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PSRCHIVE user documentation: spa
The Single Pulse Analysis program, spa, is designed to search for giant pulses and giant micropulses. It calculates the flux of individual pulses and plots a histogram of flux distributions. This can be done for the integrated pulse flux, peak flux, or flux at a given phase. A plot of the cumulative probability distribution is also given. A list of individual pulses which are larger than the mean flux by a given factor is displayed, along with integration numbers, phase, flux, and the filenames of the archives containing them. spa can also be used to plot the variation in amplitude in each phase bin. It uses the PGPLOT graphics subroutine library and any of its associated output devices. It is designed to extract and display information only, it will not modify archives in any way. All flux measurements are given in units of mean flux.
2.0 UsageAll of spa's commands are of the form:
spa [options] filenameswith the following options available:
-v                    Verbose mode
-V                    Very verbose mode
-l                    Logarithmic flux scale
-f                    Save output text as 'spa_out.txt' - if exists file overwritten
-f[filename]   Save output text as [filename] - if exists file overwritten
-g[factor]      Show giant pulses with flux = [factor]*[mean flux]. The default value of [factor] is 5
-p                    Use peak flux, not total flux
-p[phase]        Use peak flux, calculated at phase = [phase]. This is useful for off-pulse flux or on-pulse variations
-w[width]        Sets width to sum flux over (in phase units). Use only with the -p or -d flags
-d                    Plot amplitude variations against pulse phase (1 file only). Can be used with -p and -w flags to zoom in.
Multiple filenames can be specified on the command line either individually or using wildcard characters. Not much output is displayed while files are being loaded and analysed, unless verbose mode is used, so be patient if loading multiple files.
3.0 Algorithmsspa uses the Archive and Profile classes to examine individual pulses. It calculates pulse flux densities and removes the mean baseline level. In the case of using only amplitudes (-p flag), the baseline rms is removed. All distribution plots show flux in terms of the mean flux, which is calculated for each individual file to compensate for possible changes due to scintillation.
4.0 Testing and examplesThe flags which can be set with spa are explained reasonably well by using the -h option, as below.
spa -hThe example below displays the log (base 10) of the pulse flux on the x axis of the flux distribution plot, and only lists pulses with a flux greater than 10 times the mean flux. The phase shown in the output text is for the centre of the region with maximum flux.
spa -g10 -l pulse_2109359875.arThe next example uses the peak amplitude of pulses instead of total flux. It also uses verbose mode, displaying information about the state of the program during runtime. The phase shown in the output text is for the peak amplitude.
spa -p -v *.arThis time amplitudes are used again instead of total flux, but amplitudes are calculated at the phase given (phase = 0.649), instead of peak amplitudes. This is useful for observing off-pulse flux distributions, normal pulse flux distributions and giant pulse flux distributions individually.
spa -p0.649 -fspa_out.txt *.arWhen the -p flag is used with the -w flag instead of using the amplitude of individual phase bins, bins are summed over an area of the width given. In this case over a width of 0.1 (in phase) centred at a pulse phase of 0.65.
spa -p0.65 -w0.1 *.arThe example below is sums over a width of 0.1 centred on the peak amplitude of each pulse period.
spa -p -w0.1 *.arThe -d flag plots the variation in amplitude in each phase bin. The value plotted is the number of standard deviations the maximum value is away from the mean for each phase bin.
spa -d pulsar.arFinally the -p and -w flags can be used with -d to zoom in on the area of interest.
spa -d -p0.65 -w0.8 pulsar.arStandard redirection can be used to save the giant pulse information instead of the -f, but the pgplot prompt requesting an output device will also be sent to the output file and the program will wait for a response, appearing to have frozen.
5.0 Known bugs and features that require implementation