| [664] | 1 | <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
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| 2 | <html>
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| 3 | <head>
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| 4 | <?php include("base.inc"); ?>
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| 5 | <title>ASAP - ATNF Spectral line Analysis Package</title>
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| 6 | <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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| 7 | <meta name="DC.Creator" lang="en" content="personalName=Marquarding,Malte" />
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| 8 | <meta name="ATNF.Maintainer" content="contactName=Marquarding,Malte" />
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| 9 | <meta name="DC.Title" lang="en" content="Homepage of Malte Marquarding" />
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| 10 | <meta name="DC.Title.alt" lang="en" content="" />
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| 11 | <meta name="DC.Subject" lang="en" content="spectral line" />
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| 12 | <meta name="DC.Description" lang="en"
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| 13 | content="Just some links and conatact details" />
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| 14 | <meta name="DC.Date.created" scheme="ISO8601" content="2004-11-12" />
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| 15 | <meta name="ATNF.Site" content="Marsfield" />
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| 19 | <STYLE TYPE="text/css">
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| 20 | <!--
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| 21 | B.asap {
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| 22 | text-align: center;
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| 23 | color: blue;
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| 24 | }
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| 25 | B.note {
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| 26 | color: red;
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| 27 | }
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| 28 | PRE.commands {
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| 35 | <body bgcolor="#FFFFFF" text="#000000">
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| 36 | <?php
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| 37 | title_bar("atnf");
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| 38 | title_crumbs("/computing/software/");
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| 39 | ?>
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| 40 | <!-- Start Content -->
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| [1259] | 41 | <h1>ASAP 'commands'</h1>
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| [664] | 42 | <pre class="commands">
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| [1040] | 43 | ASAP> commands()
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| [664] | 44 | [The scan container]
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| 45 | scantable - a container for integrations/scans
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| 46 | (can open asap/rpfits/sdfits and ms files)
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| 47 | copy - returns a copy of a scan
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| 48 | get_scan - gets a specific scan out of a scantable
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| [762] | 49 | (by name or number)
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| [1259] | 50 | drop_scan - drops a specific scan out of a scantable
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| 51 | (by number)
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| [1040] | 52 | set_selection - set a new subselection of the data
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| 53 | get_selection - get the current selection object
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| [664] | 54 | summary - print info about the scantable contents
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| 55 | stats - get specified statistic of the spectra in
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| 56 | the scantable
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| 57 | stddev - get the standard deviation of the spectra
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| 58 | in the scantable
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| 59 | get_tsys - get the TSys
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| 60 | get_time - get the timestamps of the integrations
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| [762] | 61 | get_sourcename - get the source names of the scans
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| [794] | 62 | get_azimuth - get the azimuth of the scans
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| 63 | get_elevation - get the elevation of the scans
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| 64 | get_parangle - get the parallactic angle of the scans
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| [1040] | 65 | get_unit - get the current unit
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| [664] | 66 | set_unit - set the abcissa unit to be used from this
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| 67 | point on
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| 68 | get_abcissa - get the abcissa values and name for a given
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| 69 | row (time)
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| [1259] | 70 | get_column_names - get the names of the columns in the scantable
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| 71 | for use with selector.set_query
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| [664] | 72 | set_freqframe - set the frame info for the Spectral Axis
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| 73 | (e.g. 'LSRK')
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| 74 | set_doppler - set the doppler to be used from this point on
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| [1040] | 75 | set_dirframe - set the frame for the direction on the sky
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| [664] | 76 | set_instrument - set the instrument name
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| [1259] | 77 | set_feedtype - set the feed type
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| [664] | 78 | get_fluxunit - get the brightness flux unit
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| 79 | set_fluxunit - set the brightness flux unit
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| 80 | create_mask - return an mask in the current unit
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| 81 | for the given region. The specified regions
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| 82 | are NOT masked
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| 83 | get_restfreqs - get the current list of rest frequencies
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| 84 | set_restfreqs - set a list of rest frequencies
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| [1040] | 85 | flag - flag selected channels in the data
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| [1259] | 86 | lag_flag - flag specified frequency in the data
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| 87 | save - save the scantable to disk as either 'ASAP',
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| 88 | 'SDFITS' or 'ASCII'
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| [664] | 89 | nbeam,nif,nchan,npol - the number of beams/IFs/Pols/Chans
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| [762] | 90 | nscan - the number of scans in the scantable
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| [1040] | 91 | nrow - te number of spectra in the scantable
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| [664] | 92 | history - print the history of the scantable
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| 93 | get_fit - get a fit which has been stored witnh the data
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| 94 | average_time - return the (weighted) time average of a scan
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| 95 | or a list of scans
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| 96 | average_pol - average the polarisations together.
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| [1259] | 97 | average_beam - average the beams together.
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| [1040] | 98 | convert_pol - convert to a different polarisation type
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| [680] | 99 | auto_quotient - return the on/off quotient with
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| [1259] | 100 | automatic detection of the on/off scans (closest
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| 101 | in time off is selected)
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| 102 | mx_quotient - Form a quotient using MX data (off beams)
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| [1040] | 103 | scale, *, / - return a scan scaled by a given factor
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| 104 | add, +, - - return a scan with given value added
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| [664] | 105 | bin - return a scan with binned channels
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| 106 | resample - return a scan with resampled channels
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| 107 | smooth - return the spectrally smoothed scan
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| 108 | poly_baseline - fit a polynomial baseline to all Beams/IFs/Pols
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| 109 | auto_poly_baseline - automatically fit a polynomial baseline
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| [794] | 110 | recalc_azel - recalculate azimuth and elevation based on
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| 111 | the pointing
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| [664] | 112 | gain_el - apply gain-elevation correction
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| 113 | opacity - apply opacity correction
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| 114 | convert_flux - convert to and from Jy and Kelvin brightness
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| 115 | units
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| 116 | freq_align - align spectra in frequency frame
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| [1040] | 117 | invert_phase - Invert the phase of the cross-correlation
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| 118 | swap_linears - Swap XX and YY
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| [664] | 119 | rotate_xyphase - rotate XY phase of cross correlation
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| 120 | rotate_linpolphase - rotate the phase of the complex
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| 121 | polarization O=Q+iU correlation
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| [762] | 122 | freq_switch - perform frequency switching on the data
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| 123 | stats - Determine the specified statistic, e.g. 'min'
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| 124 | 'max', 'rms' etc.
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| 125 | stddev - Determine the standard deviation of the current
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| 126 | beam/if/pol
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| [1040] | 127 | [Selection]
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| 128 | selector - a selection object to set a subset of a scantable
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| 129 | set_scans - set (a list of) scans by index
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| 130 | set_cycles - set (a list of) cycles by index
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| 131 | set_beams - set (a list of) beamss by index
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| 132 | set_ifs - set (a list of) ifs by index
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| 133 | set_polarisations - set (a list of) polarisations by name
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| 134 | or by index
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| 135 | set_names - set a selection by name (wildcards allowed)
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| 136 | set_tsys - set a selection by tsys thresholds
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| [1259] | 137 | set_query - set a selection by SQL-like query, e.g. BEAMNO==1
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| [1040] | 138 | reset - unset all selections
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| 139 | + - merge to selections
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| [762] | 140 |
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| [664] | 141 | [Math] Mainly functions which operate on more than one scantable
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| 142 |
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| 143 | average_time - return the (weighted) time average
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| 144 | of a list of scans
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| 145 | quotient - return the on/off quotient
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| 146 | simple_math - simple mathematical operations on two scantables,
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| 147 | 'add', 'sub', 'mul', 'div'
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| [1259] | 148 | quotient - build quotient of the given on and off scans
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| 149 | (matched pairs and 1 off/n on are valid)
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| 150 | merge - merge a list of scantables
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| 151 |
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| 152 | [Line Catalog]
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| 153 | linecatalog - a linecatalog wrapper, taking an ASCII or
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| 154 | internal format table
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| 155 | summary - print a summary of the current selection
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| 156 | set_name - select a subset by name pattern, e.g. '*OH*'
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| 157 | set_strength_limits - select a subset by line strength limits
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| 158 | set_frequency_limits - select a subset by frequency limits
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| 159 | reset - unset all selections
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| 160 | save - save the current subset to a table (internal
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| 161 | format)
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| 162 | get_row - get the name and frequency from a specific
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| 163 | row in the table
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| [664] | 164 | [Fitting]
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| 165 | fitter
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| 166 | auto_fit - return a scan where the function is
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| 167 | applied to all Beams/IFs/Pols.
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| 168 | commit - return a new scan where the fits have been
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| 169 | commited.
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| 170 | fit - execute the actual fitting process
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| [1040] | 171 | store_fit - store the fit parameters in the data (scantable)
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| [664] | 172 | get_chi2 - get the Chi^2
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| 173 | set_scan - set the scantable to be fit
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| 174 | set_function - set the fitting function
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| 175 | set_parameters - set the parameters for the function(s), and
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| 176 | set if they should be held fixed during fitting
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| 177 | set_gauss_parameters - same as above but specialised for individual
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| 178 | gaussian components
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| 179 | get_parameters - get the fitted parameters
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| 180 | plot - plot the resulting fit and/or components and
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| 181 | residual
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| 182 | [Plotter]
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| 183 | asapplotter - a plotter for asap, default plotter is
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| 184 | called 'plotter'
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| [1040] | 185 | plot - plot a scantable
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| [1259] | 186 | plot_lines - plot a linecatalog overlay
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| [664] | 187 | save - save the plot to a file ('png' ,'ps' or 'eps')
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| 188 | set_mode - set the state of the plotter, i.e.
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| 189 | what is to be plotted 'colour stacked'
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| 190 | and what 'panelled'
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| [1040] | 191 | set_selection - only plot a selected part of the data
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| [762] | 192 | set_range - set a 'zoom' window [xmin,xmax,ymin,ymax]
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| [664] | 193 | set_legend - specify user labels for the legend indeces
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| 194 | set_title - specify user labels for the panel indeces
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| [762] | 195 | set_abcissa - specify a user label for the abcissa
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| [664] | 196 | set_ordinate - specify a user label for the ordinate
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| 197 | set_layout - specify the multi-panel layout (rows,cols)
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| [762] | 198 | set_colors - specify a set of colours to use
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| 199 | set_linestyles - specify a set of linestyles to use if only
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| 200 | using one color
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| [1259] | 201 | set_font - set general font properties, e.g. 'family'
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| 202 | set_histogram - plot in historam style
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| [762] | 203 | set_mask - set a plotting mask for a specific polarization
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| [1259] | 204 | text - draw text annotations either in data or relative
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| 205 | coordinates
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| 206 | arrow - draw arrow annotations either in data or relative
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| 207 | coordinates
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| 208 | axhline,axvline - draw horizontal/vertical lines
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| 209 | axhspan,axvspan - draw horizontal/vertical regions
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| [664] | 210 |
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| [1259] | 211 | xyplotter - matplotlib/pylab plotting functions
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| 212 |
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| [664] | 213 | [Reading files]
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| 214 | reader - access rpfits/sdfits files
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| [1040] | 215 | open - attach reader to a file
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| 216 | close - detach reader from file
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| [664] | 217 | read - read in integrations
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| 218 | summary - list info about all integrations
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| 219 |
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| 220 | [General]
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| 221 | commands - this command
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| 222 | print - print details about a variable
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| 223 | list_scans - list all scantables created bt the user
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| [1040] | 224 | list_files - list all files readable by asap (default rpf)
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| [664] | 225 | del - delete the given variable from memory
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| 226 | range - create a list of values, e.g.
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| 227 | range(3) = [0,1,2], range(2,5) = [2,3,4]
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| 228 | help - print help for one of the listed functions
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| 229 | execfile - execute an asap script, e.g. execfile('myscript')
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| 230 | list_rcparameters - print out a list of possible values to be
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| 231 | put into $HOME/.asaprc
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| [1259] | 232 | rc - set rc parameters from within asap
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| [664] | 233 | mask_and,mask_or,
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| 234 | mask_not - boolean operations on masks created with
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| 235 | scantable.create_mask
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| 236 |
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| 237 | Note:
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| 238 | How to use this with help:
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| 239 | # function 'summary'
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| 240 | [xxx] is just a category
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| 241 | Every 'sub-level' in this list should be replaces by a '.' Period when
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| 242 | using help
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| 243 | Example:
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| 244 | ASAP> help scantable # to get info on ths scantable
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| 245 | ASAP> help scantable.summary # to get help on the scantable's
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| 246 | ASAP> help average_time
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| 247 |
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| 248 | </pre>
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| 249 | <!-- End Content -->
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| 250 | <?php footer(); ?>
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| 251 | </body>
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| 252 | </html>
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