| 1 | //#---------------------------------------------------------------------------
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| 2 | //# STWriter.cc: ASAP class to write out single dish spectra.
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| 3 | //#---------------------------------------------------------------------------
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| 4 | //# Copyright (C) 2004
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| 5 | //# ATNF
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| 6 | //#
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| 7 | //# This program is free software; you can redistribute it and/or modify it
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| 8 | //# under the terms of the GNU General Public License as published by the Free
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| 9 | //# Software Foundation; either version 2 of the License, or (at your option)
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| 10 | //# any later version.
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| 11 | //#
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| 12 | //# This program is distributed in the hope that it will be useful, but
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| 13 | //# WITHOUT ANY WARRANTY; without even the implied warranty of
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| 14 | //# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General
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| 15 | //# Public License for more details.
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| 16 | //#
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| 17 | //# You should have received a copy of the GNU General Public License along
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| 18 | //# with this program; if not, write to the Free Software Foundation, Inc.,
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| 19 | //# 675 Massachusetts Ave, Cambridge, MA 02139, USA.
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| 20 | //#
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| 21 | //# Correspondence concerning this software should be addressed as follows:
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| 22 | //# Internet email: Malte.Marquarding@csiro.au
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| 23 | //# Postal address: Malte Marquarding,
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| 24 | //# Australia Telescope National Facility,
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| 25 | //# P.O. Box 76,
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| 26 | //# Epping, NSW, 2121,
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| 27 | //# AUSTRALIA
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| 28 | //#
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| 29 | //# $Id: STWriter.cpp 1575 2009-06-29 03:32:17Z MalteMarquarding $
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| 30 | //#---------------------------------------------------------------------------
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| 31 |
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| 32 | #include <string>
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| 33 |
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| 34 | #include <casa/aips.h>
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| 35 | #include <casa/Arrays/Array.h>
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| 36 | #include <casa/Arrays/Vector.h>
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| 37 | #include <casa/BasicSL/Complex.h>
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| 38 | #include <casa/Utilities/CountedPtr.h>
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| 39 | #include <casa/Utilities/Assert.h>
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| 40 |
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| 41 | #include <atnf/PKSIO/PKSrecord.h>
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| 42 | #include <atnf/PKSIO/PKSMS2writer.h>
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| 43 | #include <atnf/PKSIO/PKSSDwriter.h>
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| 44 |
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| 45 | #include <tables/Tables/Table.h>
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| 46 | #include <tables/Tables/TableIter.h>
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| 47 | #include <tables/Tables/TableRow.h>
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| 48 | #include <tables/Tables/ArrayColumn.h>
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| 49 |
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| 50 | #include "STFITSImageWriter.h"
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| 51 | #include "STAsciiWriter.h"
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| 52 | #include "STHeader.h"
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| 53 | #include "STMath.h"
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| 54 |
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| 55 |
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| 56 | #include "STWriter.h"
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| 57 |
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| 58 | using namespace casa;
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| 59 | namespace asap {
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| 60 |
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| 61 | STWriter::STWriter(const std::string &format)
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| 62 | {
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| 63 | format_ = format;
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| 64 | String t(format_);
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| 65 | t.upcase();
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| 66 | if (t == "MS2") {
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| 67 | writer_ = new PKSMS2writer();
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| 68 | } else if (t == "SDFITS") {
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| 69 | writer_ = new PKSSDwriter();
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| 70 | } else if (t == "ASCII" || t == "FITS" || t == "CLASS") {
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| 71 | writer_ = 0;
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| 72 | } else {
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| 73 | throw (AipsError("Unrecognized export format"));
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| 74 | }
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| 75 | }
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| 76 |
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| 77 | STWriter::~STWriter()
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| 78 | {
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| 79 | if (writer_) {
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| 80 | delete writer_;
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| 81 | }
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| 82 | }
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| 83 |
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| 84 | Int STWriter::setFormat(const std::string &format)
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| 85 | {
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| 86 | if (format != format_) {
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| 87 | if (writer_) delete writer_;
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| 88 | }
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| 89 |
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| 90 | format_ = format;
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| 91 | String t(format_);
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| 92 | t.upcase();
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| 93 | if (t== "MS2") {
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| 94 | writer_ = new PKSMS2writer();
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| 95 | } else if (t== "SDFITS") {
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| 96 | writer_ = new PKSSDwriter();
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| 97 | } else if (t == "ASCII" || t == "FITS" || t == "CLASS") {
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| 98 | writer_ = 0;
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| 99 | } else {
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| 100 | throw (AipsError("Unrecognized Format"));
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| 101 | }
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| 102 | return 0;
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| 103 | }
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| 104 |
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| 105 | Int STWriter::write(const CountedPtr<Scantable> in,
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| 106 | const std::string &filename)
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| 107 | {
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| 108 | // If we write out foreign formats we have to convert the frequency system
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| 109 | // into the output frame, as we do everything related to SPectarlCoordinates
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| 110 | // in asap on-the-fly.
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| 111 |
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| 112 | CountedPtr<Scantable> inst = in;
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| 113 | if (in->frequencies().getFrame(true) != in->frequencies().getFrame(false)) {
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| 114 | STMath stm(false);
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| 115 | inst = stm.frequencyAlign(in);
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| 116 | }
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| 117 |
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| 118 | if (format_=="ASCII") {
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| 119 | STAsciiWriter iw;
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| 120 | // ASCII calls SpectralCoordinate::toWorld so no freqAlign use 'in'
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| 121 | if (iw.write(*in, filename)) {
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| 122 | return 0;
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| 123 | } else {
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| 124 | return 1;
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| 125 | }
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| 126 | } else if ( format_ == "FITS" || format_ == "CLASS") {
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| 127 | STFITSImageWriter iw;
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| 128 | if (format_ == "CLASS") {
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| 129 | iw.setClass(True);
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| 130 | }
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| 131 | if (iw.write(*inst, filename)) {
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| 132 | return 0;
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| 133 | }
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| 134 | }
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| 135 |
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| 136 | // MS or SDFITS
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| 137 |
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| 138 | // Extract the header from the table.
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| 139 | // this is a little different from what I have done
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| 140 | // before. Need to check with the Offline User Test data
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| 141 | STHeader hdr = inst->getHeader();
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| 142 | //const Int nPol = hdr.npol;
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| 143 | //const Int nChan = hdr.nchan;
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| 144 | std::vector<uint> ifs = inst->getIFNos();
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| 145 | int nIF = inst->nif();//ifs.size();
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| 146 | Vector<uInt> nPol(nIF),nChan(nIF);
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| 147 | Vector<Bool> havexpol(nIF);
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| 148 | String fluxUnit = hdr.fluxunit;
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| 149 |
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| 150 | nPol = 0;nChan = 0; havexpol = False;
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| 151 | for (uint i=0;i<ifs.size();++i) {
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| 152 | nPol(ifs[i]) = inst->npol();
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| 153 | nChan(ifs[i]) = inst->nchan(ifs[i]);
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| 154 | havexpol(ifs[i]) = nPol(ifs[i]) > 2;
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| 155 | }
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| 156 |
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| 157 | const Table table = inst->table();
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| 158 |
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| 159 | // Create the output file and write static data.
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| 160 | Int status;
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| 161 | status = writer_->create(String(filename), hdr.observer, hdr.project,
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| 162 | hdr.antennaname, hdr.antennaposition,
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| 163 | hdr.obstype, hdr.fluxunit,
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| 164 | hdr.equinox, hdr.freqref,
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| 165 | nChan, nPol, havexpol, False);
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| 166 | if ( status ) {
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| 167 | throw(AipsError("Failed to create output file"));
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| 168 | }
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| 169 |
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| 170 | Int count = 0;
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| 171 | PKSrecord pksrec;
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| 172 | pksrec.scanNo = 1;
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| 173 | // use spearate iterators to ensure renumbering of all numbers
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| 174 | TableIterator scanit(table, "SCANNO");
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| 175 | while (!scanit.pastEnd() ) {
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| 176 | Table stable = scanit.table();
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| 177 | TableIterator beamit(stable, "BEAMNO");
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| 178 | pksrec.beamNo = 1;
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| 179 | while (!beamit.pastEnd() ) {
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| 180 | Table btable = beamit.table();
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| 181 | TableIterator cycit(btable, "CYCLENO");
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| 182 | ROArrayColumn<Double> srateCol(btable, "SCANRATE");
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| 183 | Vector<Double> sratedbl;
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| 184 | srateCol.get(0, sratedbl);
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| 185 | Vector<Float> srateflt(sratedbl.nelements());
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| 186 | convertArray(srateflt, sratedbl);
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| 187 | pksrec.scanRate = srateflt;
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| 188 | ROArrayColumn<Double> spmCol(btable, "SRCPROPERMOTION");
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| 189 | spmCol.get(0, pksrec.srcPM);
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| 190 | ROArrayColumn <Double> sdirCol(btable, "SRCDIRECTION");
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| 191 | sdirCol.get(0, pksrec.srcDir);
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| 192 | ROScalarColumn<Double> svelCol(btable, "SRCVELOCITY");
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| 193 | svelCol.get(0, pksrec.srcVel);
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| 194 | ROScalarColumn<uInt> bCol(btable, "BEAMNO");
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| 195 | pksrec.beamNo = bCol(0)+1;
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| 196 | pksrec.cycleNo = 1;
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| 197 | while (!cycit.pastEnd() ) {
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| 198 | Table ctable = cycit.table();
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| 199 | TableIterator ifit(ctable, "IFNO");
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| 200 | MDirection::ScalarColumn dirCol(ctable, "DIRECTION");
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| 201 | pksrec.direction = dirCol(0).getAngle("rad").getValue();
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| 202 | pksrec.IFno = 1;
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| 203 | while (!ifit.pastEnd() ) {
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| 204 | Table itable = ifit.table();
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| 205 | TableRow row(itable);
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| 206 | // use the first row to fill in all the "metadata"
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| 207 | const TableRecord& rec = row.get(0);
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| 208 | ROArrayColumn<Float> specCol(itable, "SPECTRA");
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| 209 | pksrec.IFno = rec.asuInt("IFNO")+1;
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| 210 | uInt nchan = specCol(0).nelements();
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| 211 | Double crval,crpix;
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| 212 | Float tmp0,tmp1,tmp2,tmp3,tmp4;
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| 213 | String stmp0,stmp1;
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| 214 | inst->frequencies().getEntry(crpix,crval, pksrec.freqInc,
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| 215 | rec.asuInt("FREQ_ID"));
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| 216 | inst->focus().getEntry(pksrec.focusAxi, pksrec.focusTan,
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| 217 | pksrec.focusRot, tmp0,tmp1,tmp2,tmp3,tmp4,
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| 218 | rec.asuInt("FOCUS_ID"));
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| 219 | inst->molecules().getEntry(pksrec.restFreq,stmp0,stmp1,
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| 220 | rec.asuInt("MOLECULE_ID"));
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| 221 | inst->tcal().getEntry(pksrec.tcalTime, pksrec.tcal,
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| 222 | rec.asuInt("TCAL_ID"));
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| 223 | inst->weather().getEntry(pksrec.temperature, pksrec.pressure,
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| 224 | pksrec.humidity, pksrec.windSpeed,
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| 225 | pksrec.windAz, rec.asuInt("WEATHER_ID"));
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| 226 | Double pixel = Double(nchan/2);
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| 227 | pksrec.refFreq = (pixel-crpix)*pksrec.freqInc + crval;
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| 228 | // ok, now we have nrows for the n polarizations in this table
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| 229 | polConversion(pksrec.spectra, pksrec.flagged, pksrec.xPol, itable);
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| 230 | pksrec.tsys = tsysFromTable(itable);
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| 231 | // dummy data
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| 232 | uInt npol = pksrec.spectra.ncolumn();
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| 233 |
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| 234 | pksrec.mjd = rec.asDouble("TIME");
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| 235 | pksrec.interval = rec.asDouble("INTERVAL");
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| 236 | pksrec.fieldName = rec.asString("FIELDNAME");
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| 237 | pksrec.srcName = rec.asString("SRCNAME");
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| 238 | pksrec.obsType = hdr.obstype;
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| 239 | pksrec.bandwidth = nchan * abs(pksrec.freqInc);
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| 240 | pksrec.azimuth = rec.asFloat("AZIMUTH");
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| 241 | pksrec.elevation = rec.asFloat("ELEVATION");
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| 242 | pksrec.parAngle = rec.asFloat("PARANGLE");
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| 243 | pksrec.refBeam = rec.asInt("REFBEAMNO") + 1;
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| 244 | pksrec.sigma.resize(npol);
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| 245 | pksrec.sigma = 0.0f;
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| 246 | pksrec.calFctr.resize(npol);
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| 247 | pksrec.calFctr = 0.0f;
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| 248 | pksrec.baseLin.resize(npol,2);
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| 249 | pksrec.baseLin = 0.0f;
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| 250 | pksrec.baseSub.resize(npol,9);
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| 251 | pksrec.baseSub = 0.0f;
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| 252 | pksrec.xCalFctr = 0.0;
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| 253 |
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| 254 | status = writer_->write(pksrec);
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| 255 | if ( status ) {
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| 256 | writer_->close();
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| 257 | throw(AipsError("STWriter: Failed to export Scantable."));
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| 258 | }
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| 259 | ++count;
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| 260 | //++pksrec.IFno;
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| 261 | ++ifit;
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| 262 | }
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| 263 | ++pksrec.cycleNo;
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| 264 | ++cycit;
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| 265 | }
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| 266 | //++pksrec.beamNo;
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| 267 | ++beamit;
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| 268 | }
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| 269 | ++pksrec.scanNo;
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| 270 | ++scanit;
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| 271 | }
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| 272 | ostringstream oss;
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| 273 | oss << "STWriter: wrote " << count << " rows to " << filename;
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| 274 | pushLog(String(oss));
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| 275 | writer_->close();
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| 276 | //if MS2 delete POINTING table exists and copy the one in the keyword
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| 277 | if ( format_ == "MS2" ) {
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| 278 | replacePtTab(table, filename);
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| 279 | }
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| 280 | return 0;
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| 281 | }
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| 282 |
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| 283 | Vector<Float> STWriter::tsysFromTable(const Table& tab)
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| 284 | {
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| 285 | ROArrayColumn<Float> tsysCol(tab, "TSYS");
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| 286 | Vector<Float> out(tab.nrow());
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| 287 | Vector<Float> tmp;
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| 288 | for (uInt i=0; i<tab.nrow(); ++i) {
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| 289 | tmp.resize();
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| 290 | tmp = tsysCol(i);
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| 291 | out[i] = tmp[0];
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| 292 | }
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| 293 | return out;
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| 294 | }
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| 295 |
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| 296 | void STWriter::polConversion( Matrix< Float >& specs, Matrix< uChar >& flags,
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| 297 | Vector< Complex > & xpol, const Table & tab )
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| 298 | {
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| 299 | String poltype = tab.keywordSet().asString("POLTYPE");
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| 300 | if ( poltype == "stokes") {
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| 301 | String msg = "poltype = " + poltype + " not yet supported in output.";
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| 302 | throw(AipsError(msg));
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| 303 | }
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| 304 | ROArrayColumn<Float> specCol(tab, "SPECTRA");
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| 305 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA");
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| 306 | uInt nchan = specCol(0).nelements();
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| 307 | uInt ncol = (tab.nrow()==1 ? 1: 2 );
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| 308 | specs.resize(nchan, ncol);
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| 309 | flags.resize(nchan, ncol);
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| 310 | // the linears
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| 311 | for (uInt i=0; i<ncol; ++i) {
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| 312 | specs.column(i) = specCol(i);
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| 313 | flags.column(i) = flagCol(i);
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| 314 | }
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| 315 | // now the complex if exists
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| 316 | Bool hasxpol = False;
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| 317 | xpol.resize();
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| 318 | if ( tab.nrow() == 4 ) {
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| 319 | hasxpol = True;
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| 320 | xpol.resize(nchan);
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| 321 | Vector<Float> reals, imags;
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| 322 | reals = specCol(2); imags = specCol(3);
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| 323 | for (uInt k=0; k < nchan; ++k) {
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| 324 | xpol[k] = Complex(reals[k], imags[k]);
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| 325 | }
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| 326 | }
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| 327 | }
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| 328 |
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| 329 | // For writing MS data, if there is the reference to
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| 330 | // original pointing table it replace it by it.
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| 331 | void STWriter::replacePtTab (const Table& tab, const std::string& fname)
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| 332 | {
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| 333 | String oldPtTabName = fname;
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| 334 | oldPtTabName.append("/POINTING");
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| 335 | if ( tab.keywordSet().isDefined("POINTING") ) {
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| 336 | String PointingTab = tab.keywordSet().asString("POINTING");
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| 337 | if ( Table::isReadable(PointingTab) ) {
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| 338 | Table newPtTab(PointingTab, Table::Old);
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| 339 | newPtTab.copy(oldPtTabName, Table::New);
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| 340 | ostringstream oss;
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| 341 | oss << "STWriter: copied " <<PointingTab << " to " << fname;
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| 342 | pushLog(String(oss));
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| 343 | }
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| 344 | }
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| 345 | }
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| 346 |
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| 347 | }
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