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Erik Frojdh 2019-03-15 11:01:36 +01:00
parent bb93147537
commit 6ddde83c81
105 changed files with 8798 additions and 2 deletions
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7
CMakeLists.txt
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@ -37,7 +37,8 @@ option (SLS_USE_GUI "GUI" OFF)
option (SLS_USE_TESTS "TESTS" ON)
option (SLS_USE_INTEGRATION_TESTS "Integration Tests" ON)
option(SLS_USE_SANITIZER OFF)
option(SLS_USE_SANITIZER "Sanitizers for debugging" OFF)
option(SLS_USE_PYTHON "Python bindings" OFF)
set(CMAKE_EXPORT_COMPILE_COMMANDS ON)
@ -111,7 +112,9 @@ if (SLS_USE_INTEGRATION_TESTS)
add_subdirectory(integrationTests)
endif (SLS_USE_INTEGRATION_TESTS)
if (SLS_USE_PYTHON)
add_subdirectory(python)
endif(SLS_USE_PYTHON)
if(SLS_MASTER_PROJECT)

674
python/LICENSE Normal file
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@ -0,0 +1,674 @@
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This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.
This is free software, and you are welcome to redistribute it
under certain conditions; type `show c' for details.
The hypothetical commands `show w' and `show c' should show the appropriate
parts of the General Public License. Of course, your program's commands
might be different; for a GUI interface, you would use an "about box".
You should also get your employer (if you work as a programmer) or school,
if any, to sign a "copyright disclaimer" for the program, if necessary.
For more information on this, and how to apply and follow the GNU GPL, see
<http://www.gnu.org/licenses/>.
The GNU General Public License does not permit incorporating your program
into proprietary programs. If your program is a subroutine library, you
may consider it more useful to permit linking proprietary applications with
the library. If this is what you want to do, use the GNU Lesser General
Public License instead of this License. But first, please read
<http://www.gnu.org/philosophy/why-not-lgpl.html>.

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# sls_detector: Python interface to slsDetectorPackage
Python interface to the Sls Detector Software.
### Documentation ###
Sphinx built documentation is available here:
[https://slsdetectorgroup.github.io/sls_detector/](https://slsdetectorgroup.github.io/sls_detector/)
### Install using conda ###
Binaries are available using conda. This installs both the detector software and the Python
interface.
```bash
#Add conda channels
conda config --add channels conda-forge
conda config --add channels slsdetectorgroup
#Install latest version
conda install sls_detector
#Install specific version
conda install sls_detector=3.0.1
#Scientific Linux 6 version (GLIBC2.12)
conda install sls_detector=SL6_3.0.1
```
### Building using conda-build ###
Needs [sls_detector_software](https://github.com/slsdetectorgroup/sls_detector_software) installed.
```bash
#Clone source code
git clone https://github.com/slsdetectorgroup/sls_detector.git
#Checkout the branch needed
git checkout 3.0.1
#Build and install the local version
conda-build sls_detector
conda install --use-local sls_detector
```
### Developer build ###
IF you if you are developing and are making constant changes to the code it's a bit cumbersome
to build with conda and install. Then an easier way is to build the C/C++ parts in the package
directory and temporary add this to the path
```bash
#in path/to/sls_detector
python setup.py build_ext --inplace
```
Then in your Python script
```python
import sys
sys.path.append('/path/to/sls_detector')
from sls_detector import Detector
```

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"%PYTHON%" setup.py install
if errorlevel 1 exit 1

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#!/usr/bin/env bash
${PYTHON} setup.py install # Python command to install the script

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python:
- 3.5
- 3.6
- 3.7

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# This file may be used to create an environment using:
# $ conda create --name <env> --file <this file>
# platform: osx-64

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package:
name: sls_detector
version: 4.0.1
build:
number: 0
source:
path: ..
requirements:
build:
- {{ compiler('c') }}
- {{ compiler('cxx') }}
- cmake
- python {{ python }}
- libpng >=1.6.32,<1.6.35
- setuptools
- sls_detector_lib 4.0.1
- pyzmq
- pybind11
host:
- python
- pybind11
run:
- python
- numpy
- sls_detector_lib 4.0.1
- pyzmq
- libstdcxx-ng
- libgcc-ng
test:
imports:
- sls_detector
about:
summary: "Interacting with detectors"

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"""
Setup file for sls_detector
Build upon the pybind11 example found here: https://github.com/pybind/python_example
"""
from setuptools import setup, Extension, find_packages
from setuptools.command.build_ext import build_ext
import sys
import setuptools
import os
__version__ = '4.0.0'
def get_conda_path():
"""
Keep this a function if we need some fancier logic later
"""
print('Prefix: ', os.environ['CONDA_PREFIX'])
return os.environ['CONDA_PREFIX']
class get_pybind_include(object):
"""Helper class to determine the pybind11 include path
The purpose of this class is to postpone importing pybind11
until it is actually installed, so that the ``get_include()``
method can be invoked. """
def __init__(self, user=False):
self.user = user
def __str__(self):
import pybind11
return pybind11.get_include(self.user)
# ext_modules = [
# Extension(
# '_sls_detector',
# ['src/main.cpp'],
# include_dirs=[
# # Path to pybind11 headers
# get_pybind_include(),
# get_pybind_include(user=True),
# os.path.join(get_sls_path(), 'slsDetectorSoftware/multiSlsDetector'),
# os.path.join(get_sls_path(), 'slsReceiverSoftware/include/'),
# os.path.join(get_sls_path(),'slsDetectorSoftware/commonFiles/'),
# os.path.join(get_sls_path(), 'slsDetectorSoftware/slsDetector'),
# os.path.join(get_sls_path(), 'slsDetectorSoftware/slsDetectorAnalysis'),
# os.path.join(get_sls_path(), 'slsDetectorSoftware/slsReceiverInterface/'),
#
# ],
# libraries = ['SlsDetector', 'zmq'],
# library_dirs = [os.path.join(get_sls_path(),'build/bin'),
# os.path.join(get_sls_path(),'slsReceiverSoftware/include')],
#
# language='c++'
# ),
# ]
ext_modules = [
Extension(
'_sls_detector',
['src/main.cpp'],
include_dirs=[
# Path to pybind11 headers
get_pybind_include(),
get_pybind_include(user=True),
os.path.join(get_conda_path(), 'include/slsDetectorPackage'),
],
libraries=['SlsDetector', 'SlsReceiver', 'zmq'],
library_dirs=[
os.path.join(get_conda_path(), 'lib'),
os.path.join(get_conda_path(), 'bin'),
],
language='c++'
),
]
# As of Python 3.6, CCompiler has a `has_flag` method.
# cf http://bugs.python.org/issue26689
def has_flag(compiler, flagname):
"""Return a boolean indicating whether a flag name is supported on
the specified compiler.
"""
import tempfile
with tempfile.NamedTemporaryFile('w', suffix='.cpp') as f:
f.write('int main (int argc, char **argv) { return 0; }')
try:
compiler.compile([f.name], extra_postargs=[flagname])
except setuptools.distutils.errors.CompileError:
return False
return True
def cpp_flag(compiler):
"""Return the -std=c++[11/14] compiler flag.
The c++14 is prefered over c++11 (when it is available).
"""
if has_flag(compiler, '-std=c++14'):
return '-std=c++14'
elif has_flag(compiler, '-std=c++11'):
return '-std=c++11'
else:
raise RuntimeError('Unsupported compiler -- at least C++11 support '
'is needed!')
class BuildExt(build_ext):
"""A custom build extension for adding compiler-specific options."""
c_opts = {
'msvc': ['/EHsc'],
'unix': [],
}
if sys.platform == 'darwin':
c_opts['unix'] += ['-stdlib=libc++', '-mmacosx-version-min=10.7']
def build_extensions(self):
ct = self.compiler.compiler_type
opts = self.c_opts.get(ct, [])
if ct == 'unix':
opts.append('-DVERSION_INFO="%s"' % self.distribution.get_version())
opts.append(cpp_flag(self.compiler))
if has_flag(self.compiler, '-fvisibility=hidden'):
opts.append('-fvisibility=hidden')
elif ct == 'msvc':
opts.append('/DVERSION_INFO=\\"%s\\"' % self.distribution.get_version())
for ext in self.extensions:
ext.extra_compile_args = opts
build_ext.build_extensions(self)
setup(
name='sls_detector',
version=__version__,
author='Erik Frojdh',
author_email='erik.frojdh@psi.ch',
url='https://github.com/slsdetectorgroup/sls_detector',
description='Detector API for SLS Detector Group detectors',
long_description='',
packages=find_packages(exclude=['contrib', 'docs', 'tests']),
ext_modules=ext_modules,
install_requires=['pybind11>=2.2'],
cmdclass={'build_ext': BuildExt},
zip_safe=False,
)

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Nov 14 16:49:07 2017
@author: l_frojdh
"""
fw_version = 22
detector_type = 'Eiger'
known_hostnames = ['beb083', 'beb098']
image_size = (512,1024) #rows, cols
module_geometry = (1,2) #horizontal, vertical
#Remember to change these in the settings file as well!
settings_path = '/home/l_frojdh/slsDetectorPackage/settingsdir/eiger'
file_path = '/home/l_frojdh/out'

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import pytest
from sls_detector import Detector
@pytest.fixture
def detector():
from sls_detector import Detector
return Detector()
@pytest.fixture
def eiger():
from sls_detector import Eiger
d = Eiger()
d.n_frames = 1
d.exposure_time = 1
d.file_write = False
return d
@pytest.fixture
def jungfrau():
from sls_detector import Jungfrau
return Jungfrau()
detector_type = Detector().detector_type
eigertest = pytest.mark.skipif(detector_type != 'Eiger', reason = 'Only valid for Eiger')
jungfrautest = pytest.mark.skipif(detector_type != 'Jungfrau', reason = 'Only valid for Jungfrau')

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detsizechan 1024 512
#hostname for top+bottom+
hostname beb083+beb098+
#top
0:rx_tcpport 1954
0:lock 0
0:rx_udpport 50010
0:rx_udpport2 50011
0:rx_hostname mpc2048
0:flippeddatax 0
#bottom
1:rx_tcpport 1955
1:lock 0
1:rx_udpport 50004
1:rx_udpport2 50005
1:rx_hostname mpc2048
1:flippeddatax 1
settingsdir /home/l_frojdh/slsDetectorPackage/settingsdir/eiger
outdir /home/l_frojdh/out
vthreshold 1500
vtr 4000
dr 32
threaded 1
tengiga 0
vhighvoltage 150
iodelay 660
#gappixels 1

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vrf 3000
vthreshold 1800

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Testing setting dynamic range for Eiger.
If the detector is not Eiger the tests are skipped
"""
import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError
@eigertest
def test_set_dynamic_range_and_make_acq(eiger):
eiger.exposure_time = 0.5
eiger.n_frames = 2
for dr in [4, 8, 16, 32]:
eiger.dynamic_range = dr
assert eiger.dynamic_range == dr
eiger.acq()
assert eiger.frames_caught == 2
@eigertest
def test_set_dynamic_range_raises(eiger):
with pytest.raises(DetectorValueError):
eiger.dynamic_range = 1
with pytest.raises(DetectorValueError):
eiger.dynamic_range = 75
with pytest.raises(DetectorValueError):
eiger.dynamic_range = -3
with pytest.raises(DetectorValueError):
eiger.dynamic_range = 12
@eigertest
def test_set_dynamic_range_reduces_speed(eiger):
eiger.readout_clock = 'Full Speed'
eiger.dynamic_range = 32
assert eiger.dynamic_range == 32
assert eiger.readout_clock == 'Quarter Speed'
eiger.dynamic_range = 16
assert eiger.dynamic_range == 16
assert eiger.readout_clock == 'Half Speed'

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import pytest
import config_test
import time
from sls_detector.errors import DetectorValueError
from fixtures import eiger, eigertest
@eigertest
def test_set_matrix_reset(eiger):
eiger.eiger_matrix_reset = False
assert eiger.eiger_matrix_reset == False
eiger.eiger_matrix_reset = True
assert eiger.eiger_matrix_reset == True
@eigertest
def test_set_tx_delay_left_single(eiger):
eiger.tx_delay.left[0] = 130
assert eiger.tx_delay.left[0] == 130
eiger.tx_delay.left[1] = 150
assert eiger.tx_delay.left[1] == 150
eiger.tx_delay.left[0] = 0
eiger.tx_delay.left[1] = 0
assert eiger.tx_delay.left[0] == 0
assert eiger.tx_delay.left[1] == 0
@eigertest
def test_set_tx_delay_right_single(eiger):
eiger.tx_delay.right[0] = 130
assert eiger.tx_delay.right[0] == 130
eiger.tx_delay.right[1] = 150
assert eiger.tx_delay.right[1] == 150
eiger.tx_delay.right[0] = 0
eiger.tx_delay.right[1] = 0
assert eiger.tx_delay.right[0] == 0
assert eiger.tx_delay.right[1] == 0
@eigertest
def test_set_tx_delay_frame_single(eiger):
eiger.tx_delay.frame[0] = 500
eiger.tx_delay.frame[1] = 600
assert eiger.tx_delay.frame[0] == 500
assert eiger.tx_delay.frame[1] == 600
eiger.tx_delay.frame[0] = 0
eiger.tx_delay.frame[1] = 0
assert eiger.tx_delay.frame[0] == 0
assert eiger.tx_delay.frame[1] == 0
@eigertest
def test_tx_delay_from_list(eiger):
eiger.tx_delay.left = [123,456]
assert eiger.tx_delay.left[:] == [123,456]
eiger.tx_delay.right = [789,100]
assert eiger.tx_delay.right[:] == [789,100]
eiger.tx_delay.frame = [1000,90000]
assert eiger.tx_delay.frame[:] == [1000,90000]
eiger.tx_delay.left = [0, 0]
eiger.tx_delay.right = [0, 0]
eiger.tx_delay.frame = [0, 0]
assert eiger.tx_delay.left[:] == [0, 0]
assert eiger.tx_delay.right[:] == [0, 0]
assert eiger.tx_delay.frame[:] == [0, 0]
@eigertest
def test_acitve(eiger):
eiger.file_write = False
eiger.reset_frames_caught()
eiger.active[1] = False
eiger.acq()
assert eiger._api.getFramesCaughtByReceiver(1) == 0
assert eiger._api.getFramesCaughtByReceiver(0) == 1
eiger.active = True
time.sleep(0.5)
eiger.acq()
assert eiger.frames_caught == 1
@eigertest
def test_set_default_settings(eiger):
eiger.default_settings()
assert eiger.n_frames == 1
assert eiger.exposure_time == 1
assert eiger.period == 0
assert eiger.n_cycles == 1
assert eiger.dynamic_range == 16
@eigertest
def test_flowcontrol10g(eiger):
eiger.flowcontrol_10g = True
assert eiger.flowcontrol_10g == True
eiger.flowcontrol_10g = False
assert eiger.flowcontrol_10g == False
@eigertest
def test_read_vcmp(eiger):
eiger.vthreshold = 1500
assert eiger.vcmp[:] == [1500]*4*eiger.n_modules
@eigertest
def test_set_vcmp(eiger):
eiger.vcmp = [1000,1100,1200,1300,1400,1500,1600,1700]
assert eiger.vcmp[:] == [1000,1100,1200,1300,1400,1500,1600,1700]
eiger.vthreshold = 1500
#Disabled only works with receiver on the same pc
# @eigertest
# def test_setup500k():
# from sls_detector import Eiger, free_shared_memory
# free_shared_memory()
# d = Eiger()
# d.setup500k(config_test.known_hostnames)
# d.acq()
# assert d.rx_tcpport == [1954,1955]
# assert d.frames_caught == 1
# #could assert more setting but if the frame is caught it worked...

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Tests specific for the firmware.
Check that register values are correct after starting an exposure
0x4 exposure time
0x5 period
0x6 sub exposure time
"""
import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError
from sls_detector.utils import eiger_register_to_time
# testdata_exptimes = [0.001, 0.002, 0.0236]
@eigertest
def test_short_exposure_time(eiger):
t = 1.23
eiger.exposure_time = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
#Register 0x4 holds exposure time
reg = eiger.register[0x4]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
@eigertest
def test_short_minimal_exposure_time(eiger):
t = 1e-8
eiger.exposure_time = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
#Register 0x4 holds exposure time
reg = eiger.register[0x4]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
@eigertest
def test_long_exposure_time(eiger):
t = 623
eiger.exposure_time = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
# Register 0x4 holds exposure time
reg = eiger.register[0x4]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
@eigertest
def test_short_period(eiger):
t = 0.1
eiger.exposure_time = 0.001
eiger.period = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
# Register 0x5 holds period
reg = eiger.register[0x5]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
@eigertest
def test_long_period(eiger):
t = 8900
eiger.exposure_time = 0.001
eiger.period = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
# Register 0x5 holds period
reg = eiger.register[0x5]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
@eigertest
def test_zero_period_with_acq(eiger):
t = 0
eiger.exposure_time = 0.001
eiger.period = t
eiger.file_write = False
eiger.acq()
# Register 0x5 holds period
reg = eiger.register[0x5]
assert pytest.approx(t, 1e-9) == eiger_register_to_time(reg)
testdata_times = [0.001, 0.002, 0.0236]
@eigertest
@pytest.mark.parametrize("t", testdata_times)
def test_subexptime(eiger,t):
eiger.sub_exposure_time = t
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
# Register 0x6 holds sub exposure time
# time is stored straight as n clocks
reg = eiger.register[0x6]
assert pytest.approx(t, 1e-9) == reg/100e6
@eigertest
@pytest.mark.parametrize("t", testdata_times)
def test_subdeadtime(eiger, t):
eiger.sub_deadtime = t
eiger.sub_exposure_time = 1
eiger.sub_exposure_time = 0.001
eiger.file_write = False
eiger.start_detector()
eiger.stop_detector()
# Register 0x7 holds sub period
# time is stored straight as n clocks
# exptime+deadtime
reg = eiger.register[0x7]
assert pytest.approx(t, 1e-7) == (reg/100e6-0.001)

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
General tests for the Detector class. Should not depend on the connected detector. Aim is to have tests working
for both Jungfrau and Eiger.
NOTE! Uses hostnames from config_test
"""
import pytest
import config_test
from fixtures import detector
from sls_detector.errors import DetectorValueError, DetectorError
def test_error_handling(detector):
with pytest.raises(DetectorError):
detector._provoke_error()
def test_not_busy(detector):
"""Test that the detector is not busy from the start"""
assert detector.busy == False
def test_reset_frames_caught(detector):
detector.file_write = False
detector.acq()
assert detector.frames_caught == 1
detector.reset_frames_caught()
assert detector.frames_caught == 0
def test_set_busy_true_then_false(detector):
"""Test both cases of assignment"""
detector.busy = True
assert detector.busy == True
detector.busy = False
assert detector.busy == False
def test_set_readout_speed(detector):
for s in ['Full Speed', 'Half Speed', 'Quarter Speed', 'Super Slow Speed']:
detector.readout_clock = s
assert detector.readout_clock == s
def test_wrong_speed_raises_error(detector):
with pytest.raises(KeyError):
detector.readout_clock = 'Something strange'
def test_readout_clock_remains(detector):
s = detector.readout_clock
try:
detector.readout_clock = 'This does not exists'
except KeyError:
pass
assert detector.readout_clock == s
def test_len_method(detector):
"""to test this we need to know the length, this we get from the configuration of hostnames"""
assert len(detector) == len(config_test.known_hostnames)
def test_setting_n_cycles_to_zero_gives_error(detector):
with pytest.raises(DetectorValueError):
detector.n_cycles = 0
def test_setting_n_cycles_to_negative_gives_error(detector):
with pytest.raises(DetectorValueError):
detector.n_cycles = -50
def test_set_cycles_frome_one_to_ten(detector):
for i in range(1,11):
detector.n_cycles = i
assert detector.n_cycles == i
detector.n_cycles = 1
assert detector.n_cycles == 1
def test_get_detector_type(detector):
assert detector.detector_type == config_test.detector_type
def test_set_file_index(detector):
detector.file_index = 5
assert detector.file_index == 5
def test_negative_file_index_raises(detector):
with pytest.raises(ValueError):
detector.file_index = -8
def test_setting_file_name(detector):
fname = 'hej'
detector.file_name = fname
assert detector.file_name == fname
def test_set_file_write(detector):
detector.file_write = True
assert detector.file_write == True
detector.file_write = False
assert detector.file_write == False
def test_set_high_voltage(detector):
detector.high_voltage = 55
assert detector.high_voltage == 55
def test_negative_voltage_raises(detector):
with pytest.raises(DetectorValueError):
detector.high_voltage = -5
def test_high_voltage_raises_on_to_high(detector):
with pytest.raises(DetectorValueError):
detector.high_voltage = 500
def test_get_image_size(detector):
"""Compares with the size in the config file"""
assert detector.image_size.rows == config_test.image_size[0]
assert detector.image_size.cols == config_test.image_size[1]
def test_get_module_geometry(detector):
"""Compares with the size in the config file"""
assert detector.module_geometry.horizontal == config_test.module_geometry[0]
assert detector.module_geometry.vertical == config_test.module_geometry[1]
def test_set_nframes(detector):
detector.n_frames = 5
assert detector.n_frames == 5
detector.n_frames = 1
assert detector.n_frames == 1
def test_set_n_measurements(detector):
detector.n_measurements = 7
assert detector.n_measurements == 7
detector.n_measurements = 1
assert detector.n_measurements == 1
def test_negative_nframes_raises(detector):
with pytest.raises(DetectorValueError):
detector.n_frames = -2
def test_nmodules(detector):
"""Assume that the number of modules should be the same as the number of hostnames"""
assert detector.n_modules == len(config_test.known_hostnames)
def test_is_detector_online(detector):
assert detector.online == True
def test_set_online(detector):
detector.online = False
assert detector.online == False
detector.online = True
assert detector.online == True
def test_receiver_is_online(detector):
assert detector.receiver_online == True
def test_set_receiver_online(detector):
detector.receiver_online = False
assert detector.receiver_online == False
detector.receiver_online = True
assert detector.receiver_online == True
def test_set_receiver_online_raises_on_non_bool(detector):
with pytest.raises(TypeError):
detector.receiver_online = 'probably not this'
def test_set_period(detector):
detector.period = 5.123
assert detector.period == 5.123
detector.period = 0
assert detector.period == 0
def test_set_timing_mode(detector):
detector.timing_mode = 'trigger'
assert detector.timing_mode == 'trigger'
detector.timing_mode = 'auto'
assert detector.timing_mode == 'auto'

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import pytest
import config_test
import os
dir_path = os.path.dirname(os.path.realpath(__file__))
from sls_detector.detector import element_if_equal
from sls_detector.errors import DetectorValueError
from fixtures import eiger, eigertest
@eigertest
def test_load_config_file_eiger(eiger):
"""Load a settings file and assert all settings"""
eiger.load_config(os.path.join(dir_path, 'test.config'))
assert eiger.rx_tcpport == [1954, 1955]
assert eiger.lock == False
assert eiger.rx_udpport == [50010, 50011, 50004, 50005]
assert eiger.rx_hostname == 'mpc2048'
assert eiger.flipped_data_x[:] == [False, True]
assert eiger.settings_path == config_test.settings_path
assert eiger.file_path == config_test.file_path
assert eiger.vthreshold == 1500
assert element_if_equal(eiger.dacs.vtr[:]) == 4000
assert eiger.dynamic_range == 32
assert eiger.tengiga == False
assert eiger.high_voltage == 150
assert element_if_equal(eiger.dacs.iodelay[:]) == 660
@eigertest
def test_load_parameters_file_eiger(eiger):
"""Load a parametes file and assert the settings in the file"""
eiger.load_parameters(os.path.join(dir_path, 'test.par'))
assert element_if_equal(eiger.dacs.vrf[:]) == 3000
assert eiger.vthreshold == 1800

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Tests for network related functions of the detector
"""
import pytest
import config_test
from fixtures import eiger, eigertest, detector
# def test_last_client(detector):
# import socket
# # We probably should check for multiple ip's
# myip = socket.gethostbyname_ex(socket.gethostname())[-1][0]
# assert detector.last_client_ip == myip
def test_get_hostname(detector):
for detector_host, config_host in zip(detector.hostname, config_test.known_hostnames):
assert detector_host == config_host
def test_hostname_has_same_length_as_n_modules(detector):
assert len(detector.hostname) == detector.n_modules
# # def test_get_receiver_hostname(detector):
# # """Assume that the receiver are on the local computer"""
# # import socket
# # host = socket.gethostname().split('.')[0]
# # assert detector.rx_hostname == host
# def test_set_receiver_hostname(detector):
# import socket
# host = socket.gethostname().split('.')[0]
# phony_host = 'madeup'
# detector.rx_hostname = phony_host
# assert detector.rx_hostname == phony_host
# detector.rx_hostname = host
# assert detector.rx_hostname == host
@eigertest
def test_set_rx_zmqport_single_value(eiger):
eiger.rx_zmqport = 35000
assert eiger.rx_zmqport == [35000, 35001, 35002, 35003]
@eigertest
def test_set_rx_zmqport_list(eiger):
eiger.rx_zmqport = [37000, 38000]
assert eiger.rx_zmqport == [37000, 37001, 38000, 38001]
@eigertest
def test_set_rx_updport(eiger):
ports = [60010,60011,60012,60013]
eiger.rx_udpport = ports
assert eiger.rx_udpport == ports
eiger.acq()
assert eiger.frames_caught == 1
@eigertest
def test_rx_tcpport(eiger):
ports = eiger.rx_tcpport
eiger.rx_tcpport = [2000,2001]
assert eiger.rx_tcpport == [2000,2001]
eiger.rx_tcpport = ports
assert eiger.rx_tcpport == ports
eiger.acq()
assert eiger.frames_caught == 1
@eigertest
@pytest.mark.new
def test_enable_disable_tengiga(eiger):
"""
This test does not check for dat on the 10Gbit link, only the set and get functions
"""
eiger.tengiga = True
assert eiger.tengiga == True
eiger.tengiga = False
assert eiger.tengiga == False
#TODO! Add test for Jungfrau

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import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError
@eigertest
@pytest.mark.local
def test_set_path(eiger, tmpdir):
import os
path = os.path.join(tmpdir.dirname, tmpdir.basename)
eiger.file_path = path
assert eiger.file_path == path
@eigertest
@pytest.mark.local
def test_set_path_and_write_files(eiger, tmpdir):
import os
prefix = 'testprefix'
path = os.path.join(tmpdir.dirname, tmpdir.basename)
eiger.file_path = path
eiger.file_write = True
eiger.exposure_time = 0.1
eiger.n_frames = 1
eiger.timing_mode = 'auto'
eiger.file_name = prefix
eiger.file_index = 0
eiger.acq()
files = [f.basename for f in tmpdir.listdir()]
assert len(files) == 5
assert (prefix+'_d0_0.raw' in files) == True
assert (prefix+'_d1_0.raw' in files) == True
assert (prefix+'_d2_0.raw' in files) == True
assert (prefix+'_d3_0.raw' in files) == True
def test_set_discard_policy(detector):
detector.frame_discard_policy = 'nodiscard'
assert detector.frame_discard_policy == 'nodiscard'
detector.frame_discard_policy = 'discardpartial'
assert detector.frame_discard_policy == 'discardpartial'
detector.frame_discard_policy = 'discardempty'
assert detector.frame_discard_policy == 'discardempty'
def test_set_discard_policy_raises(detector):
with pytest.raises(ValueError):
detector.frame_discard_policy = 'adjfvadksvsj'
def test_set_frames_perfile(detector):
detector.frames_per_file = 5000
assert detector.frames_per_file == 5000

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import pytest
import config_test
import time
from sls_detector.errors import DetectorValueError
import os
from fixtures import eiger, eigertest
testdata_th = [0,333,500,1750,2000]
@eigertest
@pytest.mark.parametrize("th", testdata_th)
def test_set_vthreshold(eiger, th):
eiger.vthreshold = th
assert eiger.vthreshold == th
@eigertest
def test_vthreshold_with_different_vcmp(eiger):
#When vcmp is different for the chip vthreshold should return -1
eiger.vthreshold = 1500
eiger.dacs.vcmp_ll = 1400
assert eiger.vthreshold == -1
@eigertest
def test_set_settingsdir(eiger):
path = os.path.dirname( os.path.realpath(__file__) )
path = os.path.join(path, 'settingsdir')
eiger.settings_path = path
assert eiger.settings_path == path
@eigertest
def test_set_trimmed_energies(eiger):
en = [5000,6000,7000]
eiger.trimmed_energies = en
assert eiger.trimmed_energies == en
#TODO! add checks for vcmp as well and improve naming
#TODO! remove dependency on beb number
testdata_en = [(5000, 500),(5500,750),(6000,1000),(6200,1100),(7000,1500)]
@eigertest
@pytest.mark.parametrize('val', testdata_en)
def test_set_energy_threshold(eiger, val):
eiger.settings = 'standard'
eiger.threshold = val[0]
assert eiger.threshold == val[0]
assert eiger.dacs.vrf[0] == val[1]

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Tests regarding exposure time and period of the detector
Set and get test as well as test for duration and on detector
measurement of the time.
"""
import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError, DetectorError
import time
testdata_times = [1e-8, 0.001, 0.5, 3.125, 5.0, 600, 784]
@pytest.mark.parametrize("t", testdata_times)
def test_set_and_get_exposure_time(eiger, t):
"""
Test that the exposure time we set in the detector
is the same as the one read back
"""
eiger.exposure_time = t
assert eiger.exposure_time == t
def test_negative_exposure_time_raises_error(eiger):
with pytest.raises(DetectorValueError):
eiger.exposure_time = -15
testdata_times = [0.001, 0.0025, 0.005, 5]
@pytest.mark.parametrize("t", testdata_times)
def test_set_subexptime(eiger, t):
eiger.sub_exposure_time = t
assert eiger.sub_exposure_time == t
testdata_times = [-5,6,7,50]
@pytest.mark.parametrize("t", testdata_times)
def test_set_subextime_too_large_or_neg(eiger, t):
with pytest.raises((DetectorError, DetectorValueError)):
eiger.sub_exposure_time = t
testdata_times = [0.2, 0.5, 1, 2, 5, 7]
@pytest.mark.slow
@pytest.mark.parametrize("t", testdata_times)
def test_measure_exposure_time_from_python(eiger, t):
"""
The main idea with this test is to make sure the overhead of a
single acq is less than tol[s]. This test also catches stupid bugs
that would for example not change the exposure time or make acquire
not blocking.
"""
tol = 0.5
eiger.dynamic_range = 16
eiger.file_write = False
eiger.n_frames = 1
eiger.exposure_time = t
assert eiger.exposure_time == t
t0 = time.time()
eiger.acq()
duration = time.time()-t0
assert duration < (t+tol)
testdata_times = [0.5, 1, 3, 5]
@pytest.mark.slow
@pytest.mark.parametrize("t", testdata_times)
def test_measure_period_from_python_and_detector(eiger, t):
tol = 0.5
nframes = 5
eiger.dynamic_range = 16
eiger.file_write = False
eiger.n_frames = nframes
eiger.exposure_time = 0.001
eiger.period = t
t0 = time.time()
eiger.acq()
duration = time.time()-t0
assert duration < t*(nframes-1)+tol
for mp in eiger.measured_period:
assert pytest.approx(mp, 1e-5) == t
testdata_times = [0.001, 0.002, 0.003, 0.005, 0.01]
@pytest.mark.parametrize("t", testdata_times)
def test_measure_subperiod_nonparallel(eiger, t):
readout_time = 500e-6
eiger.dynamic_range = 32
eiger.file_write = False
eiger.flags = 'nonparallel'
eiger.n_frames = 1
eiger.period = 0
eiger.exposure_time = 0.5
eiger.sub_exposure_time = t
eiger.sub_deadtime = 0
eiger.acq()
for mp in eiger.measured_subperiod:
assert pytest.approx(mp, abs=1e-5) == t+readout_time
@pytest.mark.parametrize("t", testdata_times)
def test_measure_subperiod_parallel(eiger, t):
readout_time = 12e-6
eiger.dynamic_range = 32
eiger.file_write = False
eiger.flags = 'parallel'
eiger.n_frames = 1
eiger.period = 0
eiger.exposure_time = 0.5
eiger.sub_exposure_time = t
eiger.sub_deadtime = 0
eiger.acq()
for mp in eiger.measured_subperiod:
assert pytest.approx(mp, abs=1e-5) == t+readout_time
@pytest.mark.parametrize("t", testdata_times)
def test_measure_subperiod_parallel_when_changing_deadtime(eiger, t):
readout_time = 12e-6
exposure_time = 0.001
eiger.dynamic_range = 32
eiger.file_write = False
eiger.flags = 'parallel'
eiger.n_frames = 1
eiger.period = 0
eiger.exposure_time = 0.5
eiger.sub_exposure_time = exposure_time
eiger.sub_deadtime = t
eiger.acq()
for mp in eiger.measured_subperiod:
assert pytest.approx(mp, abs=1e-5) == t+exposure_time

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python/simple-integration-tests/eiger/test_trimbits_and_dacs.py Normal file
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Tests for trimbit and dac related functions
"""
import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError
@eigertest
def test_set_trimbits(eiger):
"""Limited values due to time"""
for i in [17, 32, 60]:
print(i)
eiger.trimbits = i
assert eiger.trimbits == i
@eigertest
def test_set_trimbits_raises_on_too_big(eiger):
with pytest.raises(DetectorValueError):
eiger.trimbits = 75
@eigertest
def test_set_trimbits_raises_on_negative(eiger):
with pytest.raises(DetectorValueError):
eiger.trimbits = -5
# @jungfrautest
# def test_jungfrau(jungfrau):
# """Example of a test that is not run with Eiger connected"""
# pass

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Tests for hostname related functions of the detector
"""
import pytest
import config_test
from fixtures import detector, eiger, jungfrau, eigertest, jungfrautest
from sls_detector.errors import DetectorValueError
def test_firmware_version(detector):
assert detector.firmware_version == config_test.fw_version

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python/simple-integration-tests/eiger/write_tb_files.py Normal file
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue May 22 14:13:48 2018
@author: l_frojdh
"""
import os
from sls_detector_tools.io import write_trimbit_file
from sls_detector_tools import mask
energy = [5000, 6000, 7000]
vrf = [500, 1000, 1500]
for i,e in enumerate(energy):
dacs = np.array( [[ 0., 0.], #vsvp
[4000., 4000.], #vtr
[vrf[i], vrf[i]], #vrf
[1400., 1400.], #vrs
[4000., 4000.], #vsvn
[2556., 2556.], #vtgstv
[1400., 1400.], #vcmp_ll
[1500., 1500.], #vcmp_lr
[4000., 4000.], #vcall
[1500., 1500.], #vcmp_rl
[1100., 1100.], #rxb_rb
[1100., 1100.], #rxb_lb
[1500., 1500.], #vcmp_rr
[1500., 1500.], #vcp
[2000., 2000.], #vcn
[1550., 1550.], #vis
[ 660., 660.], #iodelay
[ 0., 0.], #tau
])
tb = np.zeros((256,1024))
for beb in [83,98]:
write_trimbit_file(f'settingsdir/standard/{e}eV/noise.sn{beb:03d}', tb, dacs[:,0])
#print(os.getcwd())
#print( os.path.realpath(__file__))

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python/simple-integration-tests/jungfrau_0_6/config_test.py Normal file
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Tue Nov 14 16:49:07 2017
@author: l_frojdh
"""
fw_version = 0x180220
detector_type = 'Jungfrau'
known_hostnames = ['bchip038']
image_size = (512,1024) #rows, cols
module_geometry = (1,1) #horizontal, vertical
#Remember to change these in the settings file as well!
settings_path = '/home/l_lopez/projects/slsDetectorPackage/settingsdir/jungfrau'
file_path = '/home/l_lopez/out'

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import pytest
from sls_detector import Detector
@pytest.fixture
def detector():
from sls_detector import Detector
return Detector()
@pytest.fixture
def eiger():
from sls_detector import Eiger
return Eiger()
@pytest.fixture
def jungfrau():
from sls_detector import Jungfrau
return Jungfrau()
detector_type = Detector().detector_type
eigertest = pytest.mark.skipif(detector_type != 'Eiger', reason = 'Only valid for Eiger')
jungfrautest = pytest.mark.skipif(detector_type != 'Jungfrau', reason = 'Only valid for Jungfrau')

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
General tests for the Jungfrau detector.
NOTE! Uses hostnames from config_test
"""
import pytest
import config_test
import tests
import os
dir_path = os.path.dirname(os.path.realpath(__file__))
pytest.main(['-x', '-s', os.path.join(dir_path, 'tests/test_load_config.py')]) #Test 1
pytest.main(['-x', '-s', os.path.join(dir_path, 'tests/test_overtemperature.py')]) #Test 2

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detsizechan 1024 512
settingsdir /home/l_lopez/projects/slsDetectorPackage/settingsdir/jungfrau
caldir /home/l_lopez/projects/slsDetectorPackage/settingsdir/jungfrau
lock 0
hostname bchip094+
rx_udpport 1754
rx_udpip 10.1.1.107
rx_udpmac 90:E2:BA:9A:4F:D4
detectorip 10.1.1.9
detectormac 00:aa:bb:cc:dd:ee
configuremac 0
powerchip 1
timing auto
outdir /home/l_lopez/out
threaded 1
high

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vhighvoltage 200

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python/simple-integration-tests/jungfrau_0_6/tests/test_load_config.py Normal file
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import pytest
import config_test
import os
dir_path = os.path.dirname(os.path.realpath(__file__))
from fixtures import jungfrau, jungfrautest
def load_config_file_jungfrau_test(jungfrau):
"""Load a settings file and assert all settings"""
print('\tStarting load_config_file_jungfrau_test test case')
jungfrau.free_shared_memory
jungfrau.load_config(os.path.join(dir_path, 'test.config'))
assert jungfrau.lock == False
assert jungfrau.rx_udpport == ['1754']
assert jungfrau.hostname == ['bchip094']
assert jungfrau.firmware_version == config_test.fw_version
print('\tFinished load_config_file_jungfrau_test test case')
def load_parameters_file_jungfrau_test(jungfrau):
"""Load a parametes file and assert the settings in the file"""
print('\tStarting load_parameters_file_jungfrau_test test case')
jungfrau.load_parameters(os.path.join(dir_path, 'test.par'))
assert jungfrau.high_voltage == 200
print('\tFinished load_parameters_file_jungfrau_test test case')
@jungfrautest
def test_main(jungfrau):
print('\nTesting configuration file loading')
load_config_file_jungfrau_test(jungfrau)
load_parameters_file_jungfrau_test(jungfrau)
print('Tested configuration file loading')

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import pytest
import config_test
import time
from fixtures import jungfrau, jungfrautest
def powerchip_test(jungfrau, control):
"""
Test the main overtemperature protection control
"""
#Set test initial conditions
print('\tStarting powerchip_test test case')
jungfrau.power_chip = False
jungfrau.temperature_control = control
assert jungfrau.power_chip == False
jungfrau.temperature_threshold = 35
jungfrau.power_chip = True
if jungfrau.temperature_control is True:
if jungfrau.temperature_event is True:
assert jungfrau.power_chip == False
jungfrau.power_chip = True
assert jungfrau.power_chip == False
jungfrau.temperature_control = False
assert jungfrau.power_chip == True
jungfrau.temperature_control = True
jungfrau.temperature_threshold = 50
assert jungfrau.power_chip == False
print('\t\tWaiting to cool down the board. This may take a while...')
while jungfrau.temperature_threshold < jungfrau.temp.fpga[0]:
time.sleep(5)
print('\t\tJungfrau MCB temperature: {0:.2f} °C'.format(jungfrau.temp.fpga[0]))
#Leave enough time to let the board cool down a bit more
time.sleep(30)
jungfrau.reset_temperature_event()
assert jungfrau.temperature_event == False
assert jungfrau.power_chip == True
else:
assert jungfrau.power_chip == True
else:
print('\t\tWaiting to warm up the board. This may take a while...')
while jungfrau.temperature_threshold > jungfrau.temp.fpga[0]:
time.sleep(5)
print('\t\tJungfrau MCB temperature: {0:.2f} °C'.format(jungfrau.temp.fpga[0]))
assert jungfrau.temperature_event == False
assert jungfrau.power_chip == True
print('\tFinished powerchip_test test case')
#@jungfrautest
def test_main(jungfrau):
print('\nTesting overtemperature protection control')
powerchip_test(jungfrau, False)
powerchip_test(jungfrau, True)
print('Tested overtemperature protection control')

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from .detector import Detector, DetectorError, free_shared_memory
from .eiger import Eiger
from .jungfrau import Jungfrau
from .jungfrau_ctb import JungfrauCTB
from _sls_detector import DetectorApi

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from functools import partial
class Adc:
def __init__(self, name, detector):
self.name = name
self._detector = detector
self.get_nmod = self._detector._api.getNumberOfDetectors
# Bind functions to get and set the dac
self.get = partial(self._detector._api.getAdc, self.name)
def __getitem__(self, key):
"""
Get dacs either by slice, key or list
"""
if key == slice(None, None, None):
return [self.get(i) / 1000 for i in range(self.get_nmod())]
elif isinstance(key, Iterable):
return [self.get(k) / 1000 for k in key]
else:
return self.get(key) / 1000
def __repr__(self):
"""String representation for a single adc in all modules"""
degree_sign = u'\N{DEGREE SIGN}'
r_str = ['{:14s}: '.format(self.name)]
r_str += ['{:6.2f}{:s}C, '.format(self.get(i)/1000, degree_sign) for i in range(self.get_nmod())]
return ''.join(r_str).strip(', ')
class DetectorAdcs:
"""
Interface to the ADCs on the readout board
"""
def __iter__(self):
for attr, value in self.__dict__.items():
yield value
def __repr__(self):
return '\n'.join([str(t) for t in self])

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from .detector_property import DetectorProperty
from functools import partial
import numpy as np
class Dac(DetectorProperty):
"""
This class represents a dac on the detector. One instance handles all
dacs with the same name for a multi detector instance.
.. note ::
This class is used to build up DetectorDacs and is in general
not directly accessed to the user.
"""
def __init__(self, name, low, high, default, detector):
super().__init__(partial(detector._api.getDac, name),
partial(detector._api.setDac, name),
detector._api.getNumberOfDetectors,
name)
self.min_value = low
self.max_value = high
self.default = default
def __repr__(self):
"""String representation for a single dac in all modules"""
r_str = ['{:10s}: '.format(self.__name__)]
r_str += ['{:5d}, '.format(self.get(i)) for i in range(self.get_nmod())]
return ''.join(r_str).strip(', ')
class DetectorDacs:
_dacs = [('vsvp', 0, 4000, 0),
('vtr', 0, 4000, 2500),
('vrf', 0, 4000, 3300),
('vrs', 0, 4000, 1400),
('vsvn', 0, 4000, 4000),
('vtgstv', 0, 4000, 2556),
('vcmp_ll', 0, 4000, 1500),
('vcmp_lr', 0, 4000, 1500),
('vcall', 0, 4000, 4000),
('vcmp_rl', 0, 4000, 1500),
('rxb_rb', 0, 4000, 1100),
('rxb_lb', 0, 4000, 1100),
('vcmp_rr', 0, 4000, 1500),
('vcp', 0, 4000, 200),
('vcn', 0, 4000, 2000),
('vis', 0, 4000, 1550),
('iodelay', 0, 4000, 660)]
_dacnames = [_d[0] for _d in _dacs]
def __init__(self, detector):
# We need to at least initially know which detector we are connected to
self._detector = detector
# Index to support iteration
self._current = 0
# Populate the dacs
for _d in self._dacs:
setattr(self, '_'+_d[0], Dac(*_d, detector))
def __getattr__(self, name):
return self.__getattribute__('_' + name)
def __setattr__(self, name, value):
if name in self._dacnames:
return self.__getattribute__('_' + name).__setitem__(slice(None, None, None), value)
else:
super().__setattr__(name, value)
def __next__(self):
if self._current >= len(self._dacs):
self._current = 0
raise StopIteration
else:
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._dacs), self._detector.n_modules))
for i, _d in enumerate(self):
dac_array[i,:] = _d[:]
return dac_array
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 set_default(self):
"""
Set all dacs to their default values
"""
for _d in self:
_d[:] = _d.default
def update_nmod(self):
"""
Update the cached value of nmod, needs to be run after adding or
removing detectors
"""
for _d in self:
_d._n_modules = self._detector.n_modules

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Function decorators for the sls_detector.
"""
from .errors import DetectorError
import functools
def error_handling(func):
"""
Check for errors registered by the slsDetectorSoftware
"""
@functools.wraps(func)
def wrapper(self, *args, **kwargs):
# remove any previous errors
self._api.clearErrorMask()
# call function
result = func(self, *args, **kwargs)
# check for new errors
m = self.error_mask
if m != 0:
msg = self.error_message
self._api.clearErrorMask()
raise DetectorError(msg)
return result
return wrapper
def property_error_handling(func):
"""
Check for errors registered by the slsDetectorSoftware
"""
@functools.wraps(func)
def wrapper(self, *args, **kwargs):
# remove any previous errors
self._detector._api.clearErrorMask()
# call function
result = func(self, *args, **kwargs)
# check for new errors
m = self._detector.error_mask
if m != 0:
msg = self._detector.error_message
self._detector._api.clearErrorMask()
raise DetectorError(msg)
return result
return wrapper

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from collections.abc import Iterable
import numpy as np
class DetectorProperty:
"""
Base class for a detector property that should be accessed by name and index
"""
def __init__(self, get_func, set_func, nmod_func, name):
self.get = get_func
self.set = set_func
self.get_nmod = nmod_func
self.__name__ = name
def __getitem__(self, key):
if key == slice(None, None, None):
return [self.get(i) for i in range(self.get_nmod())]
elif isinstance(key, Iterable):
return [self.get(k) for k in key]
else:
return self.get(key)
def __setitem__(self, key, value):
#operate on all values
if key == slice(None, None, None):
if isinstance(value, (np.integer, int)):
for i in range(self.get_nmod()):
self.set(i, value)
elif isinstance(value, Iterable):
for i in range(self.get_nmod()):
self.set(i, value[i])
else:
raise ValueError('Value should be int or np.integer not', type(value))
#Iterate over some
elif isinstance(key, Iterable):
if isinstance(value, Iterable):
for k,v in zip(key, value):
self.set(k,v)
elif isinstance(value, int):
for k in key:
self.set(k, value)
#Set single value
elif isinstance(key, int):
self.set(key, value)
def __repr__(self):
s = ', '.join(str(v) for v in self[:])
return '{}: [{}]'.format(self.__name__, s)

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Wed Dec 6 11:51:18 2017
@author: l_frojdh
"""
import socket
from collections.abc import Iterable
from collections import namedtuple
from functools import partial
from .adcs import Adc, DetectorAdcs
from .dacs import DetectorDacs
from .decorators import error_handling
from .detector import Detector
from .detector_property import DetectorProperty
from .utils import element_if_equal
from sls_detector.errors import DetectorValueError, DetectorError
class EigerVcmp:
"""
Convenience class to be able to loop over vcmp for Eiger
.. todo::
Support single assignment and perhaps unify with Dac class
"""
def __init__(self, detector):
_names = ['vcmp_ll',
'vcmp_lr',
'vcmp_rl',
'vcmp_rr']
self.set = []
self.get = []
for i in range(detector.n_modules):
if i % 2 == 0:
name = _names
else:
name = _names[::-1]
for n in name:
self.set.append(partial(detector._api.setDac, n, i))
self.get.append(partial(detector._api.getDac, n, i))
def __getitem__(self, key):
if key == slice(None, None, None):
return [_d() for _d in self.get]
return self.get[key]()
def __setitem__(self, i, value):
self.set[i](value)
def __repr__(self):
return 'vcmp: '+ str(self[:])
class EigerDacs(DetectorDacs):
_dacs = [('vsvp', 0, 4000, 0),
('vtr', 0, 4000, 2500),
('vrf', 0, 4000, 3300),
('vrs', 0, 4000, 1400),
('vsvn', 0, 4000, 4000),
('vtgstv', 0, 4000, 2556),
('vcmp_ll', 0, 4000, 1500),
('vcmp_lr', 0, 4000, 1500),
('vcall', 0, 4000, 4000),
('vcmp_rl', 0, 4000, 1500),
('rxb_rb', 0, 4000, 1100),
('rxb_lb', 0, 4000, 1100),
('vcmp_rr', 0, 4000, 1500),
('vcp', 0, 4000, 200),
('vcn', 0, 4000, 2000),
('vis', 0, 4000, 1550),
('iodelay', 0, 4000, 660)]
_dacnames = [_d[0] for _d in _dacs]
# noinspection PyProtectedMember
class DetectorDelays:
_delaynames = ['frame', 'left', 'right']
def __init__(self, detector):
# We need to at least initially know which detector we are connected to
self._detector = detector
setattr(self, '_frame', DetectorProperty(detector._api.getDelayFrame,
detector._api.setDelayFrame,
detector._api.getNumberOfDetectors,
'frame'))
setattr(self, '_left', DetectorProperty(detector._api.getDelayLeft,
detector._api.setDelayLeft,
detector._api.getNumberOfDetectors,
'left'))
setattr(self, '_right', DetectorProperty(detector._api.getDelayRight,
detector._api.setDelayRight,
detector._api.getNumberOfDetectors,
'right'))
# Index to support iteration
self._current = 0
def __getattr__(self, name):
return self.__getattribute__('_' + name)
def __setattr__(self, name, value):
if name in self._delaynames:
return self.__getattribute__('_' + name).__setitem__(slice(None, None, None), value)
else:
super().__setattr__(name, value)
def __next__(self):
if self._current >= len(self._delaynames):
self._current = 0
raise StopIteration
else:
self._current += 1
return self.__getattr__(self._delaynames[self._current-1])
def __iter__(self):
return self
def __repr__(self):
hn = self._detector.hostname
r_str = ['Transmission delay [ns]\n'
'{:11s}{:>8s}{:>8s}{:>8s}'.format('', 'left', 'right', 'frame')]
for i in range(self._detector.n_modules):
r_str.append('{:2d}:{:8s}{:>8d}{:>8d}{:>8d}'.format(i, hn[i], self.left[i], self.right[i], self.frame[i]))
return '\n'.join(r_str)
class Eiger(Detector):
"""
Subclassing Detector to set up correct dacs and detector specific
functions.
"""
_detector_dynamic_range = [4, 8, 16, 32]
_settings = ['standard', 'highgain', 'lowgain', 'veryhighgain', 'verylowgain']
"""available settings for Eiger, note almost always standard"""
def __init__(self, id=0):
super().__init__(id)
self._active = DetectorProperty(self._api.getActive,
self._api.setActive,
self._api.getNumberOfDetectors,
'active')
self._vcmp = EigerVcmp(self)
self._dacs = EigerDacs(self)
self._trimbit_limits = namedtuple('trimbit_limits', ['min', 'max'])(0, 63)
self._delay = DetectorDelays(self)
# Eiger specific adcs
self._temp = DetectorAdcs()
self._temp.fpga = Adc('temp_fpga', self)
self._temp.fpgaext = Adc('temp_fpgaext', self)
self._temp.t10ge = Adc('temp_10ge', self)
self._temp.dcdc = Adc('temp_dcdc', self)
self._temp.sodl = Adc('temp_sodl', self)
self._temp.sodr = Adc('temp_sodr', self)
self._temp.fpgafl = Adc('temp_fpgafl', self)
self._temp.fpgafr = Adc('temp_fpgafr', self)
@property
@error_handling
def active(self):
"""
Is the detector active? Can be used to enable or disable a detector
module
Examples
----------
::
d.active
>> active: [True, True]
d.active[1] = False
>> active: [True, False]
"""
return self._active
@active.setter
@error_handling
def active(self, value):
self._active[:] = value
@property
def measured_period(self):
return self._api.getMeasuredPeriod()
@property
def measured_subperiod(self):
return self._api.getMeasuredSubPeriod()
@property
@error_handling
def add_gappixels(self):
"""Enable or disable the (virual) pixels between ASICs
Examples
----------
::
d.add_gappixels = True
d.add_gappixels
>> True
"""
return self._api.getGapPixels()
@add_gappixels.setter
@error_handling
def add_gappixels(self, value):
self._api.setGapPixels(value)
@property
def dacs(self):
"""
An instance of DetectorDacs used for accessing the dacs of a single
or multi detector.
Examples
---------
::
d = Eiger()
#Set all vrf to 1500
d.dacs.vrf = 1500
#Check vrf
d.dacs.vrf
>> vrf : 1500, 1500
#Set a single vtr
d.dacs.vtr[0] = 1800
#Set vrf with multiple values
d.dacs.vrf = [3500,3700]
d.dacs.vrf
>> vrf : 3500, 3700
#read into a variable
var = d.dacs.vrf[:]
#set multiple with multiple values, mostly used for large systems
d.dacs.vcall[0,1] = [3500,3600]
d.dacs.vcall
>> vcall : 3500, 3600
d.dacs
>>
========== DACS =========
vsvp : 0, 0
vtr : 4000, 4000
vrf : 1900, 1900
vrs : 1400, 1400
vsvn : 4000, 4000
vtgstv : 2556, 2556
vcmp_ll : 1500, 1500
vcmp_lr : 1500, 1500
vcall : 4000, 4000
vcmp_rl : 1500, 1500
rxb_rb : 1100, 1100
rxb_lb : 1100, 1100
vcmp_rr : 1500, 1500
vcp : 1500, 1500
vcn : 2000, 2000
vis : 1550, 1550
iodelay : 660, 660
"""
return self._dacs
@property
@error_handling
def tx_delay(self):
"""
Transmission delay of the modules to allow running the detector
in a network not supporting the full speed of the detector.
::
d.tx_delay
>>
Transmission delay [ns]
left right frame
0:beb048 0 15000 0
1:beb049 100 190000 100
d.tx_delay.left = [2000,5000]
"""
return self._delay
def default_settings(self):
"""
reset the detector to some type of standard settings
mostly used when testing
"""
self.n_frames = 1
self.exposure_time = 1
self.period = 0
self.n_cycles = 1
self.n_measurements = 1
self.dynamic_range = 16
@property
@error_handling
def eiger_matrix_reset(self):
"""
Matrix reset bit for Eiger.
:py:obj:`True` : Normal operation, the matrix is reset before each acq.
:py:obj:`False` : Matrix reset disabled. Used to not reset before
reading out analog test pulses.
"""
return self._api.getCounterBit()
@eiger_matrix_reset.setter
@error_handling
def eiger_matrix_reset(self, value):
self._api.setCounterBit(value)
@property
@error_handling
def flowcontrol_10g(self):
"""
:py:obj:`True` - Flow control enabled :py:obj:`False` flow control disabled.
Sets for all moduels, if for some reason access to a single module is needed
this can be done trough the C++ API.
"""
fc = self._api.getNetworkParameter('flow_control_10g')
return element_if_equal([bool(int(e)) for e in fc])
@flowcontrol_10g.setter
@error_handling
def flowcontrol_10g(self, value):
if value is True:
v = '1'
else:
v = '0'
self._api.setNetworkParameter('flow_control_10g', v, -1)
@error_handling
def pulse_all_pixels(self, n):
"""
Pulse each pixel of the chip **n** times using the analog test pulses.
The pulse height is set using d.dacs.vcall with 4000 being 0 and 0 being
the highest pulse.
::
#Pulse all pixels ten times
d.pulse_all_pixels(10)
#Avoid resetting before acq
d.eiger_matrix_reset = False
d.acq() #take frame
#Restore normal behaviour
d.eiger_matrix_reset = True
"""
self._api.pulseAllPixels(n)
@error_handling
def pulse_diagonal(self, n):
"""
Pulse pixels in super colums in a diagonal fashion. Used for calibration
of vcall. Saves time compared to pulsing all pixels.
"""
self._api.pulseDiagonal(n)
@error_handling
def pulse_chip(self, n):
"""
Advance the counter by toggling enable. Gives 2*n+2 int the counter
"""
n = int(n)
if n >= -1:
self._api.pulseChip(n)
else:
raise ValueError('n must be equal or larger than -1')
@property
def vcmp(self):
"""
Convenience function to get and set the individual vcmp of chips
Used mainly in the calibration code.
Examples
---------
::
#Reading
d.vcmp[:]
>> [500, 500, 500, 500, 500, 500, 500, 500]
#Setting
d.vcmp = [500, 500, 500, 500, 500, 500, 500, 500]
"""
return self._vcmp
@vcmp.setter
@error_handling
def vcmp(self, values):
if len(values) == len(self._vcmp.set):
for i, v in enumerate(values):
self._vcmp.set[i](v)
else:
raise ValueError('vcmp only compatible with setting all')
@property
@error_handling
def rx_udpport(self):
"""
UDP port for the receiver. Each module has two ports referred to
as rx_udpport and rx_udpport2 in the command line interface
here they are grouped for each detector
::
[0:rx_udpport, 0:rx_udpport2, 1:rx_udpport ...]
Examples
-----------
::
d.rx_udpport
>> [50010, 50011, 50004, 50005]
d.rx_udpport = [50010, 50011, 50012, 50013]
"""
p0 = self._api.getNetworkParameter('rx_udpport')
p1 = self._api.getNetworkParameter('rx_udpport2')
return [int(val) for pair in zip(p0, p1) for val in pair]
@rx_udpport.setter
@error_handling
def rx_udpport(self, ports):
"""Requires iterating over elements two and two for setting ports"""
a = iter(ports)
for i, p in enumerate(zip(a, a)):
self._api.setNetworkParameter('rx_udpport', str(p[0]), i)
self._api.setNetworkParameter('rx_udpport2', str(p[1]), i)
@property
@error_handling
def rx_zmqport(self):
"""
Return the receiver zmq ports. Note that Eiger has two ports per receiver!
::
detector.rx_zmqport
>> [30001, 30002, 30003, 30004]
"""
_s = self._api.getNetworkParameter('rx_zmqport')
if _s == '':
return []
else:
return [int(_p) + i for _p in _s for i in range(2)]
@rx_zmqport.setter
@error_handling
def rx_zmqport(self, port):
if isinstance(port, Iterable):
for i, p in enumerate(port):
self._api.setNetworkParameter('rx_zmqport', str(p), i)
else:
self._api.setNetworkParameter('rx_zmqport', str(port), -1)
@property
@error_handling
def sub_exposure_time(self):
"""
Sub frame exposure time in *seconds* for Eiger in 32bit autosumming mode
::
d.sub_exposure_time
>> 0.0023
d.sub_exposure_time = 0.002
"""
return self._api.getSubExposureTime() / 1e9
@sub_exposure_time.setter
@error_handling
def sub_exposure_time(self, t):
#TODO! checking here or in the detector?
ns_time = int(t * 1e9)
if ns_time > 0:
self._api.setSubExposureTime(ns_time)
else:
raise DetectorValueError('Sub exposure time must be larger than 0')
@property
@error_handling
def sub_deadtime(self):
"""
Deadtime between subexposures. Used to mimize noise by delaying the start of the next
subexposure.
"""
return self._api.getSubExposureDeadTime() / 1e9
@sub_deadtime.setter
@error_handling
def sub_deadtime(self, t):
ns_time = int(t * 1e9)
if ns_time >= 0:
self._api.setSubExposureDeadTime(ns_time)
else:
raise ValueError('Sub deadtime time must be larger or equal to 0')
@property
def temp(self):
"""
An instance of DetectorAdcs used to read the temperature
of different components
Examples
-----------
::
detector.temp
>>
temp_fpga : 36.90°C, 45.60°C
temp_fpgaext : 31.50°C, 32.50°C
temp_10ge : 0.00°C, 0.00°C
temp_dcdc : 36.00°C, 36.00°C
temp_sodl : 33.00°C, 34.50°C
temp_sodr : 33.50°C, 34.00°C
temp_fpgafl : 33.81°C, 30.93°C
temp_fpgafr : 27.88°C, 29.15°C
a = detector.temp.fpga[:]
a
>> [36.568, 45.542]
"""
return self._temp
@property
@error_handling
def tengiga(self):
"""Enable 10Gbit/s data output
Examples
----------
::
d.tengiga
>> False
d.tengiga = True
"""
return self._api.getTenGigabitEthernet()
@tengiga.setter
@error_handling
def tengiga(self, value):
self._api.setTenGigabitEthernet(value)
def set_delays(self, delta):
self.tx_delay.left = [delta*(i*2) for i in range(self.n_modules)]
self.tx_delay.right = [delta*(i*2+1) for i in range(self.n_modules)]
def setup500k(self, hostnames):
"""
Setup the Eiger detector to run on the local machine
"""
self.hostname = hostnames
self.file_write = False
self.image_size = (512, 1024)
self.rx_tcpport = [1954, 1955]
self.rx_udpport = [50010, 50011, 50004, 50005]
self.rx_hostname = socket.gethostname().split('.')[0]
self.rx_datastream = False
self.file_write = False
self.online = True
self.receiver_online = True

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Thu Dec 14 17:13:55 2017
@author: l_frojdh
"""
class DetectorError(Exception):
"""
This error should be used when something fails
on the detector side
"""
pass
class DetectorSettingDoesNotExist(Exception):
"""This error should be used when the setting does not exist"""
pass
class DetectorValueError(Exception):
"""This error should be used when the set value is outside the allowed range"""
pass

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Jungfrau detector class and support functions.
Inherits from Detector.
"""
from .adcs import Adc, DetectorAdcs
from .decorators import error_handling
from .detector import Detector
from .dacs import DetectorDacs
from .utils import element_if_equal
class JungfrauDacs(DetectorDacs):
_dacs = [('vb_comp', 0, 4000, 1220),
('vdd_prot', 0, 4000, 3000),
('vin_com', 0, 4000, 1053),
('vref_prech', 0, 4000, 1450),
('vb_pixbuff', 0, 4000, 750),
('vb_ds', 0, 4000, 1000),
('vref_ds', 0, 4000, 480),
('vref_comp', 0, 4000, 420),
]
_dacnames = [_d[0] for _d in _dacs]
class Jungfrau(Detector):
"""
Class used to control a Jungfrau detector. Inherits from the Detector class but a specialized
class is needed to provide the correct dacs and unique functions.
"""
_detector_dynamic_range = [4, 8, 16, 32]
_settings = ['dynamichg0',
'dynamicgain',
'fixgain1',
'fixgain2',
'forceswitchg1',
'forceswitchg2']
"""Available settings for Jungfrau"""
def __init__(self, multi_id=0):
#Init on base calss
super().__init__(multi_id)
self._dacs = JungfrauDacs(self)
#Jungfrau specific temps, this can be reduced to a single value?
self._temp = DetectorAdcs()
self._temp.fpga = Adc('temp_fpga', self)
# self._register = Register(self)
@property
def dacs(self):
"""
An instance of DetectorDacs used for accessing the dacs of a single
or multi detector.
Examples
---------
::
#Jungfrau
"""
return self._dacs
@property
@error_handling
def power_chip(self):
"""Power on or off the ASICs, True for on False for off"""
return self._api.isChipPowered()
@power_chip.setter
@error_handling
def power_chip(self, value):
self._api.powerChip(value)
@property
@error_handling
def delay(self):
"""Delay after trigger [s]"""
return self._api.getDelay()/1e9
@delay.setter
@error_handling
def delay(self, t):
ns_time = int(t * 1e9)
self._api.setDelay(ns_time)
@property
@error_handling
def n_gates(self):
return self._api.getNumberOfGates()
@n_gates.setter
@error_handling
def n_gates(self, n):
self._api.setNumberOfGates(n)
@property
@error_handling
def n_probes(self):
return self._api.getNumberOfProbes()
@n_probes.setter
@error_handling
def n_probes(self, n):
self._api.setNumberOfProbes(n)
@property
@error_handling
def storagecell_start(self):
"""
First storage cell
"""
return self._api.getStoragecellStart()
@storagecell_start.setter
@error_handling
def storagecell_start(self, value):
self._api.setStoragecellStart(value)
@property
@error_handling
def n_storagecells(self):
"""
number of storage cells used for the measurements
"""
return self._api.getNumberOfStorageCells()
@n_storagecells.setter
@error_handling
def n_storagecells(self, value):
self._api.setNumberOfStorageCells(value)
@property
def temp(self):
"""
An instance of DetectorAdcs used to read the temperature
of different components
Examples
-----------
::
detector.temp
>>
temp_fpga : 36.90°C, 45.60°C
a = detector.temp.fpga[:]
a
>> [36.568, 45.542]
"""
return self._temp
@property
def temperature_threshold(self):
"""Threshold for switching of chips"""
return self._api.getThresholdTemperature()
@temperature_threshold.setter
def temperature_threshold(self, t):
self._api.setThresholdTemperature(t)
@property
def temperature_control(self):
"""
Monitor the temperature of the detector and switch off chips if temperature_threshold is
crossed
Examples
---------
::
#activate
detector.temperature_control = True
#deactivate
detector.temperature_control = False
"""
return self._api.getTemperatureControl()
@temperature_control.setter
def temperature_control(self, v):
self._api.setTemperatureControl(v)
@property
def temperature_event(self):
"""Have the temperature threshold been crossed?
Returns
---------
:py:obj:`True` if the threshold have been crossed and temperature_control is active
otherwise :py:obj:`False`
"""
return self._api.getTemperatureEvent()
def reset_temperature_event(self):
"""Reset the temperature_event. After reset temperature_event is False"""
self._api.resetTemperatureEvent()
@property
@error_handling
def rx_udpport(self):
"""
UDP port for the receiver. Each module have one port.
Note! Eiger has two ports
::
[0:rx_udpport]
Examples
-----------
::
d.rx_udpport
>> [50010]
d.rx_udpport = [50010]
"""
return self._api.getNetworkParameter('rx_udpport')
@rx_udpport.setter
@error_handling
def rx_udpport(self, ports):
"""Requires iterating over elements two and two for setting ports"""
for i, p in enumerate(ports):
self._api.setNetworkParameter('rx_udpport', str(p), i)
@property
def detector_mac(self):
s = self._api.getNetworkParameter('detectormac')
return element_if_equal(s)
@detector_mac.setter
def detector_mac(self, mac):
if isinstance(mac, list):
for i, m in enumerate(mac):
self._api.setNetworkParameter('detectormac', m, i)
else:
self._api.setNetworkParameter('detectormac', mac, -1)
@property
@error_handling
def detector_ip(self):
s = self._api.getNetworkParameter('detectorip')
return element_if_equal(s)
@detector_ip.setter
def detector_ip(self, ip):
if isinstance(ip, list):
for i, addr in enumerate(ip):
self._api.setNetworkParameter('detectorip', addr, i)
else:
self._api.setNetworkParameter('detectorip', ip, -1)

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from functools import partial
from collections.abc import Iterable
from collections import namedtuple
import socket
from .detector import Detector
from .utils import element_if_equal
from .adcs import DetectorAdcs, Adc
from .dacs import DetectorDacs
from .detector_property import DetectorProperty
from .decorators import error_handling
from .registers import Register, Adc_register
class JungfrauCTBDacs(DetectorDacs):
_dacs = [('dac0', 0, 4000, 1400),
('dac1', 0, 4000, 1200),
('dac2', 0, 4000, 900),
('dac3', 0, 4000, 1050),
('dac4', 0, 4000, 1400),
('dac5', 0, 4000, 655),
('dac6', 0, 4000, 2000),
('dac7', 0, 4000, 1400),
('dac8', 0, 4000, 850),
('dac9', 0, 4000, 2000),
('dac10', 0, 4000, 2294),
('dac11', 0, 4000, 983),
('dac12', 0, 4000, 1475),
('dac13', 0, 4000, 1200),
('dac14', 0, 4000, 1600),
('dac15', 0, 4000, 1455),
('dac16', 0, 4000, 0),
('dac17', 0, 4000, 1000),
]
_dacnames = [_d[0] for _d in _dacs]
class JungfrauCTB(Detector):
def __init__(self, id = 0):
super().__init__(id)
self._dacs = JungfrauCTBDacs(self)
self._register = Register(self)
self._adc_register = Adc_register(self)
@property
def v_a(self):
return self._api.getDac_mV('v_a', -1)
@v_a.setter
def v_a(self, value):
self._api.setDac_mV('v_a', -1, value)
@property
def v_b(self):
return self._api.getDac_mV('v_b', -1)
@v_b.setter
def v_b(self, value):
self._api.setDac_mV('v_b', -1, value)
@property
def v_c(self):
return self._api.getDac_mV('v_c', -1)
@v_c.setter
def v_c(self, value):
self._api.setDac_mV('v_c', -1, value)
@property
def v_d(self):
return self._api.getDac_mV('v_d', -1)
@v_d.setter
def v_d(self, value):
self._api.setDac_mV('v_d', -1, value)
@property
def v_io(self):
return self._api.getDac_mV('v_io', -1)
@v_io.setter
def v_io(self, value):
self._api.setDac_mV('v_io', -1, value)
@property
def v_limit(self):
return self._api.getDac_mV('v_limit', -1)
@v_limit.setter
def v_limit(self, value):
self._api.setDac_mV('v_limit', -1, value)
@property
def adc_register(self):
return self._adc_register
# @property
# def register(self):
# return self._register
def adcOFF(self):
"""Switch off the ADC"""
self.adc_register[0x8] = 1
@property
def dacs(self):
"""
An instance of DetectorDacs used for accessing the dacs of a single
or multi detector.
Examples
---------
::
#JungfrauCTB
"""
return self._dacs
@property
def dbitpipeline(self):
return self._api.getDbitPipeline()
@dbitpipeline.setter
def dbitpipeline(self, value):
self._api.setDbitPipeline(value)
@property
def dbitphase(self):
return self._api.getDbitPhase()
@dbitphase.setter
def dbitphase(self, value):
self._api.setDbitPhase(value)
@property
def dbitclock(self):
return self._api.getDbitClock()
@dbitclock.setter
def dbitclock(self, value):
self._api.setDbitClock(value)
@property
def samples(self):
return self._api.getJCTBSamples()
@samples.setter
def samples(self, value):
self._api.setJCTBSamples(value)
@property
@error_handling
def readout_clock(self):
"""
Speed of the readout clock relative to the full speed
Examples
---------
::
"""
return self._api.getReadoutClockSpeed()
@readout_clock.setter
@error_handling
def readout_clock(self, value):
self._api.setReadoutClockSpeed(value)

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from .decorators import error_handling, property_error_handling
class Register:
def __init__(self, detector):
self._detector = detector
@property_error_handling
def __getitem__(self, key):
return self._detector._api.readRegister(key)
def __setitem__(self, key, value):
self._detector._api.writeRegister(key, value)
class Adc_register:
def __init__(self, detector):
self._detector = detector
def __setitem__(self, key, value):
self._detector._api.writeAdcRegister(key, value)

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"""
Utility functions that are useful for testing and troubleshooting
but not directly used in controlling the detector
"""
def all_equal(mylist):
"""If all elements are equal return true otherwise false"""
return all(x == mylist[0] for x in mylist)
def element_if_equal(mylist):
"""If all elements are equal return only one element"""
if all_equal(mylist):
if len(mylist) == 0:
return None
else:
return mylist[0]
else:
return mylist
def eiger_register_to_time(register):
"""
Decode register value and return time in s. Values are stored in
a 32bit register with bits 2->0 containing the exponent and bits
31->3 containing the significand (int value)
"""
clocks = register >> 3
exponent = register & 0b111
return clocks*10**exponent / 100e6

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# Minimal makefile for Sphinx documentation
#
# You can set these variables from the command line.
SPHINXOPTS =
SPHINXBUILD = python -msphinx
SPHINXPROJ = sls_detector_tools
SOURCEDIR = .
BUILDDIR = _build
# Put it first so that "make" without argument is like "make help".
help:
@$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
.PHONY: help Makefile
# Catch-all target: route all unknown targets to Sphinx using the new
# "make mode" option. $(O) is meant as a shortcut for $(SPHINXOPTS).
%: Makefile
@$(SPHINXBUILD) -M $@ "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)

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Code quality
=============================
For usability and reliability of the software the code needs to be high quality. For this
project it means meeting the four criteria described below. Any addition should pass all of
them.
--------------------------------
Look, read and feel like Python
--------------------------------
When using classes and functions from the
package it should feel like you are using Python tools and be forces
to write C++ style code with Python syntax.
::
with xray_box.shutter_open():
for th in threshold:
d.vthreshold = th
d.acq()
should be preferred over
::
N = len(threshold)
xray_box.open_shutter()
for i in range(N):
d.dacs.set_dac('vthreshold', threshold[i])
d.acq()
xray_box.close_shutter()
even if the difference might seem small.
--------------------
Have documentation
--------------------
Classes and functions should be documented with doc-strings
in the source code. Preferably with examples. The syntax to be used
is numpy-sphinx.
::
def function(arg):
"""
This is a function that does something
Parameters
----------
arg: int
An argument
Returns
--------
value: double
Returns a value
"""
return np.sin(arg+np.pi)
---------------------------------
Pass static analysis with pylint
---------------------------------
Yes, anything less than 9/10 just means that you are lazy. If
there is a good reason why to diverge, then we can always
add an exception.
Currently the following additions are made:
* good-names: x, y, ax, im etc.
* function arguments 10
* Whitelist: numpy, _sls
-----------------------
Tested code
-----------------------
Last but not least... *actually last just because of the long list included.*
All code that goes in should have adequate tests. If a new function does not
have a minimum of one test it does not get added.
**Unit-tests with pytest and mocker**
::
----------- coverage: platform linux, python 3.6.4-final-0 -----------
Name Stmts Miss Cover
------------------------------------------------
sls_detector/__init__.py 4 0 100%
sls_detector/decorators.py 14 3 79%
sls_detector/detector.py 461 115 75%
sls_detector/eiger.py 150 64 57%
sls_detector/errors.py 7 0 100%
sls_detector/jungfrau.py 59 26 56%
------------------------------------------------
TOTAL 695 208 70%
========= 78 passed in 0.60 seconds =========
**Simple integration tests**
These tests require a detector connected. Performs simple tasks like setting
exposure time and reading back to double check the value
::
----------- coverage: platform linux, python 3.6.4-final-0 -----------
Name Stmts Miss Cover
------------------------------------------------
sls_detector/__init__.py 4 0 100%
sls_detector/decorators.py 14 0 100%
sls_detector/detector.py 461 103 78%
sls_detector/eiger.py 150 20 87%
sls_detector/errors.py 7 0 100%
sls_detector/jungfrau.py 59 26 56%
------------------------------------------------
TOTAL 695 149 79%
========= 67 passed, 1 skipped in 16.66 seconds =========
**Complex integration test**
Typical measurements. Might require X-rays. Tests are usually evaluated from
plots

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Command line to Python
=========================
If you are already familiar with the command line interface to the
slsDetectorSoftware here is a quick reference translating to Python commands
.. note ::
Commands labeled Mythen only or Gotthard only are currently not implemented in the
Python class. If you need this functionallity please contact the SLS Detector Group
.. py:currentmodule:: sls_detector
.. |ro| replace:: *(read only)*
.. |free| replace:: :py:func:`Detector.free_shared_memory`
.. |sub| replace:: :py:attr:`Detector.sub_exposure_time`
.. |mg| replace:: Mythen and Gotthard only
.. |g| replace:: Gotthard only
.. |m| replace:: Mythen only
.. |msp| replace:: :py:attr:`Detector.measured_subperiod`
.. |new_chiptest| replace:: New chip test board only
.. |chiptest| replace:: Chip test board only
.. |dr| replace:: :py:attr:`Detector.dynamic_range`
.. |j| replace:: Jungfrau only
.. |te| replace:: :py:attr:`Detector.trimmed_energies`
.. |temp_fpgaext| replace:: :py:attr:`Detector.temp`.fpgaext
.. |epa| replace:: :py:func:`Eiger.pulse_all_pixels`
.. |rfc| replace:: :py:func:`Detector.reset_frames_caught`
.. |rfi| replace:: :py:attr:`Detector.receiver_frame_index`
.. |ron| replace:: :py:attr:`Detector.receiver_online`
.. |flipy| replace:: :py:attr:`Detector.flipped_data_y`
.. |flipx| replace:: :py:attr:`Detector.flipped_data_x`
.. |adcr| replace:: :py:func:`DetectorApi.writeAdcRegister`
.. |sb| replace:: :py:func:`DetectorApi.setBitInRegister`
.. |cb| replace:: :py:func:`DetectorApi.clearBitInRegister`
.. |tempth| replace:: :py:attr:`Jungfrau.temperature_threshold`
.. |tempev| replace:: :py:attr:`Jungfrau.temperature_event`
.. |tempco| replace:: :py:attr:`Jungfrau.temperature_control`
.. |depr| replace:: *Deprecated/Internal*
.. |nimp| replace:: *Not implemented*
.. |rudp| replace:: :py:attr:`Detector.rx_realudpsocksize`
.. |lci| replace:: :py:attr:`Detector.last_client_ip`
.. |rlci| replace:: :py:attr:`Detector.receiver_last_client_ip`
.. |fdp| replace:: :py:attr:`Detector.frame_discard_policy`
.. |apic| replace:: :py:attr:`Detector.api_compatibility`
------------------------
Commands
------------------------
===================== ===================================== ================== =========
Command Python Implementation Tests
===================== ===================================== ================== =========
sls_detector_acquire :py:func:`Detector.acq` OK OK
test |depr| \- \-
help help(Detector.acq) \- \-
exitserver |depr| \- \-
exitreceiver |depr| \- \-
flippeddatay |flipy| OK \-
digitest |depr| \- \-
bustest |depr| \- \-
digibittest Which detector? \- \-
reg :py:attr:`Detector.register` OK \-
adcreg |adcr| OK \-
setbit |sb| OK \-
clearbit |cb| OK \-
getbit |nimp| \- \-
r_compression Not implemented in receiver \- \-
acquire :py:func:`Detector.acq` OK \-
busy :py:attr:`Detector.busy` OK Partial
status :py:attr:`Detector.status` OK |ro| \-
status start :py:func:`Detector.start_detector` OK \-
status stop :py:func:`Detector.stop_detector` OK \-
data |depr| \- \-
frame |depr| \- \-
readctr |g| \- \-
resetctr |g| \- \-
resmat :py:attr:`Eiger.eiger_matrix_reset` OK OK
free |free| OK \-
hostname :py:attr:`Detector.hostname` OK OK
add |nimp| \- \-
replace |nimp| \- \-
user |nimp| \- \-
master |nimp| \- \-
sync Which detector? \- \-
online :py:attr:`Detector.online` OK \-
checkonline |nimp| \- \-
activate :py:attr:`Eiger.active` \- \-
nmod :py:attr:`Detector.n_modules` OK \-
maxmod |depr| \- \-
dr |dr| OK OK
roi |g| \- \-
detsizechan :py:attr:`Detector.image_size` OK \-
roimask |nimp| \- \-
flippeddatax |flipx| OK \-
tengiga :py:attr:`Eiger.tengiga` OK \-
gappixels :py:attr:`Eiger.add_gappixels` OK \-
flags :py:attr:`Detector.flags` OK \-
extsig |mg| \- \-
programfpga |j| \- \-
resetfpga |j| \- \-
powerchip :py:attr:`Jungfrau.powerchip` \- \-
led |nimp| \- \-
auto_comp_disable |j| \- \-
pulse Used in |epa| OK \-
pulsenmove Used in |epa| OK \-
pulsechip :py:func:`Eiger.pulse_chip` OK \-
checkdetversion |apic| \- \-
checkrecversion |apic| \- \-
moduleversion |m| \- \-
detectornumber :py:attr:`Detector.detector_number` OK \-
modulenumber |m| \- \-
detectorversion :py:attr:`Detector.firmware_version` OK OK
softwareversion :py:attr:`Detector.server_version` \- \-
thisversion :py:attr:`Detector.client_version` Reads date \-
receiverversion :py:attr:`Detector.receiver_version` Reads date \-
timing :py:attr:`Detector.timing_mode` OK \-
exptime :py:attr:`Detector.exposure_time` OK OK
subexptime |sub| OK OK
period :py:attr:`Detector.period` OK OK
subdeadtime :py:attr:`Eiger.sub_deadtime` OK OK
delay :py:attr:`Jungfrau.delay` OK \-
gates :py:attr:`Jungfrau.n_gates` OK \-
frames :py:attr:`Detector.n_frames` OK OK
cycles :py:attr:`Detector.n_cycles` OK \-
probes :py:attr:`Jungfrau.n_probes` OK \-
measurements :py:attr:`Detector.n_measurements` OK \-
samples Chip test board only (new?) \- \-
storagecells :py:attr:`Jungfrau.n_storagecells` OK \-
storagecell_start :py:attr:`Jungfrau.storagecell_start` OK \-
exptimel |mg| \- \-
periodl |mg| \- \-
delayl |mg| \- \-
gatesl |mg| \- \-
framesl |mg| \- \-
cyclesl |mg| \- \-
probesl |mg| \- \-
now |nimp| \- \-
timestamp |m| \- \-
nframes |nimp| \- \-
measuredperiod :py:attr:`Detector.measured_period` OK \-
measuredsubperiod |msp| \- \-
clkdivider :py:attr:`Detector.readout_clock` OK OK
setlength |m| \- \-
waitstates |m| \- \-
totdivider |m| \- \-
totdutycycle |m| \- \-
phasestep |g| \- \-
oversampling |new_chiptest| \- \-
adcclk |new_chiptest| \- \-
adcphase |new_chiptest| \- \-
adcpipeline |new_chiptest| \- \-
dbitclk |new_chiptest| \- \-
dbitphase |new_chiptest| \- \-
dbitpipeline |new_chiptest| \- \-
config :py:func:`Detector.load_config` OK \-
rx_printconfig |nimp| \- \-
parameters :py:func:`Detector.load_parameters` OK \-
setup |nimp| \- \-
flatfield |nimp| \- \-
ffdir |nimp| \- \-
ratecorr :py:attr:`Detector.rate_correction` OK \-
badchannels |nimp| \- \-
angconv |m| \- \-
globaloff |nimp| \- \-
fineoff |nimp| \- \-
binsize |nimp| \- \-
angdir |nimp| \- \-
moveflag |nimp| \- \-
samplex |nimp| \- \-
sampley |nimp| \- \-
threaded :py:attr:`Detector.threaded` OK \-
darkimage |nimp| \- \-
gainimage |nimp| \- \-
settingsdir :py:attr:`Detector.settings_path` OK \-
trimdir |nimp| \- \-
caldir |nimp| \- \-
trimen :py:attr:`Detector.trimmed_energies` OK \-
settings :py:attr:`Detector.settings` OK \-
threshold :py:attr:`Detector.threshold` OK \-
thresholdnotb |nimp| \- \-
trimbits :py:func:`Detector.load_trimbits` OK \-
trim |nimp| \- \-
trimval :py:attr:`Detector.trimbits` OK OK
pedestal |nimp| \- \-
vthreshold :py:attr:`Detector.vthreshold` OK \-
vcalibration |nimp| \- \-
vtrimbit |nimp| \- \-
vpreamp |nimp| \- \-
vshaper1 |nimp| \- \-
vshaper2 |nimp| \- \-
vhighvoltage :py:attr:`Detector.high_voltage` OK \-
vapower |nimp| \- \-
vddpower |nimp| \- \-
vshpower |nimp| \- \-
viopower |nimp| \- \-
vref_ds :py:attr:`Jungfrau.dacs.vref_ds` OK \-
vcascn_pb |nimp| \- \-
vcascp_pb |nimp| \- \-
vout_cm |nimp| \- \-
vcasc_out |nimp| \- \-
vin_cm |nimp| \- \-
vref_comp |nimp| \- \-
ib_test_c |nimp| \- \-
dac0 |nimp| \- \-
dac1 |nimp| \- \-
dac2 |nimp| \- \-
dac3 |nimp| \- \-
dac4 |nimp| \- \-
dac5 |nimp| \- \-
dac6 |nimp| \- \-
dac7 |nimp| \- \-
vsvp :py:attr:`Eiger.dacs.vsvp` OK \-
vsvn :py:attr:`Eiger.dacs.vsvn` OK \-
vtr :py:attr:`Eiger.dacs.vtr` OK \-
vrf :py:attr:`Eiger.dacs.vrf` OK \-
vrs :py:attr:`Eiger.dacs.vrs` OK \-
vtgstv :py:attr:`Eiger.dacs.vtgstv` OK \-
vcmp_ll :py:attr:`Eiger.dacs.vcmp_ll` OK \-
vcmp_ll :py:attr:`Eiger.dacs.vcmp_ll` OK \-
vcall :py:attr:`Eiger.dacs.vcall` OK \-
vcmp_rl :py:attr:`Eiger.dacs.vcmp_rl` OK \-
vcmp_rr :py:attr:`Eiger.dacs.vcmp_rr` OK \-
rxb_rb :py:attr:`Eiger.dacs.rxb_rb` OK \-
rxb_lb :py:attr:`Eiger.dacs.rxb_lb` OK \-
vcp :py:attr:`Eiger.dacs.vcp` OK \-
vcn :py:attr:`Eiger.dacs.vcn` OK \-
vis :py:attr:`Eiger.dacs.vis` OK \-
iodelay :py:attr:`Eiger.dacs.iodelay` OK \-
dac |nimp| \- \-
adcvpp |nimp| \- \-
v_a |nimp| \- \-
v_b |nimp| \- \-
v_c |nimp| \- \-
v_d |nimp| \- \-
v_io |nimp| \- \-
v_chip |nimp| \- \-
v_limit |nimp| \- \-
vIpre |nimp| \- \-
VcdSh |nimp| \- \-
Vth1 |nimp| \- \-
Vth2 |nimp| \- \-
Vth3 |nimp| \- \-
VPL |nimp| \- \-
Vtrim |nimp| \- \-
vIbias |nimp| \- \-
vIinSh |nimp| \- \-
cas |nimp| \- \-
casSh |nimp| \- \-
vIbiasSh |nimp| \- \-
vIcin |nimp| \- \-
vIpreOut |nimp| \- \-
temp_adc |nimp| \- \-
temp_fpga :py:attr:`Detector.temp`.fpga OK \-
temp_fpgaext |temp_fpgaext| OK \-
temp_10ge :py:attr:`Detector.temp`.t10ge OK \-
temp_dcdc :py:attr:`Detector.temp`.dcdc OK \-
temp_sodl :py:attr:`Detector.temp`.sodl OK \-
temp_sodr :py:attr:`Detector.temp`.sodr OK \-
adc |nimp| \- \-
temp_fpgafl :py:attr:`Detector.temp`.fpgafl OK \-
temp_fpgafr :py:attr:`Detector.temp`.fpgafr OK \-
i_a |nimp| \- \-
i_b |nimp| \- \-
i_c |nimp| \- \-
i_d |nimp| \- \-
i_io |nimp| \- \-
vm_a |nimp| \- \-
vm_b |nimp| \- \-
vm_c |nimp| \- \-
vm_d |nimp| \- \-
vm_io |nimp| \- \-
temp_threshold |tempth| \- \-
temp_control |tempco| \- \-
temp_event |tempev| \- \-
outdir :py:attr:`Detector.file_path` OK OK
fname :py:attr:`Detector.file_name` OK OK
index :py:attr:`Detector.file_index` OK OK
enablefwrite :py:attr:`Detector.file_write` OK OK
overwrite :py:attr:`Detector.file_overwrite` OK \-
currentfname |nimp| \- \-
fileformat :py:attr:`Detector.file_format` OK \-
positions |depr| \- \-
startscript |depr| \- \-
startscriptpar |depr| \- \-
stopscript |depr| \- \-
stopscriptpar |depr| \- \-
scriptbefore |depr| \- \-
scriptbeforepar |depr| \- \-
scriptafter |depr| \- \-
scriptafterpar |depr| \- \-
headerafter |depr| \- \-
headerbefore |depr| \- \-
headerbeforepar |depr| \- \-
headerafterpar |depr| \- \-
encallog |depr| \- \-
angcallog |depr| \- \-
scan0script |depr| \- \-
scan0par |depr| \- \-
scan0prec |depr| \- \-
scan0steps |depr| \- \-
scan0range |depr| \- \-
scan1script |depr| \- \-
scan1par |depr| \- \-
scan1prec |depr| \- \-
scan1steps |depr| \- \-
scan1range |depr| \- \-
rx_hostname :py:attr:`Detector.rx_hostname` OK \-
rx_udpip :py:attr:`Detector.rx_udpip` OK \-
rx_udpmac :py:attr:`Detector.rx_udpmac` OK \-
rx_udpport :py:attr:`Detector.rx_udpport` OK \-
rx_udpport2 :py:attr:`Detector.rx_udpport` OK \-
rx_udpsocksize :py:attr:`Detector.rx_udpsocksize` OK \-
rx_realudpsocksize |rudp| OK
detectormac :py:attr:`Detector.detector_mac` OK \-
detectorip :py:attr:`Detector.detector_ip` OK \-
txndelay_left :py:attr:`Eiger.delay`.left OK \-
txndelay_right :py:attr:`Eiger.delay`.right OK \-
txndelay_frame :py:attr:`Eiger.delay`.frame OK \-
flowcontrol_10g :py:attr:`Eiger.flowcontrol_10g` OK \-
zmqport :py:attr:`Detector.client_zmqport` Read \-
rx_zmqport :py:attr:`Detector.rx_zmqport` Read \-
rx_datastream :py:attr:`Detector.rx_datastream` OK \-
zmqip :py:attr:`Detector.client_zmqip` OK \-
rx_zmqip :py:attr:`Detector.rx_zmqip` Read \-
rx_jsonaddheader :py:attr:`Detector.rx_jsonaddheader` OK \-
configuremac :py:attr:`Detector.config_network` OK \-
rx_tcpport :py:attr:`Detector.rx_tcpport`
port |nimp| \- \-
stopport |nimp| \- \-
lock :py:attr:`Detector.lock` OK \-
lastclient :py:attr:`Detector.last_client_ip` OK \-
receiver start :py:func:`Detector.start_receiver` OK \-
receiver stop :py:func:`Detector.stop_receiver` \- \-
r_online |ron| OK \-
r_checkonline |nimp| \- \-
framescaught :py:attr:`Detector.frames_caught` OK \-
resetframescaught |rfc| OK \-
frameindex |rfi| OK \-
r_lock :py:attr:`Detector.lock_receiver` OK \-
r_lastclient |rlci| OK \-
r_readfreq |nimp| \- \-
rx_fifodepth :py:attr:`Detector.rx_fifodepth` OK \-
r_silent |nimp| \- \-
r_framesperfile :py:attr:`Detector.n_frames_per_file` OK \-
r_discardpolicy |fdp| OK \-
r_padding :py:attr:`Detector.file_padding` OK \-
adcinvert |chiptest| \- \-
adcdisable |chiptest| \- \-
pattern |chiptest| \- \-
patword |chiptest| \- \-
patioctrl |chiptest| \- \-
patclkctrl |chiptest| \- \-
patlimits |chiptest| \- \-
patloop0 |chiptest| \- \-
patnloop0 |chiptest| \- \-
patwait0 |chiptest| \- \-
patwaittime0 |chiptest| \- \-
patloop1 |chiptest| \- \-
patnloop1 |chiptest| \- \-
patwait1 |chiptest| \- \-
patwaittime1 |chiptest| \- \-
patloop2 |chiptest| \- \-
patnloop2 |chiptest| \- \-
patwait2 |chiptest| \- \-
patwaittime2 |chiptest| \- \-
dut_clk |chiptest| \- \-
===================== ===================================== ================== =========

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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
#
# sls_detector_tools documentation build configuration file, created by
# sphinx-quickstart on Wed Nov 1 10:17:29 2017.
#
# This file is execfile()d with the current directory set to its
# containing dir.
#
# Note that not all possible configuration values are present in this
# autogenerated file.
#
# All configuration values have a default; values that are commented out
# serve to show the default.
# If extensions (or modules to document with autodoc) are in another directory,
# add these directories to sys.path here. If the directory is relative to the
# documentation root, use os.path.abspath to make it absolute, like shown here.
#
import os
import sys
sys.path.insert(0, os.path.abspath('..'))
# -- General configuration ------------------------------------------------
# If your documentation needs a minimal Sphinx version, state it here.
#
# needs_sphinx = '1.0'
# Add any Sphinx extension module names here, as strings. They can be
# extensions coming with Sphinx (named 'sphinx.ext.*') or your custom
# ones.
extensions = ['sphinx.ext.autodoc',
'sphinx.ext.doctest',
'sphinx.ext.coverage',
'sphinx.ext.mathjax',
'sphinx.ext.viewcode',
'sphinx.ext.napoleon',
'sphinx.ext.todo',
'sphinx.ext.autosummary']
# Add any paths that contain templates here, relative to this directory.
templates_path = ['_templates']
# The suffix(es) of source filenames.
# You can specify multiple suffix as a list of string:
#
# source_suffix = ['.rst', '.md']
source_suffix = '.rst'
# The master toctree document.
master_doc = 'index'
# General information about the project.
project = 'sls_detector'
copyright = '2019, Sls Detector Group'
author = 'Erik Frojdh'
# The version info for the project you're documenting, acts as replacement for
# |version| and |release|, also used in various other places throughout the
# built documents.
#
# The short X.Y version.
version = '4.0.1'
# The full version, including alpha/beta/rc tags.
release = '4.0.1'
# The language for content autogenerated by Sphinx. Refer to documentation
# for a list of supported languages.
#
# This is also used if you do content translation via gettext catalogs.
# Usually you set "language" from the command line for these cases.
language = None
# List of patterns, relative to source directory, that match files and
# directories to ignore when looking for source files.
# This patterns also effect to html_static_path and html_extra_path
exclude_patterns = ['_build', 'Thumbs.db', '.DS_Store']
# The name of the Pygments (syntax highlighting) style to use.
pygments_style = 'sphinx'
# If true, `todo` and `todoList` produce output, else they produce nothing.
todo_include_todos = True
# -- Options for HTML output ----------------------------------------------
# The theme to use for HTML and HTML Help pages. See the documentation for
# a list of builtin themes.
#
html_theme = "sphinx_rtd_theme"
# Theme options are theme-specific and customize the look and feel of a theme
# further. For a list of options available for each theme, see the
# documentation.
#
# html_theme_options = {}
# Add any paths that contain custom static files (such as style sheets) here,
# relative to this directory. They are copied after the builtin static files,
# so a file named "default.css" will overwrite the builtin "default.css".
html_static_path = ['_static']
# Custom sidebar templates, must be a dictionary that maps document names
# to template names.
#
# This is required for the alabaster theme
# refs: http://alabaster.readthedocs.io/en/latest/installation.html#sidebars
html_sidebars = {
'**': [
'about.html',
'navigation.html',
'relations.html', # needs 'show_related': True theme option to display
'searchbox.html',
'donate.html',
]
}
# -- Options for HTMLHelp output ------------------------------------------
# Output file base name for HTML help builder.
htmlhelp_basename = 'sls_detector_doc'
napoleon_use_ivar = True
# -- Options for LaTeX output ---------------------------------------------
latex_elements = {
# The paper size ('letterpaper' or 'a4paper').
#
# 'papersize': 'letterpaper',
# The font size ('10pt', '11pt' or '12pt').
#
# 'pointsize': '10pt',
# Additional stuff for the LaTeX preamble.
#
# 'preamble': '',
# Latex figure (float) alignment
#
# 'figure_align': 'htbp',
}
# Grouping the document tree into LaTeX files. List of tuples
# (source start file, target name, title,
# author, documentclass [howto, manual, or own class]).
latex_documents = [
(master_doc, 'sls_detector.tex', 'sls_detector Documentation',
'Erik Frojdh', 'manual'),
]
# -- Options for manual page output ---------------------------------------
# One entry per manual page. List of tuples
# (source start file, name, description, authors, manual section).
man_pages = [
(master_doc, 'sls_detector_tools', 'sls_detector_tools Documentation',
[author], 1)
]
# -- Options for Texinfo output -------------------------------------------
# Grouping the document tree into Texinfo files. List of tuples
# (source start file, target name, title, author,
# dir menu entry, description, category)
texinfo_documents = [
(master_doc, 'py_sls', 'py_sls Documentation',
author, 'py_sls', 'One line description of project.',
'Miscellaneous'),
]

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C++ API
=====================================================
.. py:currentmodule:: _sls_detector
.. autoclass:: DetectorApi
:members:
:undoc-members:

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Error handling
=========================
Check input in Python
----------------------
As far as possible we try to check the input on the Python side
before calling the slsDeteectorsSoftware. Errors should not pass
silently but raise an exception
::
#Trimbit range for Eiger is 0-63
detector.trimbits = 98
(...)
ValueError: Trimbit setting 98 is outside of range:0-63
Errors in slsDetectorsSoftware
-------------------------------
The slsDetectorsSoftware uses a mask to record errors from the different
detectors. If an error is found we raise a RuntimeError at the end of the
call using the error message from slsDetectorsSoftware
.. todo ::
Implement this for all functions
::
detector.settings = 'bananas'
(...)
RuntimeError: Detector 0:
Could not set settings.
Detector 1:
Could not set settings.
Detector 2:
Could not set settings.
Using decorators
-------------------
Using decorators we can reset the error mask before the command and then
check it after the command
.. code-block:: python
#add decorator to check the error mask
@error_handling
def some_function():
a = 1+1
return a
Communication with the detector is usually the biggest overhead so
this does not impact performance.
::
%timeit d.exposure_time
>> 1.52 ms ± 5.42 µs per loop (mean ± std. dev. of 7 runs, 1000 loops each)
%timeit d.decorated_exposure_time
>> 1.53 ms ± 3.18 µs per loop (mean ± std. dev. of 7 runs, 1000 loops each)

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Examples
================
Some short hints on how to use the detector
------------------------
Simple threshold scan
------------------------
Assuming you have set up your detector with exposure time, period, enabled
file writing etc.
.. code-block:: python
from sls_detector import Eiger
d = Eiger()
threshold = range(0, 2000, 200)
for th in threshold:
d.vthreshold = th
d.acq()
If we want to control the shutter of for example, the big X-ray box we can add
this line in our code. It then opens the shutter just before the measurement
and closes is afterwards.
::
with xrf_shutter_open(box, 'Fe'):
for th in threshold:
d.vthreshold = th
d.acq()
-----------------------
Reading temperatures
-----------------------
::
d.temp
>>
temp_fpga : 43.19°C, 51.83°C
temp_fpgaext : 38.50°C, 38.50°C
temp_10ge : 39.50°C, 39.50°C
temp_dcdc : 42.50°C, 42.50°C
temp_sodl : 39.50°C, 40.50°C
temp_sodr : 39.50°C, 40.50°C
temp_fpgafl : 40.87°C, 37.61°C
temp_fpgafr : 34.51°C, 35.63°C
d.temp.fpga
>> temp_fpga : 40.84°C, 39.31°C
t = d.temp.fpga[0]
t
>> 40.551
t = d.temp.fpga[:]
t
>> [40.566, 39.128]
-----------------------
Non blocking acquire
-----------------------
There are mainly two ways to achieve a non blocking acquire when calling from the Python API. One is to manually start
the detector and the second one is to launch the normal acquire from a different process. Depending on your measurement
it might also be better to run the other task in a seperate process and use acq in the main thread.
But lets start looking at the at the manual way:
::
import time
from sls_detector import Eiger
d = Eiger()
n = 10
t = 1
d.exposure_time = t
d.n_frames = n
d.reset_frames_caught()
#Start the measurement
t0 = time.time()
d.start_receiver()
d.start_detector()
#Wait for the detector to be ready or do other important stuff
time.sleep(t*n)
#check if the detector is ready otherwise wait a bit longer
while d.status != 'idle':
time.sleep(0.1)
#Stop the receiver after we got the frames
#Detector is already idle so we don't need to stop it
d.stop_receiver()
lost = d.frames_caught - n
print(f'{n} frames of {t}s took {time.time()-t0:{.3}}s with {lost} frames lost ')
#Reset to not interfere with a potential next measurement
d.reset_frames_caught()
Instead launching d.acq() from a different process is a bit easier since the control of receiver and detector
is handled in the acq call. However, you need to join the process used otherwise a lot of zombie processes would
hang around until the main process exits.
::
import time
from multiprocessing import Process
from sls_detector import Eiger
def acquire():
"""
Create a new Eiger object that still referes to the same actual detector
and same shared memory. Then launch acq.
"""
detector = Eiger()
detector.acq()
#This is the detector we use throughout the session
d = Eiger()
#Process to run acquire
p = Process(target=acquire)
#Start the thread and short sleep to allow the acq to start
p.start()
time.sleep(0.01)
#Do some other work
while d.busy is True:
print(d.busy)
time.sleep(0.1)
#Join the process
p.join()

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Getting started
================
------------------------
Setting up the detector
------------------------
All configuration of the detector can either be done from the Python
API (including loading config file) or externally. The detector setup is
discovered from the shared memory when launching a new script. Because the
detector usually should remain online longer than a specific script it is
recommended to run the receivers seperate.
---------------------------------
Setting and getting attributes
---------------------------------
Most of the detector and software setting are implemented as attributes
in the Detector class. When something is assigned it is also set
in the detector and when the attribute is called using dot notation it
it looked up from the detector.
::
#Currently Eiger and Jungfrau but Detector should work for all
from sls_detector import Eiger()
d = Eiger()
d.file_write = True
d.vthreshold = 1500
d.frame_index
>> 12
d.file_name
>> 'run'
---------------------------------
Working with DACs
---------------------------------
The following examples assumes an Eiger500k detector. But the same syntax
works for other detector sizes and models.
::
d.dacs
>>
========== DACS =========
vsvp : 0, 0
vtr : 4000, 4000
vrf : 2000, 2300
vrs : 1400, 1400
vsvn : 4000, 4000
vtgstv : 2556, 2556
vcmp_ll : 1500, 1500
vcmp_lr : 1500, 1500
vcall : 3500, 3600
vcmp_rl : 1500, 1500
rxb_rb : 1100, 1100
rxb_lb : 1100, 1100
vcmp_rr : 1500, 1500
vcp : 1500, 1500
vcn : 2000, 2000
vis : 1550, 1550
iodelay : 660, 660
#Read dac values to a variable
vrf = d.dacs.vrf[:]
#Set a dac in a module
d.dacs.vrf[0] = 1500
d.dacs.vrf[0]
>> 1500
#Set vrf to the same value in all moduels
d.dacs.vrf = 1500
#Set a dac using an iterable
d.dacs.vrf = [1500, 1600]
d.dacs.vrf
>> vrf : 1500, 1600
#Set dacs iterating on index and values
d.dacs.vrf[0,1] = 1300,1400
---------------------------------
Operating multiple detectors
---------------------------------
Operating multiple detectors is supported by assigning an id when creating the object. If no id is
set it defaults to 0.
::
d0 = Eiger() #id is now 0
d1 = Jungfrau(1)
#Or explicitly
d1 = Jungfrau(id = 0)
The detectors now operate independently of each other but can be synchronized using a hardware trigger.
::
from sls_detector import Eiger
d0 = Eiger(0)
d1 = Eiger(1)
d0.load_config('/some/path/T45.config')
d1.load_config('/some/path/T62.config')
d0.n_frames = 1
d0.exposure_time = 1
d0.timing_mode = 'trigger'
d1.n_frames = 5
d1.exposure_time = 0.2
d1.timing_mode = 'trigger'

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sls_detector - Python interface for the slsDetectorsPackage
==============================================================
sls_detector provide Python bindings to the slsDetectorsPackage using mainly the
multiSlsDetector API. This module contains two parts, a compiled C module to
expose the API and a Python class to offer a more Pythonic interface.
.. toctree::
:maxdepth: 3
:caption: Contents:
installation
getting_started
code_quality
command_line
examples
error-handling
sls_detector
cpp_api
Indices and tables
==================
* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`

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Installation
=========================
The easiest way to install the Python API and the slsDetectorPackage is using conda. But other
methods are also available.
---------------------
Install using conda
---------------------
If you don't have it installed get the latest version of `Miniconda`_
.. _Miniconda: https://conda.io/miniconda.html
::
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
sh Miniconda3-latest-Linux-x86_64.sh
Install sls_detector and sls_detector_lib using:
::
#Add conda channels
conda config --add channels conda-forge
conda config --add channels slsdetectorgroup
#Install latest version
conda install sls_detector
#Install specific version
conda install sls_detector=3.0.1
------------------------------
Local build using conda-build
------------------------------
Needs the `sls_detector_lib`_ installed in order to automatically find headers
and shared libraries. Make sure that the branch of sls_detector matches the lib
version installed.
.. _sls_detector_lib: https://github.com/slsdetectorgroup/sls_detector_lib
::
#Clone source code
git clone https://github.com/slsdetectorgroup/sls_detector.git
#Checkout the branch needed
git checkout 3.0.1
#Build and install the local version
conda-build sls_detector
conda install --use-local sls_detector
-----------------------
Developer build
-----------------------
IF you if you are developing and are making constant changes to the code it's a bit cumbersome
to build with conda and install. Then an easier way is to build the C/C++ parts in the package
directory and temporary add this to the path
::
#in path/to/sls_detector
python setup.py build_ext --inplace
Then in your Python script
::
import sys
sys.path.append('/path/to/sls_detector')
from sls_detector import Detector
--------------
Prerequisites
--------------
All dependencies are manged trough conda but for a stand alone build you would need
* gcc 4.8+
* Qwt 6
* Qt 4.8
* numpy
* slsDetectorPackage

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make clean
make html
rm -rf ../docs/
mv _build/html/ ../docs/
touch ../docs/.nojekyll
rm -rf _build

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sls_detector
==================
.. toctree::
:maxdepth: 4
sls_detector

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Python classes
=====================================================
.. py:currentmodule:: sls_detector
Detector
----------
.. autoclass:: Detector
:members:
:undoc-members:
:show-inheritance:
Eiger
-------
.. autoclass:: Eiger
:members:
:undoc-members:
:show-inheritance:
Jungfrau
----------
.. autoclass:: Jungfrau
:members:
:undoc-members:
:show-inheritance:

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#include <pybind11/pybind11.h>
#include <pybind11/stl.h>
#include "Detector.h"
namespace py = pybind11;
PYBIND11_MODULE(_sls_detector, m)
{
m.doc() = R"pbdoc(
C/C++ API
-----------------------
.. warning ::
This is the compiled c extension. You probably want to look at the
interface provided by sls instead.
)pbdoc";
py::class_<Detector> DetectorApi(m, "DetectorApi", R"pbdoc(
Interface to the multiSlsDetector class through Detector.h These functions
are used by the python classes Eiger and Jungfrau and normally it is better
to use them than to directly access functions here.
However it is possible to access these functions...
::
#Using the python class
from sls_detector import Eiger
d = Eiger()
d._api.getThresholdEnergy()
#creating a DetectorApi object (remember to set online flags)
from _sls_detector import DetectorApi
api = DetectorApi(0)
api.setOnline(True)
api.setReceiverOnline(True)
api.getNumberOfFrames()
#But the Pythonic way is almost alway simpler
d = Eiger()
d.n_frames
>> 10
)pbdoc");
DetectorApi
.def(py::init<int>())
.def("freeSharedMemory", &Detector::freeSharedMemory)
.def("getMultiDetectorId", &Detector::getMultiDetectorId)
.def("acq", &Detector::acquire)
.def("getAcquiringFlag", &Detector::getAcquiringFlag)
.def("setAcquiringFlag", &Detector::setAcquiringFlag)
.def("setAllTrimbits", &Detector::setAllTrimbits)
.def("getAllTrimbits", &Detector::getAllTrimbits)
.def("setCounterBit", &Detector::setCounterBit)
.def("getCounterBit", &Detector::getCounterBit)
.def("getAdc", &Detector::getAdc)
.def("getDac", &Detector::getDac)
.def("getDac_mV", &Detector::getDac_mV)
.def("setDac", &Detector::setDac)
.def("setDac_mV", &Detector::setDac_mV)
.def("getDacFromIndex", &Detector::getDacFromIndex)
.def("setDacFromIndex", &Detector::setDacFromIndex)
.def("getDbitPipeline", &Detector::getDbitPipeline)
.def("setDbitPipeline", &Detector::setDbitPipeline)
.def("getDbitPhase", &Detector::getDbitPhase)
.def("setDbitPhase", &Detector::setDbitPhase)
.def("getDbitClock", &Detector::getDbitClock)
.def("setDbitClock", &Detector::setDbitClock)
.def("setThresholdEnergy", &Detector::setThresholdEnergy)
.def("getThresholdEnergy", &Detector::getThresholdEnergy)
.def("getSettings", &Detector::getSettings)
.def("setSettings", &Detector::setSettings)
.def("getSettingsDir", &Detector::getSettingsDir)
.def("setSettingsDir", &Detector::setSettingsDir)
.def("loadTrimbitFile", &Detector::loadTrimbitFile)
.def("setTrimEnergies", &Detector::setTrimEnergies)
.def("getTrimEnergies", &Detector::getTrimEnergies)
.def("pulseChip", &Detector::pulseChip)
.def("pulseAllPixels", &Detector::pulseAllPixels)
.def("pulseDiagonal", &Detector::pulseDiagonal)
.def("getRunStatus", &Detector::getRunStatus)
.def("readConfigurationFile", &Detector::readConfigurationFile)
.def("readParametersFile", &Detector::readParametersFile)
.def("checkOnline", &Detector::checkOnline)
.def("setReadoutClockSpeed", &Detector::setReadoutClockSpeed)
.def("getReadoutClockSpeed", &Detector::getReadoutClockSpeed)
.def("getHostname", &Detector::getHostname)
.def("setHostname", &Detector::setHostname)
.def("getOnline", &Detector::getOnline)
.def("setOnline", &Detector::setOnline)
.def("getReceiverOnline", &Detector::getReceiverOnline)
.def("setReceiverOnline", &Detector::setReceiverOnline)
.def("getRxTcpport", &Detector::getRxTcpport)
.def("setRxTcpport", &Detector::setRxTcpport)
.def("isChipPowered", &Detector::isChipPowered)
.def("powerChip", &Detector::powerChip)
.def("readRegister", &Detector::readRegister)
.def("writeRegister", &Detector::writeRegister)
.def("writeAdcRegister", &Detector::writeAdcRegister)
.def("setBitInRegister", &Detector::setBitInRegister)
.def("clearBitInRegister", &Detector::clearBitInRegister)
.def("setDynamicRange", &Detector::setDynamicRange)
.def("getDynamicRange", &Detector::getDynamicRange)
.def("getFirmwareVersion", &Detector::getFirmwareVersion)
.def("getServerVersion", &Detector::getServerVersion)
.def("getClientVersion", &Detector::getClientVersion)
.def("getReceiverVersion", &Detector::getReceiverVersion)
.def("getDetectorNumber", &Detector::getDetectorNumber)
.def("getRateCorrection", &Detector::getRateCorrection)
.def("setRateCorrection", &Detector::setRateCorrection)
.def("startAcquisition", &Detector::startAcquisition)
.def("stopAcquisition", &Detector::stopAcquisition)
.def("startReceiver", &Detector::startReceiver)
.def("stopReceiver", &Detector::stopReceiver)
.def("getFilePath", (std::string(Detector::*)()) & Detector::getFilePath, "Using multiSlsDetector")
.def("getFilePath", (std::string(Detector::*)(const int)const) & Detector::getFilePath, "File path for individual detector")
.def("setFilePath", (void (Detector::*)(std::string)) & Detector::setFilePath)
.def("setFilePath", (void (Detector::*)(std::string, const int)) & Detector::setFilePath)
.def("setFileName", &Detector::setFileName)
.def("getFileName", &Detector::getFileName)
.def("setFileIndex", &Detector::setFileIndex)
.def("getFileIndex", &Detector::getFileIndex)
.def("setExposureTime", &Detector::setExposureTime)
.def("getExposureTime", &Detector::getExposureTime)
.def("setSubExposureTime", &Detector::setSubExposureTime)
.def("getSubExposureTime", &Detector::getSubExposureTime)
.def("setPeriod", &Detector::setPeriod)
.def("getPeriod", &Detector::getPeriod)
.def("setSubExposureDeadTime", &Detector::setSubExposureDeadTime)
.def("getSubExposureDeadTime", &Detector::getSubExposureDeadTime)
.def("getCycles", &Detector::getCycles)
.def("setCycles", &Detector::setCycles)
.def("setNumberOfMeasurements", &Detector::setNumberOfMeasurements)
.def("getNumberOfMeasurements", &Detector::getNumberOfMeasurements)
.def("getNumberOfGates", &Detector::getNumberOfGates)
.def("setNumberOfGates", &Detector::setNumberOfGates)
.def("getDelay", &Detector::getDelay)
.def("setDelay", &Detector::setDelay)
.def("getJCTBSamples", &Detector::getJCTBSamples)
.def("setJCTBSamples", &Detector::setJCTBSamples)
.def("setStoragecellStart", &Detector::setStoragecellStart)
.def("getStoragecellStart", &Detector::getStoragecellStart)
.def("setNumberOfStorageCells", &Detector::setNumberOfStorageCells)
.def("getNumberOfStorageCells", &Detector::getNumberOfStorageCells)
.def("getTimingMode", &Detector::getTimingMode)
.def("setTimingMode", &Detector::setTimingMode)
.def("getDetectorType", &Detector::getDetectorType)
.def("setThresholdTemperature", &Detector::setThresholdTemperature)
.def("getThresholdTemperature", &Detector::getThresholdTemperature)
.def("setTemperatureControl", &Detector::setTemperatureControl)
.def("getTemperatureControl", &Detector::getTemperatureControl)
.def("getTemperatureEvent", &Detector::getTemperatureEvent)
.def("resetTemperatureEvent", &Detector::resetTemperatureEvent)
.def("getRxDataStreamStatus", &Detector::getRxDataStreamStatus)
.def("setRxDataStreamStatus", &Detector::setRxDataStreamStatus)
.def("getNetworkParameter", &Detector::getNetworkParameter)
.def("setNetworkParameter", &Detector::setNetworkParameter)
.def("configureNetworkParameters", &Detector::configureNetworkParameters)
.def("getDelayFrame", &Detector::getDelayFrame)
.def("setDelayFrame", &Detector::setDelayFrame)
.def("getDelayLeft", &Detector::getDelayLeft)
.def("setDelayLeft", &Detector::setDelayLeft)
.def("getDelayRight", &Detector::getDelayRight)
.def("setDelayRight", &Detector::setDelayRight)
.def("getLastClientIP", &Detector::getLastClientIP)
.def("getReceiverLastClientIP", &Detector::getReceiverLastClientIP)
.def("setReceiverFramesPerFile", &Detector::setReceiverFramesPerFile)
.def("getReceiverFramesPerFile", &Detector::getReceiverFramesPerFile)
.def("setReceiverFifoDepth", &Detector::setReceiverFifoDepth)
.def("getReceiverFifoDepth", &Detector::getReceiverFifoDepth)
.def("getReceiverFrameDiscardPolicy", &Detector::getReceiverFrameDiscardPolicy)
.def("setReceiverFramesDiscardPolicy", &Detector::setReceiverFramesDiscardPolicy)
.def("setReceiverPartialFramesPadding", &Detector::setReceiverPartialFramesPadding)
.def("getReceiverPartialFramesPadding", &Detector::getReceiverPartialFramesPadding)
.def("getUserDetails", &Detector::getUserDetails)
.def("isClientAndDetecorCompatible", &Detector::isClientAndDetecorCompatible)
.def("isClientAndReceiverCompatible", &Detector::isClientAndReceiverCompatible)
.def("getMeasuredPeriod", &Detector::getMeasuredPeriod)
.def("getMeasuredSubPeriod", &Detector::getMeasuredSubPeriod)
.def("setFileWrite", &Detector::setFileWrite)
.def("getFileWrite", &Detector::getFileWrite)
.def("setFileOverWrite", &Detector::setFileOverWrite)
.def("getFileOverWrite", &Detector::getFileOverWrite)
.def("getDacVthreshold", &Detector::getDacVthreshold)
.def("setDacVthreshold", &Detector::setDacVthreshold)
.def("setNumberOfFrames", &Detector::setNumberOfFrames)
.def("getNumberOfFrames", &Detector::getNumberOfFrames)
//Overloaded calls
.def("getFramesCaughtByReceiver", (int (Detector::*)() ) & Detector::getFramesCaughtByReceiver)
.def("getFramesCaughtByReceiver", (int (Detector::*)(int) const) & Detector::getFramesCaughtByReceiver)
.def("resetFramesCaught", &Detector::resetFramesCaught)
.def("getReceiverCurrentFrameIndex", &Detector::getReceiverCurrentFrameIndex)
.def("getGapPixels", &Detector::getGapPixels)
.def("setGapPixels", &Detector::setGapPixels)
.def("clearErrorMask", &Detector::clearErrorMask)
.def("getErrorMask", &Detector::getErrorMask)
.def("setErrorMask", &Detector::setErrorMask)
.def("getErrorMessage", &Detector::getErrorMessage)
.def("getFlippedDataX", &Detector::getFlippedDataX)
.def("getFlippedDataY", &Detector::getFlippedDataY)
.def("setFlippedDataX", &Detector::setFlippedDataX)
.def("setFlippedDataY", &Detector::setFlippedDataY)
.def("getServerLock", &Detector::getServerLock)
.def("setServerLock", &Detector::setServerLock)
.def("getReceiverLock", &Detector::getReceiverLock)
.def("setReceiverLock", &Detector::setReceiverLock)
.def("getReadoutFlags", &Detector::getReadoutFlags)
.def("setReadoutFlag", &Detector::setReadoutFlag)
.def("setFileFormat", &Detector::setFileFormat)
.def("getFileFormat", &Detector::getFileFormat)
.def("getActive", &Detector::getActive)
.def("setActive", &Detector::setActive)
.def("getThreadedProcessing", &Detector::getThreadedProcessing)
.def("setThreadedProcessing", &Detector::setThreadedProcessing)
.def("getTenGigabitEthernet", &Detector::getTenGigabitEthernet)
.def("setTenGigabitEthernet", &Detector::setTenGigabitEthernet)
.def("getImageSize", &Detector::getImageSize)
.def("setImageSize", &Detector::setImageSize)
.def("getNumberOfDetectors", &Detector::getNumberOfDetectors)
.def("getDetectorGeometry", &Detector::getDetectorGeometry);
#ifdef VERSION_INFO
m.attr("__version__") = VERSION_INFO;
#else
m.attr("__version__") = "dev";
#endif
}

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