[2] | 1 | //#---------------------------------------------------------------------------
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| 2 | //# SDMemTable.cc: A MemoryTable container for single dish integrations
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| 3 | //#---------------------------------------------------------------------------
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| 4 | //# Copyright (C) 2004
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| 5 | //# Malte Marquarding, 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:
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| 30 | //#---------------------------------------------------------------------------
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| 31 |
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[16] | 32 |
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[2] | 33 | #include <aips/iostream.h>
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| 34 | #include <aips/Arrays/Array.h>
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| 35 | #include <aips/Arrays/ArrayMath.h>
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| 36 | #include <aips/Arrays/MaskArrMath.h>
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| 37 | #include <aips/Arrays/ArrayLogical.h>
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| 38 | #include <aips/Arrays/ArrayAccessor.h>
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| 39 |
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| 40 | #include <aips/Tables/TableParse.h>
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| 41 | #include <aips/Tables/TableDesc.h>
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| 42 | #include <aips/Tables/SetupNewTab.h>
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| 43 | #include <aips/Tables/ScaColDesc.h>
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| 44 | #include <aips/Tables/ArrColDesc.h>
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| 45 |
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| 46 | #include <aips/Tables/ExprNode.h>
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| 47 | #include <aips/Tables/ScalarColumn.h>
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| 48 | #include <aips/Tables/ArrayColumn.h>
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[18] | 49 | #include <aips/Tables/TableRecord.h>
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[2] | 50 |
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[18] | 51 |
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[2] | 52 | #include "SDMemTable.h"
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| 53 | #include "SDContainer.h"
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| 54 |
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| 55 | using namespace atnf_sd;
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| 56 |
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[18] | 57 | SDMemTable::SDMemTable() :
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| 58 | IFSel_(0),
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| 59 | beamSel_(0),
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| 60 | polSel_(0) {
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| 61 | setup();
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| 62 | }
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[2] | 63 | SDMemTable::SDMemTable(const std::string& name) :
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| 64 | IFSel_(0),
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| 65 | beamSel_(0),
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| 66 | polSel_(0) {
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| 67 | name_ = String(name);
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[18] | 68 | Table tab(name_);
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| 69 | table_ = tab.copyToMemoryTable(name_);
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[2] | 70 | }
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| 71 |
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[16] | 72 | SDMemTable::SDMemTable(const SDMemTable& other, Bool clear) {
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[2] | 73 | this->IFSel_= other.IFSel_;
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| 74 | this->beamSel_= other.beamSel_;
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| 75 | this->polSel_= other.polSel_;
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| 76 | this->chanMask_ = other.chanMask_;
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| 77 | this->name_ = String("dummy");
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| 78 | this->table_ = other.table_.copyToMemoryTable(String("dummy"));
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| 79 | // clear all rows()
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[16] | 80 | if (clear) {
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| 81 | this->table_.removeRow(this->table_.rowNumbers());
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| 82 | } else {
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| 83 | this->IFSel_ = other.IFSel_;
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| 84 | this->beamSel_ = other.beamSel_;
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| 85 | this->polSel_ = other.polSel_;
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| 86 | }
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[2] | 87 | }
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| 88 |
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| 89 | SDMemTable::SDMemTable(const Table& tab, Int scanID) :
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| 90 | IFSel_(0),
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| 91 | beamSel_(0),
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| 92 | polSel_(0) {
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| 93 | name_ = String("SDMemTable");
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| 94 | String exprs = String("select * from $1 where SCANID == ")
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| 95 | +String::toString(scanID);
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| 96 | cerr << exprs << endl;
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| 97 | Table t = tableCommand(exprs,tab);
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| 98 | table_ = t.copyToMemoryTable(name_);
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| 99 | }
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| 100 |
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| 101 | SDMemTable::~SDMemTable(){
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| 102 | cerr << "goodbye from SDMemTable @ " << this << endl;
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| 103 | }
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| 104 |
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| 105 | SDMemTable SDMemTable::getScan(Int scanID) {
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| 106 | return SDMemTable(table_, scanID);
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| 107 | }
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| 108 |
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| 109 | void SDMemTable::setup() {
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| 110 | TableDesc td("", "1", TableDesc::Scratch);
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| 111 | td.comment() = "A SDMemTable";
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| 112 | td.addColumn(ScalarColumnDesc<Double>("TIME"));
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| 113 | td.addColumn(ScalarColumnDesc<String>("SRCNAME"));
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| 114 | td.addColumn(ArrayColumnDesc<Float>("SPECTRA"));
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| 115 | td.addColumn(ArrayColumnDesc<uChar>("FLAGTRA"));
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| 116 | td.addColumn(ArrayColumnDesc<Float>("TSYS"));
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| 117 | td.addColumn(ScalarColumnDesc<Int>("SCANID"));
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[16] | 118 | td.addColumn(ScalarColumnDesc<Double>("INTERVAL"));
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[2] | 119 | // Now create a new table from the description.
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[18] | 120 |
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[2] | 121 | SetupNewTable aNewTab(name_, td, Table::New);
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| 122 | table_ = Table(aNewTab, Table::Memory, 0);
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| 123 | }
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| 124 |
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| 125 | std::string SDMemTable::name() const {
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| 126 | return name_;
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| 127 | }
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| 128 |
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| 129 | std::string SDMemTable::getSourceName(Int whichRow) const {
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| 130 | ROScalarColumn<String> src(table_, "SRCNAME");
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| 131 | String name;
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| 132 | src.get(whichRow, name);
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| 133 | return name;
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| 134 | }
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| 135 |
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| 136 | Double SDMemTable::getTime(Int whichRow) const {
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| 137 | ROScalarColumn<Double> src(table_, "TIME");
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| 138 | Double tm;
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| 139 | src.get(whichRow, tm);
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| 140 | return tm;
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| 141 | }
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| 142 |
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| 143 | bool SDMemTable::setIF(Int whichIF) {
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| 144 | //if ( whichIF >= 0 && whichIF < nIF_) {
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| 145 | IFSel_ = whichIF;
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| 146 | return true;
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| 147 | //}
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| 148 | //return false;
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| 149 | }
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| 150 | bool SDMemTable::setBeam(Int whichBeam) {
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| 151 | //if ( whichBeam >= 0 && whichBeam < nBeam_) {
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| 152 | beamSel_ = whichBeam;
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| 153 | return true;
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| 154 | //}
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| 155 | //return false;
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| 156 |
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| 157 | }
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| 158 | bool SDMemTable::setPol(Int whichPol) {
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| 159 | //if ( whichPol >= 0 && whichPol < nPol_) {
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| 160 | polSel_ = whichPol;
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| 161 | return true;
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| 162 | //}
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| 163 | //return false;
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| 164 | }
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| 165 |
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[16] | 166 | bool SDMemTable::setMask(const std::vector<int>& whichChans) {
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| 167 | ROArrayColumn<uChar> spec(table_, "FLAGTRA");
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| 168 |
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| 169 | std::vector<int>::iterator it;
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| 170 | uInt n = spec.shape(0)(3);
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| 171 | chanMask_.resize(n,true);
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| 172 | for (it = whichChans.begin(); it != whichChans.end(); it++) {
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| 173 | if (*it < n)
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| 174 | chanMask_[*it] = false;
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| 175 | }
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[2] | 176 | return true;
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| 177 | }
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| 178 |
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[16] | 179 | std::vector<bool> SDMemTable::getMask(Int whichRow) const {
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| 180 | std::vector<bool> mask;
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| 181 | ROArrayColumn<uChar> spec(table_, "FLAGTRA");
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| 182 | Array<uChar> arr;
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| 183 | spec.get(whichRow, arr);
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| 184 | ArrayAccessor<uChar, Axis<0> > aa0(arr);
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| 185 | aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
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| 186 | ArrayAccessor<uChar, Axis<1> > aa1(aa0);
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| 187 | aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
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| 188 | ArrayAccessor<uChar, Axis<2> > aa2(aa1);
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| 189 | aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
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| 190 |
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| 191 | Bool useUserMask = ( chanMask_.size() == arr.shape()(3) );
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| 192 |
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| 193 | std::vector<bool> tmp;
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| 194 | tmp = chanMask_; // WHY the fxxx do I have to make a copy here
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| 195 | std::vector<bool>::iterator miter;
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| 196 | miter = tmp.begin();
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| 197 |
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| 198 | for (ArrayAccessor<uChar, Axis<3> > i(aa2); i != i.end(); ++i) {
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| 199 | bool out =!static_cast<bool>(*i);
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| 200 | if (useUserMask) {
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| 201 | out = out && (*miter);
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| 202 | miter++;
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| 203 | }
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| 204 | mask.push_back(out);
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| 205 | }
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| 206 | return mask;
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[2] | 207 | }
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| 208 | std::vector<float> SDMemTable::getSpectrum(Int whichRow) const {
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| 209 |
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| 210 | std::vector<float> spectrum;
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| 211 | ROArrayColumn<Float> spec(table_, "SPECTRA");
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| 212 | Array<Float> arr;
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| 213 | spec.get(whichRow, arr);
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| 214 | ArrayAccessor<Float, Axis<0> > aa0(arr);
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| 215 | aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
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| 216 | ArrayAccessor<Float, Axis<1> > aa1(aa0);
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| 217 | aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
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[16] | 218 | ArrayAccessor<Float, Axis<2> > aa2(aa1);
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| 219 | aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
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| 220 | for (ArrayAccessor<Float, Axis<3> > i(aa2); i != i.end(); ++i) {
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| 221 | spectrum.push_back(*i);
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[2] | 222 | }
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| 223 | return spectrum;
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| 224 | }
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| 225 |
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[16] | 226 | MaskedArray<Float> SDMemTable::rowAsMaskedArray(uInt whichRow,
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| 227 | Bool useSelection) {
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[2] | 228 | ROArrayColumn<Float> spec(table_, "SPECTRA");
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| 229 | Array<Float> arr;
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| 230 | ROArrayColumn<uChar> flag(table_, "FLAGTRA");
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| 231 | Array<uChar> farr;
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| 232 | spec.get(whichRow, arr);
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| 233 | flag.get(whichRow, farr);
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| 234 | Array<Bool> barr(farr.shape());convertArray(barr, farr);
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| 235 | MaskedArray<Float> marr;
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[16] | 236 | if (useSelection) {
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| 237 | ArrayAccessor<Float, Axis<0> > aa0(arr);
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| 238 | aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
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| 239 | ArrayAccessor<Float, Axis<1> > aa1(aa0);
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| 240 | aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
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| 241 | ArrayAccessor<Float, Axis<2> > aa2(aa1);
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| 242 | aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
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| 243 |
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| 244 | ArrayAccessor<Bool, Axis<0> > baa0(barr);
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| 245 | baa0.reset(baa0.begin(uInt(beamSel_)));//go to beam
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| 246 | ArrayAccessor<Bool, Axis<1> > baa1(baa0);
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| 247 | baa1.reset(baa1.begin(uInt(IFSel_)));// go to IF
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| 248 | ArrayAccessor<Bool, Axis<2> > baa2(baa1);
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| 249 | baa2.reset(baa2.begin(uInt(polSel_)));// go to pol
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| 250 |
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| 251 | Vector<Float> a(arr.shape()(3));
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| 252 | Vector<Bool> b(barr.shape()(3));
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| 253 | ArrayAccessor<Float, Axis<0> > a0(a);
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| 254 | ArrayAccessor<Bool, Axis<0> > b0(b);
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| 255 |
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| 256 | ArrayAccessor<Bool, Axis<3> > j(baa2);
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| 257 | for (ArrayAccessor<Float, Axis<3> > i(aa2); i != i.end(); ++i) {
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| 258 | (*a0) = (*i);
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| 259 | (*b0) = !(*j);
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| 260 | j++;
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| 261 | a0++;
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| 262 | b0++;
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| 263 | }
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| 264 | marr.setData(a,b);
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| 265 | } else {
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| 266 | marr.setData(arr,!barr);
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| 267 | }
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[2] | 268 | return marr;
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| 269 | }
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| 270 |
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| 271 | Float SDMemTable::getTsys(Int whichRow) const {
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| 272 | ROArrayColumn<Float> ts(table_, "TSYS");
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| 273 | Array<Float> arr;
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| 274 | ts.get(whichRow, arr);
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| 275 | Float out;
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| 276 | IPosition ip(arr.shape());
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[16] | 277 | ip(0) = beamSel_;ip(1) = IFSel_;ip(2) = polSel_;ip(3)=0;
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[2] | 278 | out = arr(ip);
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| 279 | return out;
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| 280 | }
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| 281 |
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| 282 | bool SDMemTable::putSDContainer(const SDContainer& sdc) {
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| 283 | ScalarColumn<Double> mjd(table_, "TIME");
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| 284 | ScalarColumn<String> srcn(table_, "SRCNAME");
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| 285 | ArrayColumn<Float> spec(table_, "SPECTRA");
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| 286 | ArrayColumn<uChar> flags(table_, "FLAGTRA");
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| 287 | ArrayColumn<Float> ts(table_, "TSYS");
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| 288 | ScalarColumn<Int> scan(table_, "SCANID");
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[16] | 289 | ScalarColumn<Double> integr(table_, "INTERVAL");
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[2] | 290 |
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| 291 | uInt rno = table_.nrow();
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| 292 | table_.addRow();
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| 293 |
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| 294 | mjd.put(rno, sdc.timestamp);
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| 295 | srcn.put(rno, sdc.sourcename);
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| 296 | spec.put(rno, sdc.getSpectrum());
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| 297 | flags.put(rno, sdc.getFlags());
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| 298 | ts.put(rno, sdc.getTsys());
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| 299 | scan.put(rno, sdc.scanid);
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[16] | 300 | integr.put(rno, sdc.interval);
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| 301 |
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[2] | 302 | return true;
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| 303 | }
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[18] | 304 |
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| 305 | bool SDMemTable::putSDHeader(const SDHeader& sdh) {
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| 306 | table_.lock();
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| 307 | table_.rwKeywordSet().define("nIF", sdh.nif);
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| 308 | table_.rwKeywordSet().define("nBeam", sdh.nbeam);
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| 309 | table_.rwKeywordSet().define("nPol", sdh.npol);
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| 310 | table_.rwKeywordSet().define("nChan", sdh.nchan);
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| 311 | table_.rwKeywordSet().define("Observer", sdh.observer);
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| 312 | table_.rwKeywordSet().define("Project", sdh.project);
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| 313 | table_.rwKeywordSet().define("Obstype", sdh.obstype);
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| 314 | table_.rwKeywordSet().define("AntennaName", sdh.antennaname);
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| 315 | table_.rwKeywordSet().define("AntennaPosition", sdh.antennaposition);
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| 316 | table_.rwKeywordSet().define("Equinox", sdh.equinox);
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| 317 | table_.rwKeywordSet().define("FreqRefFrame", sdh.freqref);
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| 318 | table_.rwKeywordSet().define("FreqRefVal", sdh.reffreq);
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| 319 | table_.rwKeywordSet().define("Bandwidth", sdh.bandwidth);
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| 320 | table_.rwKeywordSet().define("UTC", sdh.utc);
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| 321 | table_.unlock();
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| 322 | cerr << "Table Header set" << endl;
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| 323 | return true;
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| 324 | }
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| 325 |
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[2] | 326 | void SDMemTable::makePersistent(const std::string& filename) {
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| 327 | table_.deepCopy(filename,Table::New);
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| 328 | }
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| 329 |
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| 330 | void SDMemTable::summary() const {
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| 331 | ROScalarColumn<Int> scans(table_, "SCANID");
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| 332 | ROScalarColumn<String> srcs(table_, "SRCNAME");
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[18] | 333 | cout << "*************** Header ***************" << endl;
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| 334 | cout << "nBeam = " << nBeam() << "\t"
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| 335 | << "nIF = " << nIF() << endl
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| 336 | << "nPol = " << nPol() << "\t"
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| 337 | << "nChan = " << nChan() << "\t" << endl;
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| 338 | cout << "*************** Header ***************" << endl;
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[2] | 339 | uInt count = 0;
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| 340 | String name;
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| 341 | Int previous = -1;Int current=0;
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| 342 | cout << "Scan\tSource" << endl;
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| 343 | for (uInt i=0; i< scans.nrow();i++) {
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| 344 | scans.getScalar(i,current);
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| 345 | if (previous != current) {
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| 346 | srcs.getScalar(i,name);
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| 347 | previous = current;
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| 348 | count++;
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[16] | 349 | cout << count << "\t"
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| 350 | << name
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| 351 | << endl;
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[2] | 352 | }
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| 353 | }
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[18] | 354 | cout << "Table contains " << table_.nrow() << " integration(s)." << endl;
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| 355 | cout << "in " << count << " scan(s)." << endl;
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[2] | 356 | }
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[18] | 357 |
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| 358 | Int SDMemTable::nBeam() const {
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| 359 | Int n;
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| 360 | table_.keywordSet().get("nBeam",n);
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| 361 | return n;
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| 362 | }
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| 363 | Int SDMemTable::nIF() const {
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| 364 | Int n;
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| 365 | table_.keywordSet().get("nIF",n);
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| 366 | return n;
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| 367 | }
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| 368 | Int SDMemTable::nPol() const {
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| 369 | Int n;
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| 370 | table_.keywordSet().get("nPol",n);
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| 371 | return n;
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| 372 | }
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| 373 | Int SDMemTable::nChan() const {
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| 374 | Int n;
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| 375 | table_.keywordSet().get("nChan",n);
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| 376 | return n;
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| 377 | }
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| 378 |
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[16] | 379 | /*
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[18] | 380 | void SDMemTable::maskChannels(const std::vector<Int>& whichChans ) {
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[16] | 381 |
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| 382 | std::vector<int>::iterator it;
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| 383 | ArrayAccessor<uChar, Axis<2> > j(flags_);
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| 384 | for (it = whichChans.begin(); it != whichChans.end(); it++) {
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| 385 | j.reset(j.begin(uInt(*it)));
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| 386 | for (ArrayAccessor<uChar, Axis<0> > i(j); i != i.end(); ++i) {
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| 387 | for (ArrayAccessor<uChar, Axis<1> > ii(i); ii != ii.end(); ++ii) {
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| 388 | for (ArrayAccessor<uChar, Axis<3> > iii(ii);
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| 389 | iii != iii.end(); ++iii) {
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| 390 | (*iii) =
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| 391 | }
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| 392 | }
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| 393 | }
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| 394 | }
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| 395 |
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| 396 | }
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| 397 | */
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