[805] | 1 | // |
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| 2 | // C++ Implementation: STFiller |
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| 3 | // |
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| 4 | // Description: |
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| 5 | // |
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| 6 | // |
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[1410] | 7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2006-2007 |
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[805] | 8 | // |
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| 9 | // Copyright: See COPYING file that comes with this distribution |
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| 10 | // |
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| 11 | // |
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[404] | 12 | #include <casa/iostream.h> |
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| 13 | #include <casa/iomanip.h> |
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| 14 | |
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[125] | 15 | #include <casa/Exceptions.h> |
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[284] | 16 | #include <casa/OS/Path.h> |
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[290] | 17 | #include <casa/OS/File.h> |
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[338] | 18 | #include <casa/Quanta/Unit.h> |
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[805] | 19 | #include <casa/Arrays/ArrayMath.h> |
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[1060] | 20 | #include <casa/Arrays/ArrayLogical.h> |
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[805] | 21 | #include <casa/Utilities/Regex.h> |
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| 22 | |
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| 23 | #include <casa/Containers/RecordField.h> |
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| 24 | |
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| 25 | #include <tables/Tables/TableRow.h> |
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| 26 | |
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[1450] | 27 | #include <atnf/PKSIO/PKSrecord.h> |
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[2] | 28 | #include <atnf/PKSIO/PKSreader.h> |
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[1438] | 29 | #ifdef HAS_ALMA |
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| 30 | #include <casa/System/ProgressMeter.h> |
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| 31 | #endif |
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[125] | 32 | |
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[835] | 33 | #include "STDefs.h" |
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[878] | 34 | #include "STAttr.h" |
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[2] | 35 | |
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[805] | 36 | #include "STFiller.h" |
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[901] | 37 | #include "STHeader.h" |
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[805] | 38 | |
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[125] | 39 | using namespace casa; |
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[2] | 40 | |
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[805] | 41 | namespace asap { |
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| 42 | |
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| 43 | STFiller::STFiller() : |
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[2] | 44 | reader_(0), |
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[405] | 45 | header_(0), |
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[1504] | 46 | table_(0), |
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| 47 | refRx_(".*(e|w|_R)$") |
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[420] | 48 | { |
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[2] | 49 | } |
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[805] | 50 | |
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| 51 | STFiller::STFiller( CountedPtr< Scantable > stbl ) : |
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[46] | 52 | reader_(0), |
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[405] | 53 | header_(0), |
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[1504] | 54 | table_(stbl), |
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| 55 | refRx_(".*(e|w|_R)$") |
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[420] | 56 | { |
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[46] | 57 | } |
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[2] | 58 | |
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[855] | 59 | STFiller::STFiller(const std::string& filename, int whichIF, int whichBeam ) : |
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[2] | 60 | reader_(0), |
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[405] | 61 | header_(0), |
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[1504] | 62 | table_(0), |
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| 63 | refRx_(".*(e|w|_R)$") |
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[420] | 64 | { |
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[805] | 65 | open(filename, whichIF, whichBeam); |
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[2] | 66 | } |
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| 67 | |
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[805] | 68 | STFiller::~STFiller() |
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| 69 | { |
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| 70 | close(); |
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[2] | 71 | } |
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| 72 | |
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[855] | 73 | void STFiller::open( const std::string& filename, int whichIF, int whichBeam ) |
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[805] | 74 | { |
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[846] | 75 | if (table_.null()) { |
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| 76 | table_ = new Scantable(); |
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| 77 | } |
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[805] | 78 | if (reader_) { delete reader_; reader_ = 0; } |
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| 79 | Bool haveBase, haveSpectra; |
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[2] | 80 | |
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| 81 | String inName(filename); |
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[284] | 82 | Path path(inName); |
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| 83 | inName = path.expandedName(); |
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[405] | 84 | |
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[290] | 85 | File file(inName); |
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[805] | 86 | if ( !file.exists() ) { |
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[290] | 87 | throw(AipsError("File does not exist")); |
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| 88 | } |
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[87] | 89 | filename_ = inName; |
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[332] | 90 | |
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[405] | 91 | // Create reader and fill in values for arguments |
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[2] | 92 | String format; |
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[1060] | 93 | Vector<Bool> beams, ifs; |
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| 94 | Vector<uInt> nchans,npols; |
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| 95 | if ( (reader_ = getPKSreader(inName, 0, 0, format, beams, ifs, |
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| 96 | nchans, npols, haveXPol_,haveBase, haveSpectra |
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| 97 | )) == 0 ) { |
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[405] | 98 | throw(AipsError("Creation of PKSreader failed")); |
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[2] | 99 | } |
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| 100 | if (!haveSpectra) { |
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| 101 | delete reader_; |
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| 102 | reader_ = 0; |
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[87] | 103 | throw(AipsError("No spectral data in file.")); |
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[2] | 104 | return; |
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| 105 | } |
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| 106 | nBeam_ = beams.nelements(); |
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[1060] | 107 | nIF_ = ifs.nelements(); |
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[2] | 108 | // Get basic parameters. |
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[1060] | 109 | if ( anyEQ(haveXPol_, True) ) { |
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[717] | 110 | pushLog("Cross polarization present"); |
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[1060] | 111 | for (uInt i=0; i< npols.nelements();++i) { |
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| 112 | if (npols[i] < 3) npols[i] += 2;// Convert Complex -> 2 Floats |
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| 113 | } |
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[110] | 114 | } |
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[405] | 115 | if (header_) delete header_; |
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[901] | 116 | header_ = new STHeader(); |
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[1060] | 117 | header_->nchan = max(nchans); |
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| 118 | header_->npol = max(npols); |
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[405] | 119 | header_->nbeam = nBeam_; |
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[1410] | 120 | |
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[405] | 121 | Int status = reader_->getHeader(header_->observer, header_->project, |
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| 122 | header_->antennaname, header_->antennaposition, |
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[1410] | 123 | header_->obstype, |
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| 124 | header_->fluxunit, |
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| 125 | header_->equinox, |
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[405] | 126 | header_->freqref, |
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| 127 | header_->utc, header_->reffreq, |
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| 128 | header_->bandwidth); |
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| 129 | |
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[2] | 130 | if (status) { |
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| 131 | delete reader_; |
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| 132 | reader_ = 0; |
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[805] | 133 | delete header_; |
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| 134 | header_ = 0; |
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[87] | 135 | throw(AipsError("Failed to get header.")); |
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[2] | 136 | } |
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[405] | 137 | if ((header_->obstype).matches("*SW*")) { |
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[2] | 138 | // need robust way here - probably read ahead of next timestamp |
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[717] | 139 | pushLog("Header indicates frequency switched observation.\n" |
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[754] | 140 | "setting # of IFs = 1 "); |
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[2] | 141 | nIF_ = 1; |
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[805] | 142 | header_->obstype = String("fswitch"); |
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[2] | 143 | } |
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[405] | 144 | // Determine Telescope and set brightness unit |
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[342] | 145 | |
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[1391] | 146 | |
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[342] | 147 | Bool throwIt = False; |
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[878] | 148 | Instrument inst = STAttr::convertInstrument(header_->antennaname, throwIt); |
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[1410] | 149 | |
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[342] | 150 | if (inst==ATMOPRA || inst==TIDBINBILLA) { |
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[1410] | 151 | header_->fluxunit = "K"; |
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| 152 | } else { |
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| 153 | // downcase for use with Quanta |
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| 154 | if (header_->fluxunit == "JY") { |
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| 155 | header_->fluxunit = "Jy"; |
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| 156 | } |
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[342] | 157 | } |
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[1188] | 158 | STAttr stattr; |
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| 159 | header_->poltype = stattr.feedPolType(inst); |
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[405] | 160 | header_->nif = nIF_; |
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| 161 | header_->epoch = "UTC"; |
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[805] | 162 | // *** header_->frequnit = "Hz" |
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[2] | 163 | // Apply selection criteria. |
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| 164 | Vector<Int> ref; |
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[332] | 165 | ifOffset_ = 0; |
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| 166 | if (whichIF>=0) { |
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| 167 | if (whichIF>=0 && whichIF<nIF_) { |
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[1060] | 168 | ifs = False; |
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| 169 | ifs(whichIF) = True; |
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[805] | 170 | header_->nif = 1; |
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| 171 | nIF_ = 1; |
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| 172 | ifOffset_ = whichIF; |
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[332] | 173 | } else { |
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[805] | 174 | delete reader_; |
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| 175 | reader_ = 0; |
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| 176 | delete header_; |
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| 177 | header_ = 0; |
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| 178 | throw(AipsError("Illegal IF selection")); |
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[332] | 179 | } |
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| 180 | } |
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| 181 | beamOffset_ = 0; |
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| 182 | if (whichBeam>=0) { |
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[805] | 183 | if (whichBeam>=0 && whichBeam<nBeam_) { |
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[1060] | 184 | beams = False; |
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| 185 | beams(whichBeam) = True; |
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[805] | 186 | header_->nbeam = 1; |
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| 187 | nBeam_ = 1; |
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| 188 | beamOffset_ = whichBeam; |
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| 189 | } else { |
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| 190 | delete reader_; |
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| 191 | reader_ = 0; |
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| 192 | delete header_; |
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| 193 | header_ = 0; |
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| 194 | throw(AipsError("Illegal Beam selection")); |
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| 195 | } |
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[332] | 196 | } |
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| 197 | Vector<Int> start(nIF_, 1); |
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| 198 | Vector<Int> end(nIF_, 0); |
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[1450] | 199 | reader_->select(beams, ifs, start, end, ref, True, haveXPol_[0]); |
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[846] | 200 | table_->setHeader(*header_); |
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[1391] | 201 | //For MS, add the location of POINTING of the input MS so one get |
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| 202 | //pointing data from there, if necessary. |
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| 203 | //Also find nrow in MS |
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| 204 | nInDataRow = 0; |
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| 205 | if (format == "MS2") { |
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| 206 | Path datapath(inName); |
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| 207 | String ptTabPath = datapath.absoluteName(); |
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| 208 | Table inMS(ptTabPath); |
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| 209 | nInDataRow = inMS.nrow(); |
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| 210 | ptTabPath.append("/POINTING"); |
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| 211 | table_->table().rwKeywordSet().define("POINTING", ptTabPath); |
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| 212 | if ((header_->antennaname).matches("GBT")) { |
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| 213 | String GOTabPath = datapath.absoluteName(); |
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| 214 | GOTabPath.append("/GBT_GO"); |
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| 215 | table_->table().rwKeywordSet().define("GBT_GO", GOTabPath); |
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| 216 | } |
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| 217 | } |
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| 218 | |
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[805] | 219 | } |
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[405] | 220 | |
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[805] | 221 | void STFiller::close( ) |
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| 222 | { |
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| 223 | delete reader_;reader_=0; |
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| 224 | delete header_;header_=0; |
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| 225 | table_ = 0; |
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[2] | 226 | } |
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| 227 | |
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[805] | 228 | int asap::STFiller::read( ) |
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| 229 | { |
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[87] | 230 | int status = 0; |
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| 231 | |
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[1391] | 232 | Double min = 0.0; |
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| 233 | Double max = nInDataRow; |
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[1438] | 234 | #ifdef HAS_ALMA |
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| 235 | ProgressMeter fillpm(min, max, "Data importing progress"); |
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| 236 | #endif |
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[1450] | 237 | PKSrecord pksrec; |
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[1391] | 238 | int n = 0; |
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[805] | 239 | while ( status == 0 ) { |
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[1450] | 240 | status = reader_->read(pksrec); |
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[805] | 241 | if ( status != 0 ) break; |
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[1391] | 242 | n += 1; |
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| 243 | |
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[1081] | 244 | Regex filterrx(".*[SL|PA]$"); |
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[1110] | 245 | Regex obsrx("^AT.+"); |
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[1450] | 246 | if ( header_->antennaname.matches(obsrx) && |
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| 247 | pksrec.obsType.matches(filterrx)) { |
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[1110] | 248 | //cerr << "ignoring paddle scan" << endl; |
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[1081] | 249 | continue; |
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| 250 | } |
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[805] | 251 | TableRow row(table_->table()); |
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| 252 | TableRecord& rec = row.record(); |
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[999] | 253 | // fields that don't get used and are just passed through asap |
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| 254 | RecordFieldPtr<Array<Double> > srateCol(rec, "SCANRATE"); |
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[1462] | 255 | // MRC changed type from double to float |
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[1467] | 256 | Vector<Double> sratedbl(pksrec.scanRate.nelements()); |
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[1462] | 257 | convertArray(sratedbl, pksrec.scanRate); |
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| 258 | *srateCol = sratedbl; |
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[999] | 259 | RecordFieldPtr<Array<Double> > spmCol(rec, "SRCPROPERMOTION"); |
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[1450] | 260 | *spmCol = pksrec.srcPM; |
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[999] | 261 | RecordFieldPtr<Array<Double> > sdirCol(rec, "SRCDIRECTION"); |
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[1450] | 262 | *sdirCol = pksrec.srcDir; |
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[999] | 263 | RecordFieldPtr<Double> svelCol(rec, "SRCVELOCITY"); |
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[1450] | 264 | *svelCol = pksrec.srcVel; |
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[999] | 265 | // the real stuff |
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[972] | 266 | RecordFieldPtr<Int> fitCol(rec, "FIT_ID"); |
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| 267 | *fitCol = -1; |
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[805] | 268 | RecordFieldPtr<uInt> scanoCol(rec, "SCANNO"); |
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[1450] | 269 | *scanoCol = pksrec.scanNo-1; |
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[805] | 270 | RecordFieldPtr<uInt> cyclenoCol(rec, "CYCLENO"); |
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[1450] | 271 | *cyclenoCol = pksrec.cycleNo-1; |
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[805] | 272 | RecordFieldPtr<Double> mjdCol(rec, "TIME"); |
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[1450] | 273 | *mjdCol = pksrec.mjd; |
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[805] | 274 | RecordFieldPtr<Double> intCol(rec, "INTERVAL"); |
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[1450] | 275 | *intCol = pksrec.interval; |
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[805] | 276 | RecordFieldPtr<String> srcnCol(rec, "SRCNAME"); |
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| 277 | RecordFieldPtr<Int> srctCol(rec, "SRCTYPE"); |
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[1391] | 278 | RecordFieldPtr<String> fieldnCol(rec, "FIELDNAME"); |
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[1450] | 279 | *fieldnCol = pksrec.fieldName; |
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[805] | 280 | // try to auto-identify if it is on or off. |
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[1504] | 281 | Regex rx(refRx_); |
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[942] | 282 | Regex rx2("_S$"); |
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[1450] | 283 | Int match = pksrec.srcName.matches(rx); |
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[805] | 284 | if (match) { |
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[1450] | 285 | *srcnCol = pksrec.srcName; |
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[805] | 286 | } else { |
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[1450] | 287 | *srcnCol = pksrec.srcName.before(rx2); |
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[805] | 288 | } |
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[1450] | 289 | //*srcnCol = pksrec.srcName;//.before(rx2); |
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[805] | 290 | *srctCol = match; |
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| 291 | RecordFieldPtr<uInt> beamCol(rec, "BEAMNO"); |
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[1450] | 292 | *beamCol = pksrec.beamNo-beamOffset_-1; |
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[805] | 293 | RecordFieldPtr<Int> rbCol(rec, "REFBEAMNO"); |
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| 294 | Int rb = -1; |
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[1450] | 295 | if (nBeam_ > 1 ) rb = pksrec.refBeam-1; |
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[805] | 296 | *rbCol = rb; |
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| 297 | RecordFieldPtr<uInt> ifCol(rec, "IFNO"); |
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[1450] | 298 | *ifCol = pksrec.IFno-ifOffset_- 1; |
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[805] | 299 | uInt id; |
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| 300 | /// @todo this has to change when nchan isn't global anymore |
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| 301 | id = table_->frequencies().addEntry(Double(header_->nchan/2), |
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[1450] | 302 | pksrec.refFreq, pksrec.freqInc); |
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[805] | 303 | RecordFieldPtr<uInt> mfreqidCol(rec, "FREQ_ID"); |
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| 304 | *mfreqidCol = id; |
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[25] | 305 | |
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[1450] | 306 | id = table_->molecules().addEntry(pksrec.restFreq); |
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[805] | 307 | RecordFieldPtr<uInt> molidCol(rec, "MOLECULE_ID"); |
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| 308 | *molidCol = id; |
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[414] | 309 | |
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[1450] | 310 | id = table_->tcal().addEntry(pksrec.tcalTime, pksrec.tcal); |
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[805] | 311 | RecordFieldPtr<uInt> mcalidCol(rec, "TCAL_ID"); |
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| 312 | *mcalidCol = id; |
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[1450] | 313 | id = table_->weather().addEntry(pksrec.temperature, pksrec.pressure, |
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| 314 | pksrec.humidity, pksrec.windSpeed, |
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| 315 | pksrec.windAz); |
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[805] | 316 | RecordFieldPtr<uInt> mweatheridCol(rec, "WEATHER_ID"); |
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| 317 | *mweatheridCol = id; |
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| 318 | RecordFieldPtr<uInt> mfocusidCol(rec, "FOCUS_ID"); |
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[1450] | 319 | id = table_->focus().addEntry(pksrec.focusAxi, pksrec.focusTan, |
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| 320 | pksrec.focusRot); |
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[805] | 321 | *mfocusidCol = id; |
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| 322 | RecordFieldPtr<Array<Double> > dirCol(rec, "DIRECTION"); |
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[1450] | 323 | *dirCol = pksrec.direction; |
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[922] | 324 | RecordFieldPtr<Float> azCol(rec, "AZIMUTH"); |
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[1450] | 325 | *azCol = pksrec.azimuth; |
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[922] | 326 | RecordFieldPtr<Float> elCol(rec, "ELEVATION"); |
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[1450] | 327 | *elCol = pksrec.elevation; |
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[405] | 328 | |
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[805] | 329 | RecordFieldPtr<Float> parCol(rec, "PARANGLE"); |
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[1450] | 330 | *parCol = pksrec.parAngle; |
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[332] | 331 | |
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[805] | 332 | RecordFieldPtr< Array<Float> > specCol(rec, "SPECTRA"); |
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| 333 | RecordFieldPtr< Array<uChar> > flagCol(rec, "FLAGTRA"); |
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| 334 | RecordFieldPtr< uInt > polnoCol(rec, "POLNO"); |
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[405] | 335 | |
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[805] | 336 | RecordFieldPtr< Array<Float> > tsysCol(rec, "TSYS"); |
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| 337 | // Turn the (nchan,npol) matrix and possible complex xPol vector |
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| 338 | // into 2-4 rows in the scantable |
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| 339 | Vector<Float> tsysvec(1); |
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[1450] | 340 | // Why is pksrec.spectra.ncolumn() == 3 for haveXPol_ == True |
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| 341 | uInt npol = (pksrec.spectra.ncolumn()==1 ? 1: 2); |
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[805] | 342 | for ( uInt i=0; i< npol; ++i ) { |
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[1450] | 343 | tsysvec = pksrec.tsys(i); |
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[805] | 344 | *tsysCol = tsysvec; |
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| 345 | *polnoCol = i; |
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[405] | 346 | |
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[1450] | 347 | *specCol = pksrec.spectra.column(i); |
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[1462] | 348 | *flagCol = pksrec.flagged.column(i); |
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[805] | 349 | table_->table().addRow(); |
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| 350 | row.put(table_->table().nrow()-1, rec); |
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[2] | 351 | } |
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[1060] | 352 | if ( haveXPol_[0] ) { |
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[805] | 353 | // no tsys given for xpol, so emulate it |
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[1450] | 354 | tsysvec = sqrt(pksrec.tsys[0]*pksrec.tsys[1]); |
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[805] | 355 | *tsysCol = tsysvec; |
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| 356 | // add real part of cross pol |
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| 357 | *polnoCol = 2; |
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[1450] | 358 | Vector<Float> r(real(pksrec.xPol)); |
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[805] | 359 | *specCol = r; |
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| 360 | // make up flags from linears |
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| 361 | /// @fixme this has to be a bitwise or of both pols |
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[1462] | 362 | *flagCol = pksrec.flagged.column(0);// | pksrec.flagged.column(1); |
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[805] | 363 | table_->table().addRow(); |
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| 364 | row.put(table_->table().nrow()-1, rec); |
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| 365 | // ad imaginary part of cross pol |
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| 366 | *polnoCol = 3; |
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[1450] | 367 | Vector<Float> im(imag(pksrec.xPol)); |
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[805] | 368 | *specCol = im; |
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| 369 | table_->table().addRow(); |
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| 370 | row.put(table_->table().nrow()-1, rec); |
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[2] | 371 | } |
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[1438] | 372 | #ifdef HAS_ALMA |
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| 373 | fillpm._update(n); |
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| 374 | #endif |
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[805] | 375 | } |
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| 376 | if (status > 0) { |
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| 377 | close(); |
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| 378 | throw(AipsError("Reading error occured, data possibly corrupted.")); |
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| 379 | } |
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[1438] | 380 | #ifdef HAS_ALMA |
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| 381 | fillpm.done(); |
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| 382 | #endif |
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[2] | 383 | return status; |
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| 384 | } |
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[805] | 385 | |
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| 386 | }//namespace asap |
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