
     int ncounters = __builtin_popcount(getCounterMask());
     int dataSize = 0;
     int packetsPerFrame = 0;
@@ -2212,6 +2437,7 @@ void *start_timer(void *arg) {
         if (dr == 32 && ncounters > 1) {
             packetsPerFrame = 2;
         }
+        dataSize = imageSize / packetsPerFrame;
     }
     // 1g
     else {
@@ -2233,27 +2459,22 @@ void *start_timer(void *arg) {
     {
         const int nchannels = NCHAN_1_COUNTER * NCHIP * ncounters;
 
-        switch (dr) {
-        /*case 1: // TODO: Not implemented in firmware yet
-                break;*/
-        case 8:
-            for (int i = 0; i < nchannels; ++i) {
+        for (int i = 0; i < nchannels; ++i) {
+            switch (dr) {
+            //case 1: // TODO: Not implemented in firmware yet 
+            // break;
+            case 8:
                 *((uint8_t *)(imageData + i)) = (uint8_t)i;
-            }
-            break;
-        case 16:
-            for (int i = 0; i < nchannels; ++i) {
+                break;
+            case 16:
                 *((uint16_t *)(imageData + i * sizeof(uint16_t))) = (uint16_t)i;
+                break;
+            case 32:
+                *((uint32_t *)(imageData + i * sizeof(uint32_t))) = ((uint32_t)i & 0xFFFFFF); // 24 bit
+                break;
+            default:
+                break;
             }
-            break;
-        case 32:
-            for (int i = 0; i < nchannels; ++i) {
-                *((uint32_t *)(imageData + i * sizeof(uint32_t))) =
-                    ((uint32_t)i & 0xFFFFFF); // 24 bit
-            }
-            break;
-        default:
-            break;
         }
     }
 
@@ -2270,7 +2491,8 @@ void *start_timer(void *arg) {
         struct timespec begin, end;
         clock_gettime(CLOCK_REALTIME, &begin);
         usleep(expUs);
-
+        
+        
         int srcOffset = 0;
         // loop packet
         for (int i = 0; i != packetsPerFrame; ++i) {
@@ -2284,14 +2506,13 @@ void *start_timer(void *arg) {
             header->frameNumber = virtual_currentFrameNumber;
             header->packetNumber = i;
             header->modId = virtual_moduleid;
-            header->row = detPos[X];
-            header->column = detPos[Y];
+            header->row = detPos[Y];
+            header->column = detPos[X];
 
             // fill data
             memcpy(packetData + sizeof(sls_detector_header),
                    imageData + srcOffset, dataSize);
             srcOffset += dataSize;
-
             sendUDPPacket(0, 0, packetData, packetSize);
         }
         LOG(logINFO, ("Sent frame: %d [%lld]\n", frameNr,
@@ -2471,59 +2692,10 @@ u_int32_t runBusy() {
 
 /* common */
 
-int copyModule(sls_detector_module *destMod, sls_detector_module *srcMod) {
-    LOG(logDEBUG1, ("Copying module\n"));
-
-    if (srcMod->serialnumber >= 0) {
-        destMod->serialnumber = srcMod->serialnumber;
-    }
-    // no trimbit feature
-    if (destMod->nchan && ((srcMod->nchan) > (destMod->nchan))) {
-        LOG(logINFO, ("Number of channels of source is larger than number of "
-                      "channels of destination\n"));
-        return FAIL;
-    }
-    if ((srcMod->ndac) > (destMod->ndac)) {
-        LOG(logINFO, ("Number of dacs of source is larger than number of dacs "
-                      "of destination\n"));
-        return FAIL;
-    }
-
-    LOG(logDEBUG1, ("DACs: src %d, dest %d\n", srcMod->ndac, destMod->ndac));
-    LOG(logDEBUG1, ("Chans: src %d, dest %d\n", srcMod->nchan, destMod->nchan));
-    if (srcMod->reg >= 0)
-        destMod->reg = srcMod->reg;
-    /*
-    if (srcMod->iodelay >= 0)
-        destMod->iodelay = srcMod->iodelay;
-    if (srcMod->tau >= 0)
-        destMod->tau = srcMod->tau;
-    */
-    for (int i = 0; i < NCOUNTERS; ++i) {
-        if (srcMod->eV[i] >= 0)
-            destMod->eV[i] = srcMod->eV[i];
-    }
-
-    LOG(logDEBUG1, ("Copying register %x (%x)\n", destMod->reg, srcMod->reg));
-
-    if (destMod->nchan != 0 && srcMod->nchan != 0) {
-        for (int ichan = 0; ichan < (srcMod->nchan); ichan++) {
-            *((destMod->chanregs) + ichan) = *((srcMod->chanregs) + ichan);
-        }
-    } else
-        LOG(logINFO, ("Not Copying trimbits\n"));
-
-    for (int idac = 0; idac < (srcMod->ndac); idac++) {
-        if (*((srcMod->dacs) + idac) >= 0) {
-            *((destMod->dacs) + idac) = *((srcMod->dacs) + idac);
-        }
-    }
-    return OK;
-}
-
 int calculateDataBytes() {
     int numCounters = __builtin_popcount(getCounterMask());
-    int dr = setDynamicRange(-1);
+    int dr = 0;
+    getDynamicRange(&dr);
     return (NCHAN_1_COUNTER * NCHIP * numCounters * ((double)dr / 8.00));
 }
 
@@ -2540,7 +2712,7 @@ int setChipStatusRegister(int csr) {
     uint32_t prevRunClk = clkDivider[SYSTEM_C0];
 
     // set to trimming clock
-    if (setClockDivider(SYSTEM_C0, DEFAULT_TRIMMING_RUN_CLKDIV) == FAIL) {
+    if (setClockDividerWithTimeUpdateOption(SYSTEM_C0, DEFAULT_TRIMMING_RUN_CLKDIV, 0) == FAIL) {
         LOG(logERROR,
             ("Could not set to trimming clock in order to change CSR\n"));
         return FAIL;
@@ -2562,29 +2734,12 @@ int setChipStatusRegister(int csr) {
     }
 
     // set back to previous clock
-    if (setClockDivider(SYSTEM_C0, prevRunClk) == FAIL) {
+    if (setClockDividerWithTimeUpdateOption(SYSTEM_C0, prevRunClk, 0) == FAIL) {
         LOG(logERROR,
             ("Could not set to previous run clock after changing CSR\n"));
         return FAIL;
     }
 
+    detectorModules->reg = csr;
     return iret;
 }
-
-int setGainCaps(int caps) {
-    LOG(logINFO, ("Setting gain caps to: %u\n", caps));
-    // Update only gain caps, leave the rest of the CSR unchanged
-    int csr = getChipStatusRegister();
-    csr &= ~GAIN_MASK;
-
-    caps = gainCapsToCsr(caps);
-    // caps &= GAIN_MASK;
-    csr |= caps;
-    return setChipStatusRegister(csr);
-}
-
-int getGainCaps() {
-    int csr = getChipStatusRegister();
-    int caps = csrToGainCaps(csr);
-    return caps;
-}

slsDetectorServers/mythen3DetectorServer/slsDetectorServer_defs.h

@@ -105,7 +105,7 @@ enum DACINDEX {
         1220, /* vIpreOut */                                                   \
         2800, /* Vth3 */                                                       \
         2800, /* Vth1 */                                                       \
-        1708, /* vIcin */                                                      \
+        800, /* vIcin */                                                       \
         1800, /* cas */                                                        \
         1100, /* Vrpreamp */                                                   \
         1100, /* Vcal_n */                                                     \

slsDetectorServers/slsDetectorServer/include/common.h

@@ -66,3 +66,5 @@ int moveBinaryFile(char *mess, char *dest, char *src, char *errorPrefix);
 
 int createEmptyFile(char *mess, char *fname, char *errorPrefix);
 int deleteFile(char *mess, char *fname, char *errorPrefix);
+
+int deleteOldServers(char *mess, char *newServerPath, char *errorPrefix);

slsDetectorServers/slsDetectorServer/include/communication_funcs.h

@@ -26,6 +26,7 @@ int receiveData(int file_des, void *buf, int length, intType itype);
 int sendDataOnly(int file_des, void *buf, int length);
 int receiveDataOnly(int file_des, void *buf, int length);
 
+int sendModule(int file_des, sls_detector_module *myMod);
 int receiveModule(int file_des, sls_detector_module *myMod);
 
 /**

slsDetectorServers/slsDetectorServer/include/programViaBlackfin.h

@@ -11,8 +11,8 @@
 #define BLACKFIN_DEFINED
 
 int defineGPIOpins(char *mess);
-int FPGAdontTouchFlash(char *mess);
-int FPGATouchFlash(char *mess);
+int FPGAdontTouchFlash(char *mess, int programming);
+int FPGATouchFlash(char *mess, int programming);
 int resetFPGA(char *mess);
 
 int emptyTempFolder(char *mess);
@@ -26,10 +26,12 @@ int preparetoCopyProgram(char *mess, char *functionType, FILE **fd,
                          uint64_t fsize);
 int eraseAndWriteToFlash(char *mess, enum PROGRAM_INDEX index,
                          char *functionType, char *clientChecksum,
-                         ssize_t fsize);
+                         ssize_t fsize, int forceDeleteNormalFile);
 int getDrive(char *mess, enum PROGRAM_INDEX index);
 /** Notify fpga not to touch flash, open src and flash drive to write */
-int openFileForFlash(char *mess, FILE **flashfd, FILE **srcfd);
+int openFileForFlash(char *mess, enum PROGRAM_INDEX index, FILE **flashfd, FILE **srcfd,
+                     int forceDeleteNormalFile);
+int checkNormalFile(char *mess, enum PROGRAM_INDEX index, int forceDeleteNormalFile);
 int eraseFlash(char *mess);
 /* write from tmp file to flash */
 int writeToFlash(char *mess, ssize_t fsize, FILE *flashfd, FILE *srcfd);

slsDetectorServers/slsDetectorServer/include/slsDetectorFunctionList.h

@@ -97,6 +97,9 @@ u_int32_t getDetectorNumber();
 #if defined(GOTTHARD2D) || defined(EIGERD) || defined(MYTHEN3D)
 int getModuleId(int *ret, char *mess);
 #endif
+#if defined(EIGERD) || defined(MYTHEN3D) || defined(GOTTHARD2D)
+int updateModuleId();
+#endif
 #if defined(GOTTHARD2D) || defined(MYTHEN3D)
 void setModuleId(int modid);
 #endif
@@ -110,7 +113,11 @@ u_int32_t getBoardRevision();
 void initControlServer();
 void initStopServer();
 #ifdef EIGERD
-void getModuleConfiguration();
+int updateModuleConfiguration();
+int getModuleConfiguration(int *m, int *t, int *n);
+#ifdef VIRTUAL
+void checkVirtual9MFlag();
+#endif
 #endif
 
 // set up detector
@@ -137,6 +144,10 @@ void setADIFDefaults();
 #if defined(GOTTHARD2D) || defined(EIGERD) || defined(JUNGFRAUD)
 int readConfigFile();
 #endif
+#if defined(GOTTHARDD) || defined(GOTTHARD2D) || defined(EIGERD) ||            \
+    defined(MYTHEN3D)
+int checkCommandLineConfiguration();
+#endif
 #ifdef EIGERD
 void resetToHardwareSettings();
 #endif
@@ -173,6 +184,7 @@ void setMasterSlaveConfiguration();
 
 // parameters - dr, roi
 int setDynamicRange(int dr);
+int getDynamicRange(int *retval);
 #ifdef GOTTHARDD
 int setROI(ROI arg);
 ROI getROI();
@@ -269,6 +281,7 @@ int getNumDigitalSamples();
 #endif
 #ifdef MYTHEN3D
 void setCounterMask(uint32_t arg);
+void setCounterMaskWithUpdateFlag(uint32_t arg, int updateMaskFlag);
 uint32_t getCounterMask();
 void updatePacketizing();
 #endif
@@ -296,9 +309,16 @@ int64_t getMeasurementTime();
 #endif
 
 // parameters - module, settings
+#if defined(MYTHEN3D) || defined(EIGERD)
+void getModule(sls_detector_module* myMod);
+#endif
 #if (!defined(CHIPTESTBOARDD)) && (!defined(MOENCHD)) && (!defined(GOTTHARD2D))
 int setModule(sls_detector_module myMod, char *mess);
 #endif
+
+#ifdef EIGERD
+int setTrimbits(int* chanregs, char* mess);
+#endif
 #ifdef MYTHEN3D
 int setTrimbits(int *trimbits);
 int setAllTrimbits(int val);
@@ -328,9 +348,12 @@ void setThresholdEnergy(int counterIndex, int eV);
 int setOnChipDAC(enum ONCHIP_DACINDEX ind, int chipIndex, int val);
 int getOnChipDAC(enum ONCHIP_DACINDEX ind, int chipIndex);
 #endif
-void setDAC(enum DACINDEX ind, int val, int mV);
 #ifdef MYTHEN3D
+void setDAC(enum DACINDEX ind, int val, int mV, int counterEnableCheck);
 void setGeneralDAC(enum DACINDEX ind, int val, int mV);
+void setVthDac(int index, int enable);
+#else
+void setDAC(enum DACINDEX ind, int val, int mV);
 #endif
 int getDAC(enum DACINDEX ind, int mV);
 int getMaxDacSteps();
@@ -362,9 +385,16 @@ int getADC(enum ADCINDEX ind);
 int setHighVoltage(int val);
 
 // parameters - timing, extsig
-#if defined(MYTHEN3D) || defined(EIGERD) || defined(GOTTHARDD)
-int isMaster();
+#ifdef EIGERD
+int setMaster(enum MASTERINDEX m);
+int setTop(enum TOPINDEX t);
+int isTop(int *retval);
 #endif
+#if defined(MYTHEN3D) || defined(EIGERD) || defined(GOTTHARDD) ||              \
+    defined(GOTTHARD2D)
+int isMaster(int *retval);
+#endif
+
 #ifdef GOTTHARD2D
 void updatingRegisters();
 #endif
@@ -372,9 +402,13 @@ void setTiming(enum timingMode arg);
 enum timingMode getTiming();
 #ifdef MYTHEN3D
 void setInitialExtSignals();
-int setGainCaps(int caps);
-int getGainCaps();
 int setChipStatusRegister(int csr);
+int setGainCaps(int caps);
+int setInterpolation(int enable);
+int setPumpProbe(int enable);
+int setDigitalPulsing(int enable);
+int setAnalogPulsing(int enable);
+int setNegativePolarity(int enable);
 int setDACS(int *dacs);
 #endif
 #if defined(GOTTHARDD) || defined(MYTHEN3D)
@@ -535,6 +569,7 @@ int getFrequency(enum CLKINDEX ind);
 int getVCOFrequency(enum CLKINDEX ind);
 int getMaxClockDivider();
 int setClockDivider(enum CLKINDEX ind, int val);
+int setClockDividerWithTimeUpdateOption(enum CLKINDEX ind, int val, int timeUpdate);
 int getClockDivider(enum CLKINDEX ind);
 
 #elif GOTTHARD2D
@@ -639,9 +674,6 @@ u_int32_t runState(enum TLogLevel lev);
 #endif
 
 // common
-#if defined(EIGERD) || defined(MYTHEN3D)
-int copyModule(sls_detector_module *destMod, sls_detector_module *srcMod);
-#endif
 int calculateDataBytes();
 int getTotalNumberOfChannels();
 #if defined(MOENCHD) || defined(CHIPTESTBOARDD)

slsDetectorServers/slsDetectorServer/include/slsDetectorServer_funcs.h

@@ -132,7 +132,6 @@ int check_version(int);
 int software_trigger(int);
 int led(int);
 int digital_io_delay(int);
-int copy_detector_server(int);
 int reboot_controller(int);
 int set_adc_enable_mask(int);
 int get_adc_enable_mask(int);
@@ -245,6 +244,7 @@ int get_pattern(int);
 int load_default_pattern(int);
 int get_all_threshold_energy(int);
 int get_master(int);
+int set_master(int);
 int get_csr();
 int set_gain_caps(int);
 int get_gain_caps(int);
@@ -284,9 +284,23 @@ int update_detector_server(int);
 int receive_program(int file_des, enum PROGRAM_INDEX index);
 void receive_program_via_blackfin(int file_des, enum PROGRAM_INDEX index,
                                   char *functionType, uint64_t filesize,
-                                  char *checksum, char *serverName);
+                                  char *checksum, char *serverName,
+                                  int forceDeleteNormalFile);
 void receive_program_default(int file_des, enum PROGRAM_INDEX index,
                              char *functionType, uint64_t filesize,
                              char *checksum, char *serverName);
 int get_update_mode(int);
-int set_update_mode(int);
+int set_update_mode(int);
+int get_top(int);
+int set_top(int);
+int get_polarity(int);
+int set_polarity(int);
+int get_interpolation(int);
+int set_interpolation(int);
+int get_pump_probe(int);
+int set_pump_probe(int);
+int get_analog_pulsing(int);
+int set_analog_pulsing(int);
+int get_digital_pulsing(int);
+int set_digital_pulsing(int);
+int get_module(int);

slsDetectorServers/slsDetectorServer/src/common.c

@@ -50,6 +50,10 @@ int ConvertToDifferentRange(int inputMin, int inputMax, int outputMin,
 }
 
 int getAbsPath(char *buf, size_t bufSize, char *fname) {
+    if (fname[0] == '/') {
+        strcpy(buf, fname);
+        return OK;
+    }
     // get path of current binary
     char path[bufSize];
     memset(path, 0, bufSize);
@@ -60,10 +64,14 @@ int getAbsPath(char *buf, size_t bufSize, char *fname) {
     }
     path[len] = '\0';
 
-    // get dir path and attach config file name
+    // get dir path and attach file name
     char *dir = dirname(path);
     memset(buf, 0, bufSize);
-    sprintf(buf, "%s/%s", dir, fname);
+    if (!strcmp(dir, "/")) {
+        sprintf(buf, "/%s", fname);
+    } else {
+        sprintf(buf, "%s/%s", dir, fname);
+    }
     LOG(logDEBUG1, ("full path for %s: %s\n", fname, buf));
     return OK;
 }
@@ -466,7 +474,7 @@ int setupDetectorServer(char *mess, char *sname) {
         LOG(logERROR, (mess));
         return FAIL;
     }
-    LOG(logINFO, ("\tSymbolic link created\n"));
+    LOG(logINFO, ("\tSymbolic link created %s -> %s\n", linkname, sname));
 
     // blackfin boards (respawn) (only kept for backwards compatibility)
 #ifndef VIRTUAL
@@ -485,7 +493,7 @@ int setupDetectorServer(char *mess, char *sname) {
 
     // add new link name to /etc/inittab
     if (snprintf(cmd, MAX_STR_LENGTH,
-                 "echo 'ttyS0::respawn:/./%s' >> /etc/inittab",
+                 "echo 'ttyS0::respawn:%s' >> /etc/inittab",
                  linkname) >= MAX_STR_LENGTH) {
         strcpy(mess, "Could not copy detector server. Command "
                      "to add new server for spawning is too long\n");
@@ -670,3 +678,26 @@ int deleteFile(char *mess, char *fname, char *errorPrefix) {
     }
     return OK;
 }
+
+int deleteOldServers(char *mess, char *newServerPath, char *errorPrefix) {
+    LOG(logINFO, ("\tChecking if current binary is to be deleted ...\n"))
+    // get path of current binary (get file name if link)
+    char currentBinary[MAX_STR_LENGTH];
+    memset(currentBinary, 0, MAX_STR_LENGTH);
+    ssize_t len = readlink("/proc/self/exe", currentBinary, MAX_STR_LENGTH - 1);
+    if (len < 0) {
+        LOG(logWARNING, ("(%s): Could not delete old servers. Could not "
+                         "readlink current binary\n",
+                         errorPrefix));
+        return FAIL;
+    }
+    currentBinary[len] = '\0';
+    LOG(logDEBUG1, ("Current binary:%s\n", currentBinary));
+
+    // delete file
+    if (deleteFile(mess, currentBinary, errorPrefix) == FAIL) {
+        LOG(logWARNING, ("(%s). Could not delete old servers\n", errorPrefix));
+        return FAIL;
+    }
+    return OK;
+}

slsDetectorServers/slsDetectorServer/src/communication_funcs.c

@@ -406,66 +406,139 @@ int receiveDataOnly(int file_des, void *buf, int length) {
     return total_received;
 }
 
+int sendModule(int file_des, sls_detector_module *myMod) {
+    enum TLogLevel level = logDEBUG1;
+    LOG(level, ("Sending Module\n"));
+    int ts = 0, n = 0;
+
+    n = sendData(file_des, &(myMod->serialnumber),
+                    sizeof(myMod->serialnumber), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("serialno sent %d bytes. serialno: %d\n", n,
+                myMod->serialnumber));
+    n = sendData(file_des, &(myMod->nchan), sizeof(myMod->nchan), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("nchan sent %d bytes. nchan: %d\n", n, myMod->nchan));
+    n = sendData(file_des, &(myMod->nchip), sizeof(myMod->nchip), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("nchip sent %d bytes. nchip: %d\n", n, myMod->nchip));
+    n = sendData(file_des, &(myMod->ndac), sizeof(myMod->ndac), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("ndac sent %d bytes. ndac: %d\n", n, myMod->ndac));
+    n = sendData(file_des, &(myMod->reg), sizeof(myMod->reg), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("reg sent %d bytes. reg: %d\n", n, myMod->reg));
+    n = sendData(file_des, &(myMod->iodelay), sizeof(myMod->iodelay), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level,
+        ("iodelay sent %d bytes. iodelay: %d\n", n, myMod->iodelay));
+    n = sendData(file_des, &(myMod->tau), sizeof(myMod->tau), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("tau sent %d bytes. tau: %d\n", n, myMod->tau));
+    n = sendData(file_des, myMod->eV, sizeof(myMod->eV), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("eV sent %d bytes. eV: %d\n", n, myMod->eV[0]));
+    // dacs
+    n = sendData(file_des, myMod->dacs, sizeof(int) * (myMod->ndac), INT32);
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("dacs sent %d bytes.\n", n));
+    // channels
+    n = sendData(file_des, myMod->chanregs, sizeof(int) * (myMod->nchan),
+                    INT32);
+    LOG(level, ("chanregs sent %d bytes.\n", n));
+    if (!n) {
+        return -1;
+    }
+    ts += n;
+    LOG(level, ("received module of size %d register %x\n", ts, myMod->reg));
+    return ts;
+}
+
 int receiveModule(int file_des, sls_detector_module *myMod) {
     enum TLogLevel level = logDEBUG1;
     LOG(level, ("Receiving Module\n"));
     int ts = 0, n = 0;
     int nDacs = myMod->ndac;
-#if defined(EIGERD) || defined(MYTHEN3D)
     int nChans = myMod->nchan; // can be zero for no trimbits
     LOG(level, ("nChans: %d\n", nChans));
-#endif
     n = receiveData(file_des, &(myMod->serialnumber),
                     sizeof(myMod->serialnumber), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("serialno received. %d bytes. serialno: %d\n", n,
+    LOG(level, ("serialno received %d bytes. serialno: %d\n", n,
                 myMod->serialnumber));
     n = receiveData(file_des, &(myMod->nchan), sizeof(myMod->nchan), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("nchan received. %d bytes. nchan: %d\n", n, myMod->nchan));
+    LOG(level, ("nchan received %d bytes. nchan: %d\n", n, myMod->nchan));
     n = receiveData(file_des, &(myMod->nchip), sizeof(myMod->nchip), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("nchip received. %d bytes. nchip: %d\n", n, myMod->nchip));
+    LOG(level, ("nchip received %d bytes. nchip: %d\n", n, myMod->nchip));
     n = receiveData(file_des, &(myMod->ndac), sizeof(myMod->ndac), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("ndac received. %d bytes. ndac: %d\n", n, myMod->ndac));
+    LOG(level, ("ndac received %d bytes. ndac: %d\n", n, myMod->ndac));
     n = receiveData(file_des, &(myMod->reg), sizeof(myMod->reg), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("reg received. %d bytes. reg: %d\n", n, myMod->reg));
+    LOG(level, ("reg received %d bytes. reg: %d\n", n, myMod->reg));
     n = receiveData(file_des, &(myMod->iodelay), sizeof(myMod->iodelay), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
     LOG(level,
-        ("iodelay received. %d bytes. iodelay: %d\n", n, myMod->iodelay));
+        ("iodelay received %d bytes. iodelay: %d\n", n, myMod->iodelay));
     n = receiveData(file_des, &(myMod->tau), sizeof(myMod->tau), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("tau received. %d bytes. tau: %d\n", n, myMod->tau));
+    LOG(level, ("tau received %d bytes. tau: %d\n", n, myMod->tau));
     n = receiveData(file_des, myMod->eV, sizeof(myMod->eV), INT32);
     if (!n) {
         return -1;
     }
     ts += n;
-    LOG(level, ("eV received. %d bytes. eV: %d\n", n, myMod->eV[0]));
+    LOG(level, ("eV received %d bytes. eV: %d\n", n, myMod->eV[0]));
     // dacs
     if (nDacs != (myMod->ndac)) {
         LOG(logERROR, ("received wrong number of dacs. "
@@ -478,24 +551,22 @@ int receiveModule(int file_des, sls_detector_module *myMod) {
         return -1;
     }
     ts += n;
-    LOG(level, ("dacs received. %d bytes.\n", n));
+    LOG(level, ("dacs received %d bytes.\n", n));
     // channels
-#if defined(EIGERD) || defined(MYTHEN3D)
     if (((myMod->nchan) != 0) &&      // no trimbits
         (nChans != (myMod->nchan))) { // with trimbits
         LOG(logERROR, ("received wrong number of channels. "
                        "Expected %d, got %d\n",
                        nChans, (myMod->nchan)));
-        return 0;
+        return -1;
     }
     n = receiveData(file_des, myMod->chanregs, sizeof(int) * (myMod->nchan),
                     INT32);
-    LOG(level, ("chanregs received. %d bytes.\n", n));
+    LOG(level, ("chanregs received %d bytes.\n", n));
     if (!n && myMod->nchan != 0) {
         return -1;
     }
     ts += n;
-#endif
     LOG(level, ("received module of size %d register %x\n", ts, myMod->reg));
     return ts;
 }

slsDetectorServers/slsDetectorServer/src/programViaBlackfin.c

@@ -7,6 +7,7 @@
 #include "slsDetectorServer_defs.h"
 
 #include <string.h>
+#include <sys/stat.h>
 #include <sys/sysinfo.h>
 #include <unistd.h> // usleep
 
@@ -18,8 +19,11 @@
 #define CMD_GPIO9_DEFINE "echo 9 > /sys/class/gpio/export"
 #define CMD_GPIO3_DEFINE "echo 3 > /sys/class/gpio/export"
 
+// N config done
 #define CMD_GPIO7_EXIST "/sys/class/gpio/gpio7"
+// N Config
 #define CMD_GPIO9_EXIST "/sys/class/gpio/gpio9"
+// N CE (access to AS interface)
 #define CMD_GPIO3_EXIST "/sys/class/gpio/gpio3"
 
 #define CMD_GPIO9_DEFINE_OUT "echo out > /sys/class/gpio/gpio9/direction"
@@ -28,8 +32,11 @@
 #define CMD_GPIO9_DEFINE_IN "echo in > /sys/class/gpio/gpio9/direction"
 #define CMD_GPIO3_DEFINE_IN "echo in > /sys/class/gpio/gpio3/direction"
 
+// nConfig
 #define CMD_GPIO9_DONT_TOUCH_FLASH "echo 0 > /sys/class/gpio/gpio9/value"
-#define CMD_GPIO3_DONT_TOUCH_FLASH "echo 0 > /sys/class/gpio/gpio3/value"
+// nCE
+#define CMD_GPIO3_DONT_TOUCH_FLASH "echo 1 > /sys/class/gpio/gpio3/value"
+// CD
 #define CMD_FPGA_PICKED_STATUS  "cat /sys/class/gpio/gpio7/value"
 
 #define CMD_GET_FPGA_FLASH_DRIVE    "awk \'$4== \"\\\"bitfile(spi)\\\"\" {print $1}\' /proc/mtd"
@@ -38,6 +45,9 @@
 
 #define CMD_GET_AMD_FLASH  "dmesg | grep Amd"
 
+#define CMD_CREATE_DEVICE_FILE_PART1 "mknod"
+#define CMD_CREATE_DEVICE_FILE_PART2 "c 90 6"
+
 #define FLASH_BUFFER_MEMORY_SIZE (128 * 1024) // 500 KB
 // clang-format on
 
@@ -65,7 +75,7 @@ int defineGPIOpins(char *mess) {
         if (FAIL == validateKernelVersion(KERNEL_DATE_VRSN_3GPIO)) {
             latestKernelVerified = 0;
             LOG(logWARNING,
-                ("Kernel too old to use gpio 3 pins. Update kernel to "
+                ("Kernel too old to use gpio3 (nCE). Update kernel to "
                  "guarantee error-free fpga programming. \n\tNot the end "
                  "of the world. Continuing with current kernel...\n"));
         } else {
@@ -78,35 +88,35 @@ int defineGPIOpins(char *mess) {
     if (access(CMD_GPIO7_EXIST, F_OK) != 0) {
         if (executeCommand(CMD_GPIO7_DEFINE, retvals, logDEBUG1) == FAIL) {
             snprintf(mess, MAX_STR_LENGTH,
-                     "Could not define gpio7 pins for fpga (%s)\n", retvals);
+                     "Could not define gpio7 (CD) for fpga (%s)\n", retvals);
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logINFO, ("\tgpio7: defined\n"));
+        LOG(logINFO, ("\tgpio7 (CD): defined\n"));
     } else {
-        LOG(logINFO, ("\tgpio7: already defined\n"));
+        LOG(logINFO, ("\tgpio7 (CD): already defined\n"));
     }
 
     // define gpio7 direction
     if (executeCommand(CMD_GPIO7_DEFINE_IN, retvals, logDEBUG1) == FAIL) {
         snprintf(mess, MAX_STR_LENGTH,
-                 "Could not set gpio7 as input for fpga (%s)\n", retvals);
+                 "Could not set gpio7 (CD) as input for fpga (%s)\n", retvals);
         LOG(logERROR, (mess));
         return FAIL;
     }
-    LOG(logINFO, ("\tgpio7: setting intput\n"));
+    LOG(logINFO, ("\tgpio7 (CD): setting intput\n"));
 
     // define gpio9
     if (access(CMD_GPIO9_EXIST, F_OK) != 0) {
         if (executeCommand(CMD_GPIO9_DEFINE, retvals, logDEBUG1) == FAIL) {
             snprintf(mess, MAX_STR_LENGTH,
-                     "Could not define gpio9 pins for fpga (%s)\n", retvals);
+                     "Could not define gpio9 (nConfig) for fpga (%s)\n", retvals);
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logINFO, ("\tgpio9: defined\n"));
+        LOG(logINFO, ("\tgpio9 (nConfig): defined\n"));
     } else {
-        LOG(logINFO, ("\tgpio9: already defined\n"));
+        LOG(logINFO, ("\tgpio9 (nConfig): already defined\n"));
     }
 
     // define gpio3 (not chip enable)
@@ -114,21 +124,21 @@ int defineGPIOpins(char *mess) {
         if (access(CMD_GPIO3_EXIST, F_OK) != 0) {
             if (executeCommand(CMD_GPIO3_DEFINE, retvals, logDEBUG1) == FAIL) {
                 snprintf(mess, MAX_STR_LENGTH,
-                         "Could not define gpio3 pins for fpga (%s)\n",
+                         "Could not define gpio3 (nCE) for fpga (%s)\n",
                          retvals);
                 LOG(logERROR, (mess));
                 return FAIL;
             }
-            LOG(logINFO, ("\tgpio3: defined\n"));
+            LOG(logINFO, ("\tgpio3 (nCE): defined\n"));
         } else {
-            LOG(logINFO, ("\tgpio3: already defined\n"));
+            LOG(logINFO, ("\tgpio3 (nCE): already defined\n"));
         }
     }
 
     return OK;
 }
 
-int FPGAdontTouchFlash(char *mess) {
+int FPGAdontTouchFlash(char *mess, int programming) {
 #ifdef VIRTUAL
     return OK;
 #endif
@@ -136,51 +146,51 @@ int FPGAdontTouchFlash(char *mess) {
     // define gpio9 as output
     if (executeCommand(CMD_GPIO9_DEFINE_OUT, retvals, logDEBUG1) == FAIL) {
         snprintf(mess, MAX_STR_LENGTH,
-                 "Could not set gpio9 as output for fpga (%s)\n", retvals);
+                 "Could not set gpio9 (nConfig) as output for fpga (%s)\n", retvals);
         LOG(logERROR, (mess));
         return FAIL;
     }
-    LOG(logINFO, ("\tgpio9: setting output\n"));
+    LOG(logINFO, ("\tgpio9 (nConfig): setting output\n"));
 
     // define gpio3 as output
-    if (latestKernelVerified == 1) {
+    if (programming && latestKernelVerified == 1) {
         if (executeCommand(CMD_GPIO3_DEFINE_OUT, retvals, logDEBUG1) == FAIL) {
             snprintf(mess, MAX_STR_LENGTH,
-                     "Could not set gpio3 as output for fpga (%s)\n", retvals);
+                     "Could not set gpio3 (nCE) as output for fpga (%s)\n", retvals);
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logINFO, ("\tgpio3: setting output\n"));
+        LOG(logINFO, ("\tgpio3 (nCE): setting output\n"));
     }
 
     // tell FPGA to not: gpio9
     if (executeCommand(CMD_GPIO9_DONT_TOUCH_FLASH, retvals, logDEBUG1) ==
         FAIL) {
         snprintf(mess, MAX_STR_LENGTH,
-                 "Could not set gpio9 to not touch flash for fpga (%s)\n",
+                 "Could not set gpio9 (nConfig) to not touch flash for fpga (%s)\n",
                  retvals);
         LOG(logERROR, (mess));
         return FAIL;
     }
-    LOG(logINFO, ("\tgpio9: fpga dont touch flash\n"));
+    LOG(logINFO, ("\tgpio9 (nConfig): fpga dont touch flash (Low)\n"));
 
     // tell FPGA to not: gpio3
-    if (latestKernelVerified == 1) {
+    if (programming && latestKernelVerified == 1) {
         if (executeCommand(CMD_GPIO3_DONT_TOUCH_FLASH, retvals, logDEBUG1) ==
             FAIL) {
             snprintf(mess, MAX_STR_LENGTH,
-                     "Could not set gpio3 to not touch flash for fpga (%s)\n",
+                     "Could not set gpio3 (nCE) to not touch flash for fpga (%s)\n",
                      retvals);
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logINFO, ("\tgpio3: fpga dont touch flash\n"));
+        LOG(logINFO, ("\tgpio3 (nCE): fpga dont touch flash (High)\n"));
     }
     // usleep(100*1000);
     return OK;
 }
 
-int FPGATouchFlash(char *mess) {
+int FPGATouchFlash(char *mess, int programming) {
 #ifdef VIRTUAL
     return OK;
 #endif
@@ -188,20 +198,20 @@ int FPGATouchFlash(char *mess) {
     // tell FPGA to touch flash to program itself
     if (executeCommand(CMD_GPIO9_DEFINE_IN, retvals, logDEBUG1) == FAIL) {
         snprintf(mess, MAX_STR_LENGTH,
-                 "Could not set gpio9 as input for fpga (%s)\n", retvals);
+                 "Could not set gpio9 (nConfig) as input for fpga (%s)\n", retvals);
         LOG(logERROR, (mess));
         return FAIL;
     }
-    LOG(logINFO, ("\tgpio9: setting input\n"));
+    LOG(logINFO, ("\tgpio9 (nConfig): setting input\n"));
 
-    if (latestKernelVerified == 1) {
+    if (programming && latestKernelVerified == 1) {
         if (executeCommand(CMD_GPIO3_DEFINE_IN, retvals, logDEBUG1) == FAIL) {
             snprintf(mess, MAX_STR_LENGTH,
-                     "Could not set gpio3 as input for fpga (%s)\n", retvals);
+                     "Could not set gpio3 (nCE) as input for fpga (%s)\n", retvals);
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logINFO, ("\tgpio3: setting input\n"));
+        LOG(logINFO, ("\tgpio3 (nCE): setting input\n"));
     }
     return OK;
 }
@@ -211,10 +221,10 @@ int resetFPGA(char *mess) {
 #ifdef VIRTUAL
     return OK;
 #endif
-    if (FPGAdontTouchFlash(mess) == FAIL) {
+    if (FPGAdontTouchFlash(mess, 0) == FAIL) {
         return FAIL;
     }
-    if (FPGATouchFlash(mess) == FAIL) {
+    if (FPGATouchFlash(mess, 0) == FAIL) {
         return FAIL;
     }
     usleep(CTRL_SRVR_INIT_TIME_US);
@@ -274,7 +284,8 @@ int allowUpdate(char *mess, char *functionType) {
         getKernelVersion(retvals);
         snprintf(mess, MAX_STR_LENGTH,
                  "Could not update %s. Kernel version %s is too old to "
-                 "update the Amd flash/ root directory. Most likely, blackfin needs rescue or replacement. Please contact us.\n",
+                 "update the Amd flash/ root directory. Most likely, blackfin "
+                 "needs rescue or replacement. Please contact us.\n",
                  functionType, retvals);
         LOG(logERROR, (mess));
         return FAIL;
@@ -319,7 +330,7 @@ int preparetoCopyProgram(char *mess, char *functionType, FILE **fd,
 
 int eraseAndWriteToFlash(char *mess, enum PROGRAM_INDEX index,
                          char *functionType, char *clientChecksum,
-                         ssize_t fsize) {
+                         ssize_t fsize, int forceDeleteNormalFile) {
 
     memset(messageType, 0, sizeof(messageType));
     strcpy(messageType, functionType);
@@ -330,12 +341,13 @@ int eraseAndWriteToFlash(char *mess, enum PROGRAM_INDEX index,
 
     FILE *flashfd = NULL;
     FILE *srcfd = NULL;
-    if (openFileForFlash(mess, &flashfd, &srcfd) == FAIL) {
+    if (openFileForFlash(mess, index, &flashfd, &srcfd, forceDeleteNormalFile) ==
+        FAIL) {
         return FAIL;
     }
 
     if (index == PROGRAM_FPGA) {
-        if (FPGAdontTouchFlash(mess) == FAIL) {
+        if (FPGAdontTouchFlash(mess, 1) == FAIL) {
             return FAIL;
         }
     }
@@ -434,7 +446,8 @@ int getDrive(char *mess, enum PROGRAM_INDEX index) {
     return OK;
 }
 
-int openFileForFlash(char *mess, FILE **flashfd, FILE **srcfd) {
+int openFileForFlash(char *mess, enum PROGRAM_INDEX index, FILE **flashfd, FILE **srcfd,
+                     int forceDeleteNormalFile) {
     // open src file
     *srcfd = fopen(TEMP_PROG_FILE_NAME, "r");
     if (*srcfd == NULL) {
@@ -447,6 +460,11 @@ int openFileForFlash(char *mess, FILE **flashfd, FILE **srcfd) {
     }
     LOG(logDEBUG1, ("Temp file ready for reading\n"));
 
+    if (checkNormalFile(mess, index, forceDeleteNormalFile) == FAIL) {
+        fclose(*srcfd);
+        return FAIL;
+    }
+
     // open flash drive for writing
     *flashfd = fopen(flashDriveName, "w");
     if (*flashfd == NULL) {
@@ -462,6 +480,95 @@ int openFileForFlash(char *mess, FILE **flashfd, FILE **srcfd) {
     return OK;
 }
 
+int checkNormalFile(char *mess, enum PROGRAM_INDEX index, int forceDeleteNormalFile) {
+#ifndef VIRTUAL
+    // check if its a normal file or special file
+    struct stat buf;
+    if (stat(flashDriveName, &buf) == -1) {
+        sprintf(mess,
+                "Could not %s. Unable to find the flash drive %s\n",
+                messageType, flashDriveName);
+        LOG(logERROR, (mess));
+        return FAIL;
+    }
+    // zero = normal file (not char special drive file)
+    if (!S_ISCHR(buf.st_mode)) {
+        // kernel memory is not permanent
+        if (index != PROGRAM_FPGA) {
+            sprintf(mess,
+                    "Could not %s. The flash drive found is a normal file. "
+                    "Reboot board using 'rebootcontroller' command to load "
+                    "proper device tree\n",
+                    messageType);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+
+        // user does not allow to fix it (default)
+        if (forceDeleteNormalFile == 0) {
+            sprintf(mess,
+                "Could not %s. The flash drive %s found for fpga programming is a normal file. To "
+                "fix this (by deleting this file, creating the flash drive and proceeding with "
+                "programming), re-run the programming command 'programfpga' with parameter "
+                "'--force-delete-normal-file'\n",
+                messageType, flashDriveName);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+        
+        // fpga memory stays after a reboot, user allowed to fix it
+        LOG(logWARNING, ("Flash drive invalidated (normal file). Fixing it...\n"));
+
+        // user allows to fix it, so force delete normal file
+        char cmd[MAX_STR_LENGTH] = {0};
+        char retvals[MAX_STR_LENGTH] = {0};
+
+        if (snprintf(cmd, MAX_STR_LENGTH, "rm %s", flashDriveName) >=
+            MAX_STR_LENGTH) {
+            sprintf(mess,
+                    "Could not update %s. Command to delete normal file %s is "
+                    "too long\n",
+                    messageType, flashDriveName);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+        if (executeCommand(cmd, retvals, logDEBUG1) == FAIL) {
+            snprintf(
+                mess, MAX_STR_LENGTH,
+                "Could not update %s. (could not delete normal file %s: %s)\n",
+                messageType, flashDriveName, retvals);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+        LOG(logINFO, ("\tDeleted Normal File (%s)\n", flashDriveName));
+
+        // create special drive
+        if (snprintf(cmd, MAX_STR_LENGTH, "%s %s %s",
+                     CMD_CREATE_DEVICE_FILE_PART1, flashDriveName,
+                     CMD_CREATE_DEVICE_FILE_PART2) >= MAX_STR_LENGTH) {
+            sprintf(mess,
+                    "Could not update %s. Command to create special file %s is "
+                    "too long\n",
+                    messageType, flashDriveName);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+        if (executeCommand(cmd, retvals, logDEBUG1) == FAIL) {
+            snprintf(
+                mess, MAX_STR_LENGTH,
+                "Could not update %s. (could not create special file %s: %s)\n",
+                messageType, flashDriveName, retvals);
+            LOG(logERROR, (mess));
+            return FAIL;
+        }
+        LOG(logINFO, ("\tSpecial File created (%s)\n", flashDriveName));
+    } else {
+        LOG(logINFO, ("\tValidated flash drive (not a normal file)\n"));
+    }
+#endif
+    return OK;
+}
+
 int eraseFlash(char *mess) {
     LOG(logINFO, ("\tErasing Flash...\n"));
 
@@ -564,14 +671,14 @@ int writeToFlash(char *mess, ssize_t fsize, FILE *flashfd, FILE *srcfd) {
 
 int waitForFPGAtoTouchFlash(char *mess) {
     // touch and program
-    if (FPGATouchFlash(mess) == FAIL) {
+    if (FPGATouchFlash(mess, 1) == FAIL) {
         return FAIL;
     }
 
 #ifdef VIRTUAL
     return OK;
 #endif
-    LOG(logINFO, ("\tWaiting for FPGA to program from flash\n"));
+    LOG(logINFO, ("\tWaiting for FPGA to program from flash... \n\t[gpio7 (CD) should be High when done]\n"));
     int timeSpent = 0;
 
     int result = 0;
@@ -609,8 +716,8 @@ int waitForFPGAtoTouchFlash(char *mess) {
             LOG(logERROR, (mess));
             return FAIL;
         }
-        LOG(logDEBUG1, ("gpi07 returned %d\n", result));
+        LOG(logDEBUG1, ("gpi07 (CD)returned %d\n", result));
     }
-    LOG(logINFO, ("\tFPGA has picked up the program from flash\n"));
+    LOG(logINFO, ("\tFPGA has picked up the program from flash. gpio7 (CD) is High\n"));
     return OK;
 }

slsDetectorServers/slsDetectorServer/src/programViaNios.c

@@ -8,6 +8,7 @@
 
 #include <string.h>
 #include <unistd.h> // usleep
+#include <sys/stat.h>
 
 /* global variables */
 
@@ -146,6 +147,30 @@ int getDrive(char *mess, enum PROGRAM_INDEX index) {
 }
 
 int openFileForFlash(char *mess, FILE **flashfd) {
+#ifndef VIRTUAL
+    // check if its a normal file or special file
+    struct stat buf;
+    if (stat(flashDriveName, &buf) == -1) {
+        sprintf(mess,
+                "Could not %s. Unable to find the flash drive %s\n",
+                messageType, flashDriveName);
+        LOG(logERROR, (mess));
+        return FAIL;
+    }
+    // zero = normal file (not char drive special file)
+    if (!S_ISCHR(buf.st_mode)) {
+        // memory is not permanent
+        sprintf(mess,
+                "Could not %s. The flash drive found is a normal file. "
+                "Reboot board using 'rebootcontroller' command to load "
+                "proper device tree\n",
+                messageType);
+        LOG(logERROR, (mess));
+        return FAIL;
+    }
+    LOG(logINFO, ("\tValidated flash drive (not a normal file)\n"));
+#endif
+
     *flashfd = fopen(flashDriveName, "w");
     if (*flashfd == NULL) {
         sprintf(mess,

slsDetectorServers/slsDetectorServer/src/slsDetectorServer.c

@@ -26,11 +26,20 @@ extern int sockfd;
 extern int debugflag;
 extern int updateFlag;
 extern int checkModuleFlag;
+extern int ignoreConfigFileFlag;
 
 // Global variables from slsDetectorFunctionList
 #ifdef GOTTHARDD
 extern int phaseShift;
 #endif
+#if defined(GOTTHARDD) || defined(GOTTHARD2D) || defined(EIGERD) ||            \
+    defined(MYTHEN3D)
+extern int masterCommandLine;
+#endif
+#ifdef EIGERD
+extern int topCommandLine;
+#endif
+int portno = DEFAULT_PORTNO;
 
 void error(char *msg) { perror(msg); }
 
@@ -42,32 +51,62 @@ void sigInterruptHandler(int p) {
 int main(int argc, char *argv[]) {
 
     // options
-    int portno = DEFAULT_PORTNO;
     isControlServer = 1;
     debugflag = 0;
     updateFlag = 0;
     checkModuleFlag = 1;
     int version = 0;
+    ignoreConfigFileFlag = 0;
+#if defined(GOTTHARDD) || defined(GOTTHARD2D) || defined(EIGERD) ||            \
+    defined(MYTHEN3D)
+    masterCommandLine = -1;
+#endif
+#ifdef EIGERD
+    topCommandLine = -1;
+#endif
 
     // help message
-    char helpMessage[MAX_STR_LENGTH];
-    memset(helpMessage, 0, MAX_STR_LENGTH);
-    sprintf(
-        helpMessage,
-        "Usage: %s [arguments]\n"
-        "Possible arguments are:\n"
-        "\t-v, --version            : Software version\n"
-        "\t-p, --port <port>        : TCP communication port with client. \n"
-        "\t-g, --nomodule           : [Mythen3][Gotthard2] Generic or No "
-        "Module mode. Skips detector type checks. \n"
-        "\t-f, --phaseshift <value> : [Gotthard] only. Sets phase shift. \n"
-        "\t-d, --devel              : Developer mode. Skips firmware checks. \n"
-        "\t-u, --update             : Update mode. Skips firmware checks and "
-        "initial detector setup. \n"
-        "\t-s, --stopserver         : Stop server. Do not use as it is created "
-        "by "
-        "control server \n\n",
-        argv[0]);
+    const size_t helpMessageSize = 1200;
+    char helpMessage[helpMessageSize];
+    {
+        memset(helpMessage, 0, helpMessageSize);
+        int len = snprintf(
+            helpMessage, helpMessageSize,
+            "Usage: %s [arguments]\n"
+            "Possible arguments are:\n"
+            "\t-v, --version            : Software version\n"
+            "\t-p, --port <port>        : TCP communication port with client. "
+            "\n"
+            "\t-g, --nomodule           : [Mythen3][Gotthard2] \n"
+            "\t                           Generic or No Module mode. Skips "
+            "detector type checks. \n"
+            "\t-f, --phaseshift <value> : [Gotthard] only. Sets phase shift. \n"
+            "\t-d, --devel              : Developer mode. Skips firmware "
+            "checks. \n"
+            "\t-u, --update             : Update mode. Skips firmware checks "
+            "and "
+            "initial detector setup. \n"
+            "\t-i, --ignore-config      : "
+            "[Eiger][Jungfrau][Gotthard][Gotthard2] \n"
+            "\t                           Ignore config file. \n"
+            "\t-m, --master <master>    : "
+            "[Eiger][Mythen3][Gotthard][Gotthard2] \n"
+            "\t                           Set Master to 0 or 1. Precedence "
+            "over "
+            "config file. Only for virtual servers except Eiger. \n"
+            "\t-t, --top <top>          : [Eiger] Set Top to 0 or 1. "
+            "Precedence "
+            "over config file. \n"
+            "\t-s, --stopserver         : Stop server. Do not use as it is "
+            "created "
+            "by control server \n\n",
+            argv[0]);
+        if (len >= (int)helpMessageSize) {
+            LOG(logERROR, ("Help for Server command line arguments size %d "
+                           "exceed capacity of %d characters\n",
+                           len, helpMessageSize));
+        }
+    }
 
     // parse command line for config
     static struct option long_options[] = {
@@ -80,6 +119,9 @@ int main(int argc, char *argv[]) {
         {"nomodule", no_argument, NULL, 'g'}, // generic
         {"devel", no_argument, NULL, 'd'},
         {"update", no_argument, NULL, 'u'},
+        {"ignore-config", no_argument, NULL, 'i'},
+        {"master", required_argument, NULL, 'm'},
+        {"top", required_argument, NULL, 't'},
         {"stopserver", no_argument, NULL, 's'},
         {NULL, 0, NULL, 0}};
 
@@ -89,7 +131,8 @@ int main(int argc, char *argv[]) {
     int c = 0;
 
     while (c != -1) {
-        c = getopt_long(argc, argv, "hvp:f:gdus", long_options, &option_index);
+        c = getopt_long(argc, argv, "hvp:f:gduim:t:s", long_options,
+                        &option_index);
 
         // Detect the end of the options
         if (c == -1)
@@ -160,6 +203,57 @@ int main(int argc, char *argv[]) {
             isControlServer = 0;
             break;
 
+        case 'i':
+#if defined(EIGERD) || defined(GOTTHARDD) || defined(GOTTHARD2D) ||            \
+    defined(JUNGFRAUD)
+            LOG(logINFO, ("Ignoring config file\n"));
+            ignoreConfigFileFlag = 1;
+#else
+            LOG(logERROR, ("No server config files for this detector\n"));
+            exit(EXIT_FAILURE);
+#endif
+            break;
+
+        case 'm':
+#if (defined(MYTHEN3D) || defined(GOTTHARDD) || defined(GOTTHARD2D)) &&        \
+    !defined(VIRTUAL)
+            LOG(logERROR, ("Cannot set master via the detector server for this "
+                           "detector\n"));
+            exit(EXIT_FAILURE);
+#elif defined(GOTTHARDD) || defined(GOTTHARD2D) || defined(EIGERD) ||          \
+    defined(MYTHEN3D)
+            if (sscanf(optarg, "%d", &masterCommandLine) != 1) {
+                LOG(logERROR, ("Cannot scan master argument\n%s", helpMessage));
+                exit(EXIT_FAILURE);
+            }
+            if (masterCommandLine == 1) {
+                LOG(logINFO, ("Detector Master mode\n"));
+            } else {
+                LOG(logINFO, ("Detector Slave mode\n"));
+            }
+#else
+            LOG(logERROR, ("No master implemented for this detector server\n"));
+            exit(EXIT_FAILURE);
+#endif
+            break;
+
+        case 't':
+#ifdef EIGERD
+            if (sscanf(optarg, "%d", &topCommandLine) != 1) {
+                LOG(logERROR, ("Cannot scan top argument\n%s", helpMessage));
+                exit(EXIT_FAILURE);
+            }
+            if (topCommandLine == 1) {
+                LOG(logINFO, ("Detector Top mode\n"));
+            } else {
+                LOG(logINFO, ("Detector Bottom mode\n"));
+            }
+#else
+            LOG(logERROR, ("No top implemented for this detector server\n"));
+            exit(EXIT_FAILURE);
+#endif
+            break;
+
         case 'h':
             printf("%s", helpMessage);
             exit(EXIT_SUCCESS);