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This page provides examples for selected modules from Psana Module Catalog. Only the modules that are included in the standard analysis releases appear on this page.
Auxiliary scripts
A few python scripts in ImgPixSpectra/data/ show how to process/plot the spectral array stored in the file.
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- ImgPixSpectra::CSPadPixSpectra
- ImgPixSpectra::MiniCSPadPixSpectra
- ImgPixSpectra::CameraPixSpectra
Configuration file example for MiniCSPadPixSpectra:
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[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
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To get images from saved file one may execute the The command for auxiliary script:
| Code Block |
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ImgPixSpectra/data/PlotSpectralArrayFromFile.py mini-cspad-pix-spectra.txt |
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See Module ImgAlgos::ImgPeakFinder
Configuration file example:
| Code Block |
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[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-2>.xtc \
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/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
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- 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).
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See Module ImgAlgos::CSPadArrAverage
Example of the configuration Configuration file example for evaluation of pedestals:
| Code Block |
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[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 |
Example of the configuration Configuration file example for evaluation of background:
| Code Block |
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[psana] modulesfiles = cspad_mod.CsPadCalib ImgAlgos.CSPadArrAverage 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 |
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See Module ImgAlgos::CSPadBkgdSubtract
| Code Block |
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[psana]
files = /reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-1>.xtc \
/reg/d/psdm/<instrument>/<experiment>/xtc/<file-name-2>.xtc \
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/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
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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:
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Example for Module ImgAlgos::ImgRadialCorrection
See Module ImgAlgos::ImgRadialCorrection
| Code Block |
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[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 \ CSPadPixCoords.CSPadImageGetTest: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 #key = bkgd_subtracted_arr imgkey = current_img runNumber = 22 #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 [CSPadPixCoords.CSPadImageGetTest: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:
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