Page History
Include Page | ||||
---|---|---|---|---|
|
Table of Contents |
---|
This page provides examples for selected modules from Psana Module Catalog.
Auxiliary scripts
A few python scripts in ImgPixSpectra/data/
show how to process/plot the spectral array stored in the file.
PlotSpectralArrayFromFile.py
- allows to plot content of the spectral array as a 2-d plot.SpectralArray.py
- provides access to the spectral array stored in the file. Theclass SpectralArray
defined in this script is used in thePlotSpectralArrayFromFile.py
.
MergeArrays.py
- sums the arrays from different files defined in the list and saves resulting array in a single file with the same shape. In this script the list of files is hardwired in theget_list_of_input_file_names()
method. The output file name,out_fname
, is also hardwired in the call tospectra_merging(out_fname)
.
A few auxiliary scripts for example are located in the directory ImgAlgos/data
:
psana.cfg
- set non-default parameters to runpsana
forImgAlgos::ImgPeakFinder
andImgAlgos::ImgPeakFilter
Thepsana
running this script saves images and peaks for event 115 in text files.PlotCameraImageFromFile.py
- Plots image and spectrum for image saved in file.PlotCameraImageAndPeaks.py
- Plots image with found peaks and spectrum.
Example for Package CSPadPixCoords
How to write the CSPad image in text file:
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc
events = 5
modules = cspad_mod.CsPadCalib CSPadPixCoords.CSPadImageProducer ImgAlgos.ImgSaveInFile
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
#[CSPadPixCoords.CSPadInterpolImageProducer]
[CSPadPixCoords.CSPadImageProducer]
calibDir = /reg/d/psdm/<instrument>/<experiment>/calib
typeGroupName = CsPad::CalibV1
source = CxiDs1.0:Cspad.0
key = calibrated
imgkey = Image2D
tiltIsApplied = true
[ImgAlgos.ImgSaveInFile]
source = CxiDs1.0:Cspad.0
#eventSave = 1
saveAll = true
|
Example for Module CSPadPixCoords::CSPad2x2ImageProducer
See Module CSPadPixCoords::CSPad2x2ImageProducer
Example of the configuration script for psana (cspad2x2-test.cfg):
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc
events = 5
modules = CSPadPixCoords.CSPad2x2ImageProducer ImgAlgos.ImgSaveInFile
[CSPadPixCoords.CSPad2x2ImageProducer]
source = DetInfo(:Cspad2x2)
inkey =
outimgkey = Image
tiltIsApplied = true
print_bits = 15
[ImgAlgos.ImgSaveInFile]
source = DetInfo(:Cspad2x2)
key = Image
fname = cspad2x2
saveAll = true
#eventSave = 5
|
Command to run:
psana -c cspad2x2-test.cfg
One of the saved files cspad2x2-<run>-<timestamp>.txt
is plotted as an image by the command
./PlotCameraImageFromFile.py cspad2x2-<run>-<timestamp>.txt 0 1200
Example for Package ImgPixSpectra
Modules:
- ImgPixSpectra::CSPadPixSpectra
- ImgPixSpectra::MiniCSPadPixSpectra
- ImgPixSpectra::CameraPixSpectra
Configuration file example for MiniCSPadPixSpectra
:
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/<file-name>.xtc
modules = ImgPixSpectra.MiniCSPadPixSpectra
[ImgPixSpectra.MiniCSPadPixSpectra]
source = CxiSc1.0:Cspad2x2.0
amin = 500.
amax = 1000.
nbins = 100
arr_fname = mini-cspad-pix-spectra.txt
|
To get images from saved file one may execute the auxiliary script:
Code Block |
---|
ImgPixSpectra/data/PlotSpectralArrayFromFile.py mini-cspad-pix-spectra.txt
|
generates image for limited range of pixels for CSPad, MiniCSPad, or Camera, respectively:
Examples for Package ImgAlgos
See Package ImgAlgos
Example for Module ImgAlgos::PnccdImageProducer
See Module ImgAlgos::PnccdImageProducer
Example of the psana configuration file:
Code Block |
---|
[psana]
files = /reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/<file-name-1>.xtc\
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/<file-name-2>.xtc
#skip-events = 100
events = 5
modules = ImgAlgos.PnccdImageProducer ImgAlgos.ImgSaveInFile
[ImgAlgos.PnccdImageProducer]
source = DetInfo(:pnCCD)
inkey =
outimgkey = imgpnccd
print_bits = 1
[ImgAlgos.ImgSaveInFile]
source = DetInfo(:pnCCD)
key = imgpnccd
fname = pnccd-img-ev
saveAll = true
#eventSave = 82
print_bits = 1
|
This script saves text files with images like pnccd-img-ev-<run-date-time.nsec>.txt
, which can be presented as:
Example for Module ImgAlgos::CameraImageProducer
See Module ImgAlgos::CameraImageProducer
Example of the psana configuration file:
Code Block |
---|
[psana]
files = /reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/<file-name-1>.xtc
modules = ImgAlgos.CameraImageProducer ImgAlgos.ImgSaveInFile
events = 5
[ImgAlgos.CameraImageProducer]
source = DetInfo(:Opal1000)
key_in =
key_out = img
subtract_offset = true
print_bits = 15
[ImgAlgos.ImgSaveInFile]
source = DetInfo(:Opal1000)
key = img
fname = img-from-my-experiment
saveAll = true
#eventSave = 1
|
This script saves text files with images like img-from-my-experiment-<run-date-time.nsec>.txt
, which can be drawn by the python script
./ImgAlgos/data/PlotCameraImageFromFile.py <filename>.txt <Amin> <Amax>
Example for Module ImgAlgos::ImgAverage
See Module ImgAlgos::ImgAverage
The ImgAverage
module can be used for evaluation of averaged pedestals or background using dedicated runs. Typical configuration file may looks like this:
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name>.xtc
modules = ImgAlgos.CameraImageProducer \
ImgAlgos.ImgAverage
events = 1000
[ImgAlgos.CameraImageProducer]
source = DetInfo(:Opal1000)
key_in =
key_out = img
subtract_offset = true
print_bits = 1
[ImgAlgos.ImgAverage]
source = DetInfo(:Opal1000)
key = img
avefile = img-ave.dat
rmsfile = img-rms.dat
print_bits = 31
evts_stage1 = 100
evts_stage2 = 100
gate_width1 = 200
gate_width2 = 20
|
Example for Module ImgAlgos::ImgCalib
Code Block |
---|
[ImgAlgos.CameraImageProducer]
source = DetInfo(:Opal1000)
key_in =
key_out = img
subtract_offset = true
print_bits = 1
[ImgAlgos.ImgCalib]
source = DetInfo(:Opal1000)
key_in = img
key_out = calibrated
fname_peds = <pedestal-file-name>
fname_mask = <mask-file-name>
fname_bkgd =
fname_gain =
print_bits = 31
|
Example of the mask file and resulting image:
Example for Module ImgAlgos::ImgRadialCorrection
See Module ImgAlgos::ImgRadialCorrection
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-2>.xtc \
...
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-N>.xtc
skip-events = 500
events = 10
modules = cspad_mod.CsPadCalib \
# ImgAlgos.CSPadBkgdSubtract \
CSPadPixCoords.CSPadImageProducer \
ImgAlgos.ImgRadialCorrection \
ImgAlgos.ImgSaveInFile:1
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadBkgdSubtract]
source = DetInfo(CxiDs1.0:Cspad.0)
inputKey = calibrated
outputKey = bkgd_subtracted_arr
bkgd_fname = <the-file-name-with-background-array>
norm_sector = 0
print_bits = 0
[CSPadPixCoords.CSPadImageProducer]
calibDir = /reg/d/psdm/<instrument>/<experiment>/calib
typeGroupName = CsPad::CalibV1
source = CxiDs1.0:Cspad.0
key = calibrated
imgkey = current_img
#tiltIsApplied = true
[ImgAlgos.ImgRadialCorrection]
source = DetInfo(CxiDs1.0:Cspad.0)
inkey = current_img
outkey = r_cor_img
xcenter = 866
ycenter = 857
rmin = 100
rmax = 810
n_phi_bins = 60
event = 0
print_bits = 3
[ImgAlgos.ImgSaveInFile:1]
source = CxiDs1.0:Cspad.0
key = r_cor_img
fname = <file-name-for-image-array>
#saveAll = true
eventSave = 8
|
Note: the option of the background subtraction (ImgAlgos.CSPadBkgdSubtract
) is commented out in this configuration file . In order to evoke this option, the comment sign (#) should be removed from the list of modules
and the key=bkgd_subtracted_arr
should be used in CSPadPixCoords.CSPadImageProducer
.
Calibrated image and spectrum:
Calibrated and radial-corrected image, spectrum, and subtracted r-phi65 distribution for n_phi_bins
=65:
Calibrated and radial-corrected image, spectrum, and subtracted r-phi12 distribution for n_phi_bins
=12:
Example for Module ImgAlgos::ImgPeakFinder
See Module ImgAlgos::ImgPeakFinder
Configuration file example:
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-2>.xtc \
...
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-N>.xtc
modules = ImgAlgos.ImgPeakFinder PrintSeparator
#skip-events = 500
events = 120
[ImgAlgos.ImgPeakFinder]
source = DetInfo(:Opal1000)
key =
peaksKey = peaks
threshold_low = 20
threshold_high = 50
sigma = 1.5
smear_radius = 2
peak_radius = 3
xmin = 200
xmax = 800
ymin = 100
ymax = 900
testEvent = 115
print_bits = 0
finderIsOn = true
|
- This algorithm consumes ~15 ms/event on psana0101 for full Opal1000 (1024x1024) camera image.
- Smearing algorithm use a "safety margin" which is currently set to 10 pixels (offset from each boarder of the full image size).
Image on different stages of this algorithm:
- raw image,
- image in the window with amplitudes above the
threshold_low
- few peaks at the edges were discarded by the window limits,
- image still contains many 1-photon pixels, which need to be eliminated,
- smeared image,
- raw image with found peaks (marked by the red circles)
- zoom of the previous plot.
Example for Module ImgAlgos::ImgPeakFilter
Code Block |
---|
[ImgAlgos.ImgPeakFilter]
source = DetInfo(:Opal1000)
key = peaks
threshold_peak = 5
threshold_total= 0
n_peaks_min = 10
print_bits = 11
fname = img
selection_mode = SELECTION_ON
|
Example for Module ImgAlgos::ImgSaveInFile
Code Block |
---|
modules = ... ImgAlgos.ImgSaveInFile:1 ...
[ImgAlgos.ImgSaveInFile:1]
source = DetInfo(:Opal1000) # or CxiDs1.0:Cspad.0
key = img
fname = my-img
#eventSave = 5
saveAll = true
|
See Module ImgAlgos::ImgSaveInFile
Example for Module ImgPeakFinder and ImgPeakFilter for CSPad
Module ImgAlgos::ImgPeakFinder
works on image. In order to apply this algorithm to CSPad the image should be produced. In next example the image is produced using consequtive modules cspad_mod.CsPadCalib
, ImgAlgos.CSPadMaskApply
, and CSPadPixCoords.CSPadImageProducer
:
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
...
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-N>.xtc
events = 1000
experiment = cxii0212
calib-dir = ana-cxii0212/calib
modules = cspad_mod.CsPadCalib \
ImgAlgos.CSPadMaskApply \
CSPadPixCoords.CSPadImageProducer \
ImgAlgos.ImgPeakFinder \
ImgAlgos.ImgPeakFilter \
ImgAlgos.ImgSaveInFile:1
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = yes
[ImgAlgos.CSPadMaskApply]
source = DetInfo(CxiDs1.0:Cspad.0)
inkey = calibrated
outkey = masked_arr
mask_fname = <your-local-directory>/<mask-file-name>.dat
masked_amp = 0
print_bits = 5
mask_control_bits = 15
[CSPadPixCoords.CSPadImageProducer]
calibDir = /reg/d/psdm/<instrument>/<experiment>/calib
typeGroupName = CsPad::CalibV1
source = CxiDs1.0:Cspad.0
key = masked_arr
imgkey = img
print_bits = 0
#tiltIsApplied = true
[ImgAlgos.ImgPeakFinder]
source = DetInfo(CxiDs1.0:Cspad.0)
key = img
peaksKey = peaks
threshold_low = 2
threshold_high = 5
sigma = 1.5
smear_radius = 5
peak_radius = 7
xmin = 20
xmax = 1700
ymin = 20
ymax = 1700
#testEvent = 5
print_bits = 3
#finderIsOn = true
[ImgAlgos.ImgPeakFilter]
source = DetInfo(CxiDs1.0:Cspad.0)
key = peaks
threshold_peak = 5
threshold_total= 0
n_peaks_min = 10
print_bits = 11
fname = cspad-img
selection_mode = SELECTION_ON
[ImgAlgos.ImgSaveInFile:1]
source = CxiDs1.0:Cspad.0
key = img
fname = cspad-img
#eventSave = 1
saveAll = true
|
Example for Module ImgAlgos::CSPadArrAverage
See Module ImgAlgos::CSPadArrAverage
Configuration file example for evaluation of pedestals:
Code Block |
---|
[psana]
modules = ImgAlgos.CSPadArrAverage
files = <path-to-the-dark-run-file>.xtc
[ImgAlgos.CSPadArrAverage]
source = DetInfo(CxiDs1.0:Cspad.0)
key =
avefile = cspad-pedestals-ave.dat
rmsfile = cspad-pedestals-rms.dat
print_bits = 15
evts_stage1 = 100
evts_stage2 = 100
gate_width1 = 100
gate_width2 = 10
|
Configuration file example for evaluation of background:
Code Block |
---|
[psana]
files = <path-to-the-background-run-file>.xtc
modules = cspad_mod.CsPadCalib ImgAlgos.CSPadArrAverage
skip-events = 500
events = 1000000
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadArrAverage]
source = DetInfo(CxiDs1.0:Cspad.0)
key = calibrated
avefile = cspad-background-ave.dat
rmsfile = cspad-background-rms.dat
print_bits = 15
|
Images of the CSPad arrays for averaged and rms values, respectively, in one of the CXI runs:
Example for Module ImgAlgos::CSPadBkgdSubtract
See Module ImgAlgos::CSPadBkgdSubtract
Code Block |
---|
[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-2>.xtc \
...
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-N>.xtc
skip-events = 500
events = 10
modules = cspad_mod.CsPadCalib ImgAlgos.CSPadBkgdSubtract
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadBkgdSubtract]
source = DetInfo(CxiDs1.0:Cspad.0)
inputKey = calibrated
outputKey = bkgd_subtracted
bkgd_fname = <the-file-name-with-background-array>
norm_sector = 0
print_bits = 3
|
The file with the background array, bkgd_fname
, was obtained by averaging 1000 events using module CSPadArrAverage. Subtraction is done with normalization for norm_sector=0
.
Event image and pixel amplitude spectrum before and after the background subtraction are shown in plots:
Other event with better subtracted background:
Example for Module ImgAlgos::CSPadMaskApply
See Module ImgAlgos::CSPadMaskApply
The array for mask contains zeros and ones for masked and passed pixels, respectively, and has a shape of full-size CSPad array 4*8*185388.
For example, it can be generated by the command
Code Block |
---|
./MakePixelMask.py <input-background-cspad-arr-file-name> <threshold> <output-file-name>
|
for the averaged background amplitude array <input-background-cspad-arr-file-name>
abtained as a result of ImgAlgos::CSPadArrAverage
module.
Plots show the averaged background, and the mask arrays generated from this background for three thresholds 10, 20, and 30 EDU:
The best results in filtering can be achieved in combination of modiles:
Code Block |
---|
modules = cspad_mod.CsPadCalib \
ImgAlgos.CSPadBkgdSubtract \
ImgAlgos.CSPadMaskApply \
...
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated_arr
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadBkgdSubtract]
source = DetInfo(CxiDs1.0:Cspad.0)
inputKey = calibrated_arr
outputKey = bkgd_subtracted_arr
bkgd_fname = ana-cxi49012/cspad-cxi49012-r0025-background-ave.dat
norm_sector = 0
print_bits = 0
[ImgAlgos.CSPadMaskApply]
source = DetInfo(CxiDs1.0:Cspad.0)
inkey = bkgd_subtracted_arr
outkey = masked_arr
mask_fname = ana-cxi49012/cspad-cxi49012-r0025-mask-40.dat
masked_amp = 0
print_bits = 3
mask_control_bits = 1
|
where
cspad_mod.CsPadCalib
- subtracts the pedestals from raw CSPad data,ImgAlgos.CSPadBkgdSubtract
- subtracts the background,ImgAlgos.CSPadMaskApply
- apply the mask.
In the test with images for background represented by the water and solvent rings this filter provides the background suppression factor about 100.
The background images that still pass this filter have significantly larger intensity with respect to averaged background:
Input parameter mask_control_bits
allows to control masking regions of 2x1. For example, if all edges need to be masked, then use mask_control_bits = 15
, which gives image array like:
where red regions/lines of pixels of amplitude=8 are masked.
Example for Module ImgAlgos::CSPadArrNoise
See Module ImgAlgos::CSPadArrNoise
Code Block |
---|
[psana]
modules = cspad_mod.CsPadCalib ImgAlgos.CSPadArrNoise
files = /reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s00-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s01-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s02-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s03-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s04-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0020-s05-c00.xtc
#skip-events = 1000
events = 10
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadArrNoise]
source = DetInfo(CxiDs1.0:Cspad.0)
key = calibrated
statusfile = ana-cxi49012/cspad-cxi49012-r0020-noise-status.dat
maskfile = ana-cxi49012/cspad-cxi49012-r0200-noise-mask.dat
print_bits = 255
rmin = 3
dr = 1
SoNThr = 3
frac_noisy_imgs = 0.15
|
Index map in median algorithm for rmin=3, dr=1:
Code Block |
---|
CSPadArrNoise::printMatrixOfIndexesForMedian():
0 0 0 0 1 0 0 0 0
0 0 1 1 1 1 1 0 0
0 1 0 0 0 0 0 1 0
0 1 0 0 0 0 0 1 0
1 1 0 0 + 0 0 1 1
0 1 0 0 0 0 0 1 0
0 1 0 0 0 0 0 1 0
0 0 1 1 1 1 1 0 0
0 0 0 0 1 0 0 0 0
|
Pixel status (fraction of events where S/N > SoNThr
):
For cspad-cxi49012-r0020 with parameters from confguration file (frac_noisy_imgs=0.15
) we get, depending on number of events:
Nnoisy, Ntotal, Nnoisy/Ntotal pixels =94585 2296960 0.041
for 10 events
Nnoisy, Ntotal, Nnoisy/Ntotal pixels =2112 2296960 0.00092
for 100 events
Pixel mask for noisy pixels with |S/N| > SoNThr
:
Example for Module ImgAlgos::CSPadArrPeakFinder
See Module ImgAlgos::CSPadArrPeakFinder
Code Block |
---|
[psana]
files = \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s00-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s01-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s02-c00.xtc \
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s03-c00.xtc \
# /reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s04-c00.xtc \ suddenly it became unavailable...
/reg/d/psdm/cxi/cxi49012/xtc/e158-r0150-s05-c00.xtc
#skip-events = 1000
#events = 200
modules = cspad_mod.CsPadCalib \
ImgAlgos.CSPadMaskApply \
ImgAlgos.CSPadArrPeakFinder
[cspad_mod.CsPadCalib]
inputKey =
outputKey = calibrated
doPedestals = yes
doPixelStatus = no
doCommonMode = no
[ImgAlgos.CSPadMaskApply]
source = DetInfo(CxiDs1.0:Cspad.0)
inkey = calibrated
outkey = masked_arr
mask_fname = ana-cxi49012/cspad-cxi49012-r0150-mask-badregs.dat
#mask_fname = ana-cxi49012/cspad-cxi49012-r0150-mask-bkgd.dat
#mask_fname = ana-cxi49012/cspad-cxi49012-r0150-mask-rects.dat
masked_amp = 8
print_bits = 1
mask_control_bits = 15
[ImgAlgos.CSPadArrPeakFinder]
source = DetInfo(CxiDs1.0:Cspad.0)
key = masked_arr
key_peaks_out = peaks
hot_pix_mask_inp_file = ana-cxi49012/cspad-cxi49012-r0150-noise-mask.dat
hot_pix_mask_out_file = ana-cxi49012/cspad-cxi49012-r0150-noise-mask-out.dat
frac_noisy_evts_file = ana-cxi49012/cspad-cxi49012-r0150-noise-frac.dat
evt_file_out = tmp/cspad-ev-
rmin = 3
dr = 1
SoNThr = 3
frac_noisy_imgs = 0.1
peak_npix_min = 4
peak_npix_max = 25
peak_amp_tot_thr = 100.
event_npeak_min = 10
event_amp_tot_thr = 1000.
nevents_mask_update = 100
nevents_mask_accum = 50
selection_mode = SELECTION_ON
out_file_bits = 15
print_bits = 512
|
Results:
Code Block |
---|
[info:TimeInterval::startTime] Start time: 2012-06-12 15:32:02
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 1000 N selected = 55 Fraction of selected = 0.055
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 2000 N selected = 62 Fraction of selected = 0.031
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 3000 N selected = 81 Fraction of selected = 0.027
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 4000 N selected = 95 Fraction of selected = 0.02375
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 5000 N selected = 150 Fraction of selected = 0.03
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 6000 N selected = 265 Fraction of selected = 0.0441667
[info:ImgAlgos.CSPadArrPeakFinder] N processed events = 7000 N selected = 404 Fraction of selected = 0.0577143
[info:ImgAlgos.CSPadArrPeakFinder] ===== JOB SUMMARY =====
[info:TimeInterval::stopTime] Time to process 7945 events is 3747.48 sec, or 0.471678 sec/event
|
Selected events
ev-007713:
ev-008944:
Example for Module ImgAlgos::CSPadArrPeakAnalysis
See Module ImgAlgos::CSPadArrPeakAnalysis
Example of the psana configuration file:
Code Block |
---|
modules = cspad_mod.CsPadCalib \
ImgAlgos.CSPadMaskApply \
ImgAlgos.CSPadArrPeakFinder \
ImgAlgos.CSPadArrPeakAnalysis
# ...configuration parameters of other modules...
[ImgAlgos.CSPadArrPeakAnalysis]
source = DetInfo(CxiDs1.0:Cspad.0)
key = peaks
print_bits = 7
fname_root = file.root
|
After execution in psana the file.root
containing histogram(s) and ntuple(s) will be produced. Then, auxiliary script in root, running by the commend
root -q -f proc.C
produces the plots with histograms:
Example for TimeStampFilter and XtcOutputModule
This example demonstrates how to run psana with the time stamp filter and event writer in xtc file.
Both modules are available in psana library and they need only to be described in the configuration file. For example, the configuration file tstamp-filter-and-event-writer.cfg
may looks like:
Code Block |
---|
[psana]
files = /reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s00-c00.xtc \
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s01-c00.xtc \
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s02-c00.xtc \
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s03-c00.xtc \
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s04-c00.xtc \
/reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s05-c00.xtc
skip-events = 10
events = 100
modules = ImgAlgos.TimeStampFilter PSXtcOutput.XtcOutputModule
[PSXtcOutput.XtcOutputModule]
dirName = ./test_out
[ImgAlgos.TimeStampFilter]
tsinterval = 2012-02-02 18:17:00.409143728 / 2012-02-02 18:17:00.525853474
filterIsOn = true
print_bits = 11
|
Command to run psana is:
psana -c ./tstamp-filter-and-event-writer.cfg
For this configuration file psana will skip 10 events and loop over the next 100 events from the /reg/d/psdm/<INSTRUMENT>/<experiment>/xtc/e158-r0021-s0*-c00.xtc
files and run consecutively modules = ImgAlgos.TimeStampFilter PSXtcOutput.XtcOutputModule
. Parameters of these modules are described in the bottom part of the configuration file. Module TimeStampFilter
passes events from the specified time interval and prints some useful information. Module XtcOutputModule
will write passed events in the file with auto-generated name ./test_out/e158-r0021.xtcf
.
See also: Module ImgAlgos::TimeStampFilter and PSXtcOutput::PSXtcOutput