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[664]1<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
2<html>
3<head>
4<?php include("base.inc"); ?>
5<title>ASAP - ATNF Spectral line Analysis Package</title>
6<meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
7<meta name="DC.Creator" lang="en" content="personalName=Marquarding,Malte" />
8<meta name="ATNF.Maintainer" content="contactName=Marquarding,Malte" />
9<meta name="DC.Title" lang="en" content="Homepage of Malte Marquarding" />
10<meta name="DC.Title.alt" lang="en" content="" />
11<meta name="DC.Subject" lang="en" content="spectral line" />
12<meta name="DC.Description" lang="en"
13content="Just some links and conatact details" />
14<meta name="DC.Date.created" scheme="ISO8601" content="2004-11-12" />
15<meta name="ATNF.Site" content="Marsfield" />
16<meta name="ATNF.AccessPermission" content="Public" />
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20<!--
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24}
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28PRE.commands {
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36<?php
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40<!-- Start Content -->
[1259]41<h1>ASAP 'commands'</h1>
[664]42<pre class="commands">
[1040]43ASAP> commands()
[664]44 [The scan container]
45 scantable - a container for integrations/scans
46 (can open asap/rpfits/sdfits and ms files)
47 copy - returns a copy of a scan
48 get_scan - gets a specific scan out of a scantable
[762]49 (by name or number)
[1259]50 drop_scan - drops a specific scan out of a scantable
51 (by number)
[1040]52 set_selection - set a new subselection of the data
53 get_selection - get the current selection object
[664]54 summary - print info about the scantable contents
55 stats - get specified statistic of the spectra in
56 the scantable
57 stddev - get the standard deviation of the spectra
58 in the scantable
59 get_tsys - get the TSys
60 get_time - get the timestamps of the integrations
[762]61 get_sourcename - get the source names of the scans
[794]62 get_azimuth - get the azimuth of the scans
63 get_elevation - get the elevation of the scans
64 get_parangle - get the parallactic angle of the scans
[1040]65 get_unit - get the current unit
[664]66 set_unit - set the abcissa unit to be used from this
67 point on
68 get_abcissa - get the abcissa values and name for a given
69 row (time)
[1259]70 get_column_names - get the names of the columns in the scantable
71 for use with selector.set_query
[664]72 set_freqframe - set the frame info for the Spectral Axis
73 (e.g. 'LSRK')
74 set_doppler - set the doppler to be used from this point on
[1040]75 set_dirframe - set the frame for the direction on the sky
[664]76 set_instrument - set the instrument name
[1259]77 set_feedtype - set the feed type
[664]78 get_fluxunit - get the brightness flux unit
79 set_fluxunit - set the brightness flux unit
80 create_mask - return an mask in the current unit
81 for the given region. The specified regions
82 are NOT masked
83 get_restfreqs - get the current list of rest frequencies
84 set_restfreqs - set a list of rest frequencies
[1040]85 flag - flag selected channels in the data
[1259]86 lag_flag - flag specified frequency in the data
87 save - save the scantable to disk as either 'ASAP',
88 'SDFITS' or 'ASCII'
[664]89 nbeam,nif,nchan,npol - the number of beams/IFs/Pols/Chans
[762]90 nscan - the number of scans in the scantable
[1040]91 nrow - te number of spectra in the scantable
[664]92 history - print the history of the scantable
93 get_fit - get a fit which has been stored witnh the data
94 average_time - return the (weighted) time average of a scan
95 or a list of scans
96 average_pol - average the polarisations together.
[1259]97 average_beam - average the beams together.
[1040]98 convert_pol - convert to a different polarisation type
[680]99 auto_quotient - return the on/off quotient with
[1259]100 automatic detection of the on/off scans (closest
101 in time off is selected)
102 mx_quotient - Form a quotient using MX data (off beams)
[1040]103 scale, *, / - return a scan scaled by a given factor
104 add, +, - - return a scan with given value added
[664]105 bin - return a scan with binned channels
106 resample - return a scan with resampled channels
107 smooth - return the spectrally smoothed scan
108 poly_baseline - fit a polynomial baseline to all Beams/IFs/Pols
109 auto_poly_baseline - automatically fit a polynomial baseline
[794]110 recalc_azel - recalculate azimuth and elevation based on
111 the pointing
[664]112 gain_el - apply gain-elevation correction
113 opacity - apply opacity correction
114 convert_flux - convert to and from Jy and Kelvin brightness
115 units
116 freq_align - align spectra in frequency frame
[1040]117 invert_phase - Invert the phase of the cross-correlation
118 swap_linears - Swap XX and YY
[664]119 rotate_xyphase - rotate XY phase of cross correlation
120 rotate_linpolphase - rotate the phase of the complex
121 polarization O=Q+iU correlation
[762]122 freq_switch - perform frequency switching on the data
123 stats - Determine the specified statistic, e.g. 'min'
124 'max', 'rms' etc.
125 stddev - Determine the standard deviation of the current
126 beam/if/pol
[1040]127 [Selection]
128 selector - a selection object to set a subset of a scantable
129 set_scans - set (a list of) scans by index
130 set_cycles - set (a list of) cycles by index
131 set_beams - set (a list of) beamss by index
132 set_ifs - set (a list of) ifs by index
133 set_polarisations - set (a list of) polarisations by name
134 or by index
135 set_names - set a selection by name (wildcards allowed)
136 set_tsys - set a selection by tsys thresholds
[1259]137 set_query - set a selection by SQL-like query, e.g. BEAMNO==1
[1040]138 reset - unset all selections
139 + - merge to selections
[762]140
[664]141 [Math] Mainly functions which operate on more than one scantable
142
143 average_time - return the (weighted) time average
144 of a list of scans
145 quotient - return the on/off quotient
146 simple_math - simple mathematical operations on two scantables,
147 'add', 'sub', 'mul', 'div'
[1259]148 quotient - build quotient of the given on and off scans
149 (matched pairs and 1 off/n on are valid)
150 merge - merge a list of scantables
151
152 [Line Catalog]
153 linecatalog - a linecatalog wrapper, taking an ASCII or
154 internal format table
155 summary - print a summary of the current selection
156 set_name - select a subset by name pattern, e.g. '*OH*'
157 set_strength_limits - select a subset by line strength limits
158 set_frequency_limits - select a subset by frequency limits
159 reset - unset all selections
160 save - save the current subset to a table (internal
161 format)
162 get_row - get the name and frequency from a specific
163 row in the table
[664]164 [Fitting]
165 fitter
166 auto_fit - return a scan where the function is
167 applied to all Beams/IFs/Pols.
168 commit - return a new scan where the fits have been
169 commited.
170 fit - execute the actual fitting process
[1040]171 store_fit - store the fit parameters in the data (scantable)
[664]172 get_chi2 - get the Chi^2
173 set_scan - set the scantable to be fit
174 set_function - set the fitting function
175 set_parameters - set the parameters for the function(s), and
176 set if they should be held fixed during fitting
177 set_gauss_parameters - same as above but specialised for individual
178 gaussian components
179 get_parameters - get the fitted parameters
180 plot - plot the resulting fit and/or components and
181 residual
182 [Plotter]
183 asapplotter - a plotter for asap, default plotter is
184 called 'plotter'
[1040]185 plot - plot a scantable
[1259]186 plot_lines - plot a linecatalog overlay
[664]187 save - save the plot to a file ('png' ,'ps' or 'eps')
188 set_mode - set the state of the plotter, i.e.
189 what is to be plotted 'colour stacked'
190 and what 'panelled'
[1040]191 set_selection - only plot a selected part of the data
[762]192 set_range - set a 'zoom' window [xmin,xmax,ymin,ymax]
[664]193 set_legend - specify user labels for the legend indeces
194 set_title - specify user labels for the panel indeces
[762]195 set_abcissa - specify a user label for the abcissa
[664]196 set_ordinate - specify a user label for the ordinate
197 set_layout - specify the multi-panel layout (rows,cols)
[762]198 set_colors - specify a set of colours to use
199 set_linestyles - specify a set of linestyles to use if only
200 using one color
[1259]201 set_font - set general font properties, e.g. 'family'
202 set_histogram - plot in historam style
[762]203 set_mask - set a plotting mask for a specific polarization
[1259]204 text - draw text annotations either in data or relative
205 coordinates
206 arrow - draw arrow annotations either in data or relative
207 coordinates
208 axhline,axvline - draw horizontal/vertical lines
209 axhspan,axvspan - draw horizontal/vertical regions
[664]210
[1259]211 xyplotter - matplotlib/pylab plotting functions
212
[664]213 [Reading files]
214 reader - access rpfits/sdfits files
[1040]215 open - attach reader to a file
216 close - detach reader from file
[664]217 read - read in integrations
218 summary - list info about all integrations
219
220 [General]
221 commands - this command
222 print - print details about a variable
223 list_scans - list all scantables created bt the user
[1040]224 list_files - list all files readable by asap (default rpf)
[664]225 del - delete the given variable from memory
226 range - create a list of values, e.g.
227 range(3) = [0,1,2], range(2,5) = [2,3,4]
228 help - print help for one of the listed functions
229 execfile - execute an asap script, e.g. execfile('myscript')
230 list_rcparameters - print out a list of possible values to be
231 put into $HOME/.asaprc
[1259]232 rc - set rc parameters from within asap
[664]233 mask_and,mask_or,
234 mask_not - boolean operations on masks created with
235 scantable.create_mask
236
237 Note:
238 How to use this with help:
239 # function 'summary'
240 [xxx] is just a category
241 Every 'sub-level' in this list should be replaces by a '.' Period when
242 using help
243 Example:
244 ASAP> help scantable # to get info on ths scantable
245 ASAP> help scantable.summary # to get help on the scantable's
246 ASAP> help average_time
247
248</pre>
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