#include <hitfinder.h>

Inheritance diagram for cass::pp210:

Collaboration diagram for cass::pp210:

Public Types
enum	ColumnNames { Intensity = 0, centroidColumn = 1, centroidRow = 2, nbrOfPixels = 3, SignalToNoiseHighestPixel = 4, Index = 5, Column = 6, Row = 7, LocalBackground = 8, LocalBackgroundDeviation = 9, MaxRadius = 10, MinRadius = 11, MaxADU = 12, nUpOutliers = 13, Resolution = 14, SignalToNoiseSpot = 15, AdditionalPixels = 16, nbrOf }
	enum describing the contents of the resulting table More...

typedef result_t::storage_t	table_t
	definition of the table More...

typedef result_t::storage_t::value_type	pixelval_t
	define the type of the pixel in image More...

typedef CummulativeStatisticsNoOutlier< pixelval_t >	stat_t
	define the type of statistics used More...

typedef int64_t	index_t
	define the index in the image More...

typedef std::pair< index_t, index_t >	shape_t
	define the shape of the image More...

typedef std::vector< index_t >	neighbourList_t
	define the list of neighbours More...

Public Types inherited from cass::Processor
typedef std::tr1::shared_ptr< Processor >	shared_pointer
	a shared pointer of this More...

typedef std::string	name_t
	define the name type More...

typedef std::list< name_t >	names_t
	define the list of names More...

typedef CachedList::item_type	result_t
	define the results More...

typedef CachedList::item_sp	resultsp_t
	define the shared pointer to the result More...

Public Member Functions
	pp210 (const name_t &name)
	constructor More...

virtual void	loadSettings (size_t)
	load the settings for this processor More...

virtual void	process (const CASSEvent &, result_t &)
	process event More...

Public Member Functions inherited from cass::Processor
	Processor (const name_t &name)
	constructor More...

virtual	~Processor ()
	virtual destructor More...

virtual void	processEvent (const CASSEvent &event)
	process the event More...

virtual const result_t &	result (const CASSEvent::id_t eventid=0)
	retrieve a result for a given id. More...

virtual void	releaseEvent (const CASSEvent &event)
	tell the list that the result for event can be overwritten More...

result_t::shared_pointer	resultCopy (const uint64_t eventid)
	retrieve histogram for id More...

virtual void	load ()
	load the general settings More...

virtual void	aboutToQuit ()
	function that will be called when the processor is about to be deleted More...

const names_t &	dependencies ()
	Define all processors keys a processor depends on. More...

void	clearDependencies ()
	clear the dependenies More...

void	clearHistograms ()
	clear the histograms More...

virtual void	processCommand (std::string command)
	process command in pp More...

const name_t	name () const
	retrieve the name of this processor More...

bool	hide () const
	retrieve the hide flag of this processor More...

const std::string &	comment () const
	retrieve the comment of this processor More...

Protected Attributes
shape_t	_box
	the size of the box within which the peak should lie More...

shared_pointer	_imagePP
	processor containing the image to find the bragg peaks in More...

shape_t	_section
	size of a image section More...

shape_t	_imageShape
	size of the incomming image More...

stat_t::value_type	_minSnr
	minimum Signal to Noise Ratio thats is needed for a pixel to be an outlier More...

pixelval_t	_minNbrSnr
	minimum snr when pixel is an neighbour More...

stat_t::count_type	_minNbrPixels
	the minimum nbr of pixels in the bragg peak More...

neighbourList_t	_neighbourOffsets
	the list of offsets to next neighbours More...

pixelval_t	_threshold
	pixel threshold to be exceeded More...

pixelval_t	_badPixVal
	pixel value of a bad pixel More...

size_t	_maxAdditionalPixels
	pixel value of a bad pixel More...

Protected Attributes inherited from cass::Processor
const name_t	_name
	the processors name More...

bool	_hide
	flag to tell whether this pp should be hidden in the dropdown list More...

std::string	_comment
	optional comment that one can add to a processor. More...

CachedList	_resultList
	the list of results More...

names_t	_dependencies
	the list of dependencies More...

shared_pointer	_condition
	pointer to the processor that will contain the condition More...

Additional Inherited Members
Protected Member Functions inherited from cass::Processor
virtual void	createHistList (result_t::shared_pointer result)
	create result list. More...

void	setupGeneral ()
	general setup of the processor More...

bool	setupCondition (bool defaultConditionType=true)
	setup the condition. More...

shared_pointer	setupDependency (const std::string &depVarName, const name_t &name="")
	setup the dependecy. More...

Detailed Description

Definition at line 708 of file hitfinder.h.

Member Typedef Documentation

typedef int64_t cass::pp210::index_t

define the index in the image

Definition at line 730 of file hitfinder.h.

typedef std::vector<index_t> cass::pp210::neighbourList_t

define the list of neighbours

Definition at line 736 of file hitfinder.h.

typedef result_t::storage_t::value_type cass::pp210::pixelval_t

define the type of the pixel in image

Definition at line 724 of file hitfinder.h.

typedef std::pair<index_t,index_t> cass::pp210::shape_t

define the shape of the image

Definition at line 733 of file hitfinder.h.

typedef CummulativeStatisticsNoOutlier<pixelval_t> cass::pp210::stat_t

define the type of statistics used

Definition at line 727 of file hitfinder.h.

typedef result_t::storage_t cass::pp210::table_t

definition of the table

Definition at line 721 of file hitfinder.h.

Member Enumeration Documentation

enum cass::pp210::ColumnNames

enum describing the contents of the resulting table

Enumerator
Intensity
centroidColumn
centroidRow
nbrOfPixels
SignalToNoiseHighestPixel
Index
Column
Row
LocalBackground
LocalBackgroundDeviation
MaxRadius
MinRadius
MaxADU
nUpOutliers
Resolution
SignalToNoiseSpot
AdditionalPixels
nbrOf

Definition at line 739 of file hitfinder.h.

Constructor & Destructor Documentation

pp210::pp210 ( const name_t & name )

constructor

Definition at line 1382 of file hitfinder.cpp.

References loadSettings().

Member Function Documentation

void pp210::loadSettings ( size_t )

virtual

load the settings for this processor

return if any of the dependecies has not been loaded

Create the result output

log what the user was requesting

Reimplemented from cass::Processor.

Definition at line 1388 of file hitfinder.cpp.

References _badPixVal, _box, cass::Processor::_condition, _imagePP, _imageShape, _maxAdditionalPixels, _minNbrPixels, _minNbrSnr, _minSnr, _neighbourOffsets, _section, _threshold, cass::Log::add(), QSettings::beginGroup(), cass::Processor::createHistList(), QString::fromStdString(), cass::Log::INFO, cass::Processor::name(), nbrOf, cass::Processor::setupCondition(), cass::Processor::setupDependency(), cass::Processor::setupGeneral(), and QSettings::value().

Referenced by pp210().

void pp210::process	(	const CASSEvent &	evt,
		result_t &	result
	)

virtual

process event

clear the resulting table to fill it with the values of this image

get a table row that we can later add to the table

set up a mask that we can see which pixels have been treated

get iterators to the beginning and end of the image

check if pixel should be treated, when it has been treated before continue with the next pixel

check if pixel is above the threshold, otherwise continue with the next pixel

caluclate where we are within the image

get the right box boundaries, so that we're within the image and the sections

calc the section that the box edges are in

check if pixel is highest within box. If so, check if there are enough pixels that are not outliers. If there are not enough pixels in the box increase the box size and do the checks all over again. If the pixel is not highest within the bigger box continue with the next pixel.

now check if its the highest pixel

check if we're still inside the image

calculate the MAD

check if the median is postive

check if pixel satifies the snr requirement

retrive statistical values from the calculator

from the central pixel look around and see which pixels are direct part of the peak. If a neighbour is found, mask it such that one does not use it twice.

Create a list that should contain the indizes of the pixels that are part of the peak. Go through that list and check for each found neighbour whether it also has a neighbour. If so add it to the list, but only if it is part of the box.

Note: need to check if the pixel has been used after verifiying that the pixel is within the box. Otherwise in rare occasions it will happen that the pixelindex is not within the boolean array which will cause a segfault.

check if the potential neighbour is a bad pixel, if so ignore this bragg spot

if the peak doesn't have enough pixels continue with next pixel

go through all pixels in the box, find out which pixels are part of the peak and centroid them. Mask all pixels in the box as checked so one does not check them again

count how many pixels are not connected to the center one but still above the snr

check how many pixels that are not part of the main peak there are

set the peak's properties and add peak to the list of found peaks

Reimplemented from cass::Processor.

Definition at line 1442 of file hitfinder.cpp.

References _badPixVal, _box, _imagePP, _imageShape, _maxAdditionalPixels, _minNbrPixels, _minNbrSnr, _minSnr, _neighbourOffsets, _section, _threshold, AdditionalPixels, cass::Result< T >::appendRows(), cass::Result< T >::begin(), centroidColumn, centroidRow, Column, cass::Result< T >::end(), cass::CASSEvent::id(), Index, cass::ACQIRIS::integral, Intensity, LocalBackground, LocalBackgroundDeviation, cass::Result< T >::lock, MaxADU, MaxRadius, MinRadius, nbrOf, nbrOfPixels, cass::Result< T >::resetTable(), Row, SignalToNoiseHighestPixel, SignalToNoiseSpot, and cass::Result< T >::size().