[805] | 1 | // |
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| 2 | // C++ Implementation: Scantable |
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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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| 7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2005 |
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| 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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[206] | 12 | #include <map> |
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[1819] | 13 | #include <fstream> |
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[206] | 14 | |
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[125] | 15 | #include <casa/aips.h> |
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[80] | 16 | #include <casa/iostream.h> |
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| 17 | #include <casa/iomanip.h> |
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[805] | 18 | #include <casa/OS/Path.h> |
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| 19 | #include <casa/OS/File.h> |
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[80] | 20 | #include <casa/Arrays/Array.h> |
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| 21 | #include <casa/Arrays/ArrayMath.h> |
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| 22 | #include <casa/Arrays/MaskArrMath.h> |
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| 23 | #include <casa/Arrays/ArrayLogical.h> |
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| 24 | #include <casa/Arrays/ArrayAccessor.h> |
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[1325] | 25 | #include <casa/Arrays/Vector.h> |
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[455] | 26 | #include <casa/Arrays/VectorSTLIterator.h> |
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[1819] | 27 | #include <casa/Arrays/Slice.h> |
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[418] | 28 | #include <casa/BasicMath/Math.h> |
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[504] | 29 | #include <casa/BasicSL/Constants.h> |
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[286] | 30 | #include <casa/Quanta/MVAngle.h> |
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[805] | 31 | #include <casa/Containers/RecordField.h> |
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[902] | 32 | #include <casa/Utilities/GenSort.h> |
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[1819] | 33 | #include <casa/Logging/LogIO.h> |
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[2] | 34 | |
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[80] | 35 | #include <tables/Tables/TableParse.h> |
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| 36 | #include <tables/Tables/TableDesc.h> |
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[488] | 37 | #include <tables/Tables/TableCopy.h> |
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[80] | 38 | #include <tables/Tables/SetupNewTab.h> |
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| 39 | #include <tables/Tables/ScaColDesc.h> |
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| 40 | #include <tables/Tables/ArrColDesc.h> |
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[805] | 41 | #include <tables/Tables/TableRow.h> |
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| 42 | #include <tables/Tables/TableVector.h> |
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| 43 | #include <tables/Tables/TableIter.h> |
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[2] | 44 | |
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[80] | 45 | #include <tables/Tables/ExprNode.h> |
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| 46 | #include <tables/Tables/TableRecord.h> |
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[1325] | 47 | #include <casa/Quanta/MVTime.h> |
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| 48 | #include <casa/Quanta/MVAngle.h> |
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| 49 | #include <measures/Measures/MeasRef.h> |
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| 50 | #include <measures/Measures/MeasTable.h> |
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| 51 | // needed to avoid error in .tcc |
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| 52 | #include <measures/Measures/MCDirection.h> |
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| 53 | // |
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| 54 | #include <measures/Measures/MDirection.h> |
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[80] | 55 | #include <measures/Measures/MFrequency.h> |
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[805] | 56 | #include <measures/Measures/MEpoch.h> |
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| 57 | #include <measures/TableMeasures/TableMeasRefDesc.h> |
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| 58 | #include <measures/TableMeasures/TableMeasValueDesc.h> |
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| 59 | #include <measures/TableMeasures/TableMeasDesc.h> |
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| 60 | #include <measures/TableMeasures/ScalarMeasColumn.h> |
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[105] | 61 | #include <coordinates/Coordinates/CoordinateUtil.h> |
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[2] | 62 | |
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[2005] | 63 | #include <atnf/PKSIO/SrcType.h> |
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[805] | 64 | #include "Scantable.h" |
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[896] | 65 | #include "STPolLinear.h" |
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[1189] | 66 | #include "STPolCircular.h" |
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[913] | 67 | #include "STPolStokes.h" |
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[878] | 68 | #include "STAttr.h" |
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[2012] | 69 | #include "STLineFinder.h" |
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[902] | 70 | #include "MathUtils.h" |
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[2] | 71 | |
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[125] | 72 | using namespace casa; |
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[2] | 73 | |
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[805] | 74 | namespace asap { |
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| 75 | |
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[896] | 76 | std::map<std::string, STPol::STPolFactory *> Scantable::factories_; |
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| 77 | |
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| 78 | void Scantable::initFactories() { |
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| 79 | if ( factories_.empty() ) { |
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| 80 | Scantable::factories_["linear"] = &STPolLinear::myFactory; |
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[1323] | 81 | Scantable::factories_["circular"] = &STPolCircular::myFactory; |
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[913] | 82 | Scantable::factories_["stokes"] = &STPolStokes::myFactory; |
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[896] | 83 | } |
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| 84 | } |
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| 85 | |
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[805] | 86 | Scantable::Scantable(Table::TableType ttype) : |
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[852] | 87 | type_(ttype) |
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[206] | 88 | { |
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[896] | 89 | initFactories(); |
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[805] | 90 | setupMainTable(); |
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[852] | 91 | freqTable_ = STFrequencies(*this); |
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[805] | 92 | table_.rwKeywordSet().defineTable("FREQUENCIES", freqTable_.table()); |
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[852] | 93 | weatherTable_ = STWeather(*this); |
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[805] | 94 | table_.rwKeywordSet().defineTable("WEATHER", weatherTable_.table()); |
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[852] | 95 | focusTable_ = STFocus(*this); |
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[805] | 96 | table_.rwKeywordSet().defineTable("FOCUS", focusTable_.table()); |
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[852] | 97 | tcalTable_ = STTcal(*this); |
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[805] | 98 | table_.rwKeywordSet().defineTable("TCAL", tcalTable_.table()); |
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[852] | 99 | moleculeTable_ = STMolecules(*this); |
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[805] | 100 | table_.rwKeywordSet().defineTable("MOLECULES", moleculeTable_.table()); |
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[860] | 101 | historyTable_ = STHistory(*this); |
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| 102 | table_.rwKeywordSet().defineTable("HISTORY", historyTable_.table()); |
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[959] | 103 | fitTable_ = STFit(*this); |
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| 104 | table_.rwKeywordSet().defineTable("FIT", fitTable_.table()); |
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[1881] | 105 | table_.tableInfo().setType( "Scantable" ) ; |
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[805] | 106 | originalTable_ = table_; |
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[322] | 107 | attach(); |
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[18] | 108 | } |
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[206] | 109 | |
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[805] | 110 | Scantable::Scantable(const std::string& name, Table::TableType ttype) : |
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[852] | 111 | type_(ttype) |
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[206] | 112 | { |
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[896] | 113 | initFactories(); |
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[1819] | 114 | |
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[865] | 115 | Table tab(name, Table::Update); |
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[1009] | 116 | uInt version = tab.keywordSet().asuInt("VERSION"); |
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[483] | 117 | if (version != version_) { |
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[2162] | 118 | if ( version == 2 && version_ == 3 ) { |
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| 119 | // run asap2to3 command |
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| 120 | LogIO os( LogOrigin( "Scantable" ) ) ; |
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| 121 | string command="asap2to3" ; |
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| 122 | string exec=command+" in="+name ; |
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| 123 | string outname=name ; |
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| 124 | if ( name.at(name.length()-1) == '/' ) |
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| 125 | outname = outname.substr( 0, name.length()-1 ) ; |
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| 126 | outname += ".asap3" ; |
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| 127 | os << LogIO::WARN |
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| 128 | << name << " is incompatible data format (Scantable v2)." << endl |
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| 129 | << "Running " << command << " to create " << outname << ", " << endl |
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| 130 | << "which is identical to " << name << " but compatible " << endl |
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| 131 | << "data format with current software version (Scantable v3)." |
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| 132 | << LogIO::POST ; |
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| 133 | int ret = system( string("which "+command+" > /dev/null 2>&1").c_str() ) ; |
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| 134 | if ( ret != 0 ) |
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| 135 | throw(AipsError(command+" is not installed")) ; |
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| 136 | os << LogIO::WARN |
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| 137 | << "Data will be loaded from " << outname << " instead of " |
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| 138 | << name << LogIO::POST ; |
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[2163] | 139 | int tmp = system( exec.c_str() ) ; |
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| 140 | (void) tmp; |
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[2162] | 141 | tab = Table(outname, Table::Update ) ; |
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| 142 | //os << "tab.tableName()=" << tab.tableName() << LogIO::POST ; |
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| 143 | } |
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| 144 | else { |
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| 145 | throw(AipsError("Unsupported version of ASAP file.")); |
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| 146 | } |
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[483] | 147 | } |
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[1009] | 148 | if ( type_ == Table::Memory ) { |
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[852] | 149 | table_ = tab.copyToMemoryTable(generateName()); |
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[1009] | 150 | } else { |
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[805] | 151 | table_ = tab; |
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[1009] | 152 | } |
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[1881] | 153 | table_.tableInfo().setType( "Scantable" ) ; |
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[1009] | 154 | |
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[859] | 155 | attachSubtables(); |
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[805] | 156 | originalTable_ = table_; |
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[329] | 157 | attach(); |
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[2] | 158 | } |
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[1819] | 159 | /* |
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| 160 | Scantable::Scantable(const std::string& name, Table::TableType ttype) : |
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| 161 | type_(ttype) |
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| 162 | { |
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| 163 | initFactories(); |
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| 164 | Table tab(name, Table::Update); |
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| 165 | uInt version = tab.keywordSet().asuInt("VERSION"); |
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| 166 | if (version != version_) { |
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| 167 | throw(AipsError("Unsupported version of ASAP file.")); |
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| 168 | } |
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| 169 | if ( type_ == Table::Memory ) { |
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| 170 | table_ = tab.copyToMemoryTable(generateName()); |
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| 171 | } else { |
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| 172 | table_ = tab; |
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| 173 | } |
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[2] | 174 | |
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[1819] | 175 | attachSubtables(); |
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| 176 | originalTable_ = table_; |
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| 177 | attach(); |
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| 178 | } |
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| 179 | */ |
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| 180 | |
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[2163] | 181 | Scantable::Scantable( const Scantable& other, bool clear ): |
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| 182 | Logger() |
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[206] | 183 | { |
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[805] | 184 | // with or without data |
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[859] | 185 | String newname = String(generateName()); |
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[865] | 186 | type_ = other.table_.tableType(); |
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[859] | 187 | if ( other.table_.tableType() == Table::Memory ) { |
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| 188 | if ( clear ) { |
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| 189 | table_ = TableCopy::makeEmptyMemoryTable(newname, |
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| 190 | other.table_, True); |
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| 191 | } else |
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| 192 | table_ = other.table_.copyToMemoryTable(newname); |
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[16] | 193 | } else { |
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[915] | 194 | other.table_.deepCopy(newname, Table::New, False, |
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| 195 | other.table_.endianFormat(), |
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[865] | 196 | Bool(clear)); |
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| 197 | table_ = Table(newname, Table::Update); |
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| 198 | table_.markForDelete(); |
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| 199 | } |
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[1881] | 200 | table_.tableInfo().setType( "Scantable" ) ; |
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[1111] | 201 | /// @todo reindex SCANNO, recompute nbeam, nif, npol |
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[915] | 202 | if ( clear ) copySubtables(other); |
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[859] | 203 | attachSubtables(); |
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[805] | 204 | originalTable_ = table_; |
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[322] | 205 | attach(); |
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[2] | 206 | } |
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| 207 | |
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[865] | 208 | void Scantable::copySubtables(const Scantable& other) { |
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| 209 | Table t = table_.rwKeywordSet().asTable("FREQUENCIES"); |
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| 210 | TableCopy::copyRows(t, other.freqTable_.table()); |
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| 211 | t = table_.rwKeywordSet().asTable("FOCUS"); |
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| 212 | TableCopy::copyRows(t, other.focusTable_.table()); |
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| 213 | t = table_.rwKeywordSet().asTable("WEATHER"); |
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| 214 | TableCopy::copyRows(t, other.weatherTable_.table()); |
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| 215 | t = table_.rwKeywordSet().asTable("TCAL"); |
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| 216 | TableCopy::copyRows(t, other.tcalTable_.table()); |
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| 217 | t = table_.rwKeywordSet().asTable("MOLECULES"); |
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| 218 | TableCopy::copyRows(t, other.moleculeTable_.table()); |
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| 219 | t = table_.rwKeywordSet().asTable("HISTORY"); |
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| 220 | TableCopy::copyRows(t, other.historyTable_.table()); |
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[972] | 221 | t = table_.rwKeywordSet().asTable("FIT"); |
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| 222 | TableCopy::copyRows(t, other.fitTable_.table()); |
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[865] | 223 | } |
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| 224 | |
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[859] | 225 | void Scantable::attachSubtables() |
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| 226 | { |
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| 227 | freqTable_ = STFrequencies(table_); |
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| 228 | focusTable_ = STFocus(table_); |
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| 229 | weatherTable_ = STWeather(table_); |
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| 230 | tcalTable_ = STTcal(table_); |
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| 231 | moleculeTable_ = STMolecules(table_); |
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[860] | 232 | historyTable_ = STHistory(table_); |
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[972] | 233 | fitTable_ = STFit(table_); |
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[859] | 234 | } |
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| 235 | |
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[805] | 236 | Scantable::~Scantable() |
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[206] | 237 | { |
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[941] | 238 | //cout << "~Scantable() " << this << endl; |
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[2] | 239 | } |
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| 240 | |
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[805] | 241 | void Scantable::setupMainTable() |
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[206] | 242 | { |
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[805] | 243 | TableDesc td("", "1", TableDesc::Scratch); |
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| 244 | td.comment() = "An ASAP Scantable"; |
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[1009] | 245 | td.rwKeywordSet().define("VERSION", uInt(version_)); |
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[2] | 246 | |
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[805] | 247 | // n Cycles |
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| 248 | td.addColumn(ScalarColumnDesc<uInt>("SCANNO")); |
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| 249 | // new index every nBeam x nIF x nPol |
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| 250 | td.addColumn(ScalarColumnDesc<uInt>("CYCLENO")); |
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[2] | 251 | |
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[805] | 252 | td.addColumn(ScalarColumnDesc<uInt>("BEAMNO")); |
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| 253 | td.addColumn(ScalarColumnDesc<uInt>("IFNO")); |
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[972] | 254 | // linear, circular, stokes |
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[805] | 255 | td.rwKeywordSet().define("POLTYPE", String("linear")); |
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| 256 | td.addColumn(ScalarColumnDesc<uInt>("POLNO")); |
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[138] | 257 | |
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[805] | 258 | td.addColumn(ScalarColumnDesc<uInt>("FREQ_ID")); |
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| 259 | td.addColumn(ScalarColumnDesc<uInt>("MOLECULE_ID")); |
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[80] | 260 | |
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[1819] | 261 | ScalarColumnDesc<Int> refbeamnoColumn("REFBEAMNO"); |
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| 262 | refbeamnoColumn.setDefault(Int(-1)); |
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| 263 | td.addColumn(refbeamnoColumn); |
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| 264 | |
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| 265 | ScalarColumnDesc<uInt> flagrowColumn("FLAGROW"); |
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| 266 | flagrowColumn.setDefault(uInt(0)); |
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| 267 | td.addColumn(flagrowColumn); |
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| 268 | |
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[805] | 269 | td.addColumn(ScalarColumnDesc<Double>("TIME")); |
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| 270 | TableMeasRefDesc measRef(MEpoch::UTC); // UTC as default |
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| 271 | TableMeasValueDesc measVal(td, "TIME"); |
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| 272 | TableMeasDesc<MEpoch> mepochCol(measVal, measRef); |
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| 273 | mepochCol.write(td); |
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[483] | 274 | |
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[805] | 275 | td.addColumn(ScalarColumnDesc<Double>("INTERVAL")); |
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| 276 | |
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[2] | 277 | td.addColumn(ScalarColumnDesc<String>("SRCNAME")); |
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[805] | 278 | // Type of source (on=0, off=1, other=-1) |
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[1503] | 279 | ScalarColumnDesc<Int> stypeColumn("SRCTYPE"); |
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| 280 | stypeColumn.setDefault(Int(-1)); |
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| 281 | td.addColumn(stypeColumn); |
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[805] | 282 | td.addColumn(ScalarColumnDesc<String>("FIELDNAME")); |
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| 283 | |
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| 284 | //The actual Data Vectors |
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[2] | 285 | td.addColumn(ArrayColumnDesc<Float>("SPECTRA")); |
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| 286 | td.addColumn(ArrayColumnDesc<uChar>("FLAGTRA")); |
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[89] | 287 | td.addColumn(ArrayColumnDesc<Float>("TSYS")); |
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[805] | 288 | |
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| 289 | td.addColumn(ArrayColumnDesc<Double>("DIRECTION", |
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| 290 | IPosition(1,2), |
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| 291 | ColumnDesc::Direct)); |
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| 292 | TableMeasRefDesc mdirRef(MDirection::J2000); // default |
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| 293 | TableMeasValueDesc tmvdMDir(td, "DIRECTION"); |
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| 294 | // the TableMeasDesc gives the column a type |
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| 295 | TableMeasDesc<MDirection> mdirCol(tmvdMDir, mdirRef); |
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[987] | 296 | // a uder set table type e.g. GALCTIC, B1950 ... |
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| 297 | td.rwKeywordSet().define("DIRECTIONREF", String("J2000")); |
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[805] | 298 | // writing create the measure column |
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| 299 | mdirCol.write(td); |
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[923] | 300 | td.addColumn(ScalarColumnDesc<Float>("AZIMUTH")); |
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| 301 | td.addColumn(ScalarColumnDesc<Float>("ELEVATION")); |
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[1047] | 302 | td.addColumn(ScalarColumnDesc<Float>("OPACITY")); |
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[105] | 303 | |
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[805] | 304 | td.addColumn(ScalarColumnDesc<uInt>("TCAL_ID")); |
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[972] | 305 | ScalarColumnDesc<Int> fitColumn("FIT_ID"); |
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[973] | 306 | fitColumn.setDefault(Int(-1)); |
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[972] | 307 | td.addColumn(fitColumn); |
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[805] | 308 | |
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| 309 | td.addColumn(ScalarColumnDesc<uInt>("FOCUS_ID")); |
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| 310 | td.addColumn(ScalarColumnDesc<uInt>("WEATHER_ID")); |
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| 311 | |
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[999] | 312 | // columns which just get dragged along, as they aren't used in asap |
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| 313 | td.addColumn(ScalarColumnDesc<Double>("SRCVELOCITY")); |
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| 314 | td.addColumn(ArrayColumnDesc<Double>("SRCPROPERMOTION")); |
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| 315 | td.addColumn(ArrayColumnDesc<Double>("SRCDIRECTION")); |
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| 316 | td.addColumn(ArrayColumnDesc<Double>("SCANRATE")); |
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| 317 | |
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[805] | 318 | td.rwKeywordSet().define("OBSMODE", String("")); |
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| 319 | |
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[418] | 320 | // Now create Table SetUp from the description. |
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[859] | 321 | SetupNewTable aNewTab(generateName(), td, Table::Scratch); |
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[852] | 322 | table_ = Table(aNewTab, type_, 0); |
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[805] | 323 | originalTable_ = table_; |
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| 324 | } |
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[418] | 325 | |
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[805] | 326 | void Scantable::attach() |
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[455] | 327 | { |
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[805] | 328 | timeCol_.attach(table_, "TIME"); |
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| 329 | srcnCol_.attach(table_, "SRCNAME"); |
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[1068] | 330 | srctCol_.attach(table_, "SRCTYPE"); |
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[805] | 331 | specCol_.attach(table_, "SPECTRA"); |
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| 332 | flagsCol_.attach(table_, "FLAGTRA"); |
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[865] | 333 | tsysCol_.attach(table_, "TSYS"); |
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[805] | 334 | cycleCol_.attach(table_,"CYCLENO"); |
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| 335 | scanCol_.attach(table_, "SCANNO"); |
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| 336 | beamCol_.attach(table_, "BEAMNO"); |
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[847] | 337 | ifCol_.attach(table_, "IFNO"); |
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| 338 | polCol_.attach(table_, "POLNO"); |
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[805] | 339 | integrCol_.attach(table_, "INTERVAL"); |
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| 340 | azCol_.attach(table_, "AZIMUTH"); |
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| 341 | elCol_.attach(table_, "ELEVATION"); |
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| 342 | dirCol_.attach(table_, "DIRECTION"); |
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| 343 | fldnCol_.attach(table_, "FIELDNAME"); |
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| 344 | rbeamCol_.attach(table_, "REFBEAMNO"); |
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[455] | 345 | |
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[1730] | 346 | mweatheridCol_.attach(table_,"WEATHER_ID"); |
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[805] | 347 | mfitidCol_.attach(table_,"FIT_ID"); |
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| 348 | mfreqidCol_.attach(table_, "FREQ_ID"); |
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| 349 | mtcalidCol_.attach(table_, "TCAL_ID"); |
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| 350 | mfocusidCol_.attach(table_, "FOCUS_ID"); |
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| 351 | mmolidCol_.attach(table_, "MOLECULE_ID"); |
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[1819] | 352 | |
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| 353 | //Add auxiliary column for row-based flagging (CAS-1433 Wataru Kawasaki) |
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| 354 | attachAuxColumnDef(flagrowCol_, "FLAGROW", 0); |
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| 355 | |
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[455] | 356 | } |
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| 357 | |
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[1819] | 358 | template<class T, class T2> |
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| 359 | void Scantable::attachAuxColumnDef(ScalarColumn<T>& col, |
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| 360 | const String& colName, |
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| 361 | const T2& defValue) |
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| 362 | { |
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| 363 | try { |
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| 364 | col.attach(table_, colName); |
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| 365 | } catch (TableError& err) { |
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| 366 | String errMesg = err.getMesg(); |
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| 367 | if (errMesg == "Table column " + colName + " is unknown") { |
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| 368 | table_.addColumn(ScalarColumnDesc<T>(colName)); |
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| 369 | col.attach(table_, colName); |
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| 370 | col.fillColumn(static_cast<T>(defValue)); |
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| 371 | } else { |
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| 372 | throw; |
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| 373 | } |
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| 374 | } catch (...) { |
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| 375 | throw; |
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| 376 | } |
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| 377 | } |
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| 378 | |
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| 379 | template<class T, class T2> |
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| 380 | void Scantable::attachAuxColumnDef(ArrayColumn<T>& col, |
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| 381 | const String& colName, |
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| 382 | const Array<T2>& defValue) |
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| 383 | { |
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| 384 | try { |
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| 385 | col.attach(table_, colName); |
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| 386 | } catch (TableError& err) { |
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| 387 | String errMesg = err.getMesg(); |
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| 388 | if (errMesg == "Table column " + colName + " is unknown") { |
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| 389 | table_.addColumn(ArrayColumnDesc<T>(colName)); |
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| 390 | col.attach(table_, colName); |
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| 391 | |
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| 392 | int size = 0; |
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| 393 | ArrayIterator<T2>& it = defValue.begin(); |
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| 394 | while (it != defValue.end()) { |
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| 395 | ++size; |
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| 396 | ++it; |
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| 397 | } |
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| 398 | IPosition ip(1, size); |
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| 399 | Array<T>& arr(ip); |
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| 400 | for (int i = 0; i < size; ++i) |
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| 401 | arr[i] = static_cast<T>(defValue[i]); |
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| 402 | |
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| 403 | col.fillColumn(arr); |
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| 404 | } else { |
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| 405 | throw; |
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| 406 | } |
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| 407 | } catch (...) { |
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| 408 | throw; |
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| 409 | } |
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| 410 | } |
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| 411 | |
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[901] | 412 | void Scantable::setHeader(const STHeader& sdh) |
---|
[206] | 413 | { |
---|
[18] | 414 | table_.rwKeywordSet().define("nIF", sdh.nif); |
---|
| 415 | table_.rwKeywordSet().define("nBeam", sdh.nbeam); |
---|
| 416 | table_.rwKeywordSet().define("nPol", sdh.npol); |
---|
| 417 | table_.rwKeywordSet().define("nChan", sdh.nchan); |
---|
| 418 | table_.rwKeywordSet().define("Observer", sdh.observer); |
---|
| 419 | table_.rwKeywordSet().define("Project", sdh.project); |
---|
| 420 | table_.rwKeywordSet().define("Obstype", sdh.obstype); |
---|
| 421 | table_.rwKeywordSet().define("AntennaName", sdh.antennaname); |
---|
| 422 | table_.rwKeywordSet().define("AntennaPosition", sdh.antennaposition); |
---|
| 423 | table_.rwKeywordSet().define("Equinox", sdh.equinox); |
---|
| 424 | table_.rwKeywordSet().define("FreqRefFrame", sdh.freqref); |
---|
| 425 | table_.rwKeywordSet().define("FreqRefVal", sdh.reffreq); |
---|
| 426 | table_.rwKeywordSet().define("Bandwidth", sdh.bandwidth); |
---|
| 427 | table_.rwKeywordSet().define("UTC", sdh.utc); |
---|
[206] | 428 | table_.rwKeywordSet().define("FluxUnit", sdh.fluxunit); |
---|
| 429 | table_.rwKeywordSet().define("Epoch", sdh.epoch); |
---|
[905] | 430 | table_.rwKeywordSet().define("POLTYPE", sdh.poltype); |
---|
[50] | 431 | } |
---|
[21] | 432 | |
---|
[901] | 433 | STHeader Scantable::getHeader() const |
---|
[206] | 434 | { |
---|
[901] | 435 | STHeader sdh; |
---|
[21] | 436 | table_.keywordSet().get("nBeam",sdh.nbeam); |
---|
| 437 | table_.keywordSet().get("nIF",sdh.nif); |
---|
| 438 | table_.keywordSet().get("nPol",sdh.npol); |
---|
| 439 | table_.keywordSet().get("nChan",sdh.nchan); |
---|
| 440 | table_.keywordSet().get("Observer", sdh.observer); |
---|
| 441 | table_.keywordSet().get("Project", sdh.project); |
---|
| 442 | table_.keywordSet().get("Obstype", sdh.obstype); |
---|
| 443 | table_.keywordSet().get("AntennaName", sdh.antennaname); |
---|
| 444 | table_.keywordSet().get("AntennaPosition", sdh.antennaposition); |
---|
| 445 | table_.keywordSet().get("Equinox", sdh.equinox); |
---|
| 446 | table_.keywordSet().get("FreqRefFrame", sdh.freqref); |
---|
| 447 | table_.keywordSet().get("FreqRefVal", sdh.reffreq); |
---|
| 448 | table_.keywordSet().get("Bandwidth", sdh.bandwidth); |
---|
| 449 | table_.keywordSet().get("UTC", sdh.utc); |
---|
[206] | 450 | table_.keywordSet().get("FluxUnit", sdh.fluxunit); |
---|
| 451 | table_.keywordSet().get("Epoch", sdh.epoch); |
---|
[905] | 452 | table_.keywordSet().get("POLTYPE", sdh.poltype); |
---|
[21] | 453 | return sdh; |
---|
[18] | 454 | } |
---|
[805] | 455 | |
---|
[1360] | 456 | void Scantable::setSourceType( int stype ) |
---|
[1068] | 457 | { |
---|
| 458 | if ( stype < 0 || stype > 1 ) |
---|
| 459 | throw(AipsError("Illegal sourcetype.")); |
---|
| 460 | TableVector<Int> tabvec(table_, "SRCTYPE"); |
---|
| 461 | tabvec = Int(stype); |
---|
| 462 | } |
---|
| 463 | |
---|
[845] | 464 | bool Scantable::conformant( const Scantable& other ) |
---|
| 465 | { |
---|
| 466 | return this->getHeader().conformant(other.getHeader()); |
---|
| 467 | } |
---|
| 468 | |
---|
| 469 | |
---|
[50] | 470 | |
---|
[805] | 471 | std::string Scantable::formatSec(Double x) const |
---|
[206] | 472 | { |
---|
[105] | 473 | Double xcop = x; |
---|
| 474 | MVTime mvt(xcop/24./3600.); // make days |
---|
[365] | 475 | |
---|
[105] | 476 | if (x < 59.95) |
---|
[281] | 477 | return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_HM, 7)+"s"; |
---|
[745] | 478 | else if (x < 3599.95) |
---|
[281] | 479 | return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_H,7)+" "; |
---|
| 480 | else { |
---|
| 481 | ostringstream oss; |
---|
| 482 | oss << setw(2) << std::right << setprecision(1) << mvt.hour(); |
---|
| 483 | oss << ":" << mvt.string(MVTime::TIME_CLEAN_NO_H,7) << " "; |
---|
| 484 | return String(oss); |
---|
[745] | 485 | } |
---|
[105] | 486 | }; |
---|
| 487 | |
---|
[805] | 488 | std::string Scantable::formatDirection(const MDirection& md) const |
---|
[281] | 489 | { |
---|
| 490 | Vector<Double> t = md.getAngle(Unit(String("rad"))).getValue(); |
---|
| 491 | Int prec = 7; |
---|
| 492 | |
---|
| 493 | MVAngle mvLon(t[0]); |
---|
| 494 | String sLon = mvLon.string(MVAngle::TIME,prec); |
---|
[987] | 495 | uInt tp = md.getRef().getType(); |
---|
| 496 | if (tp == MDirection::GALACTIC || |
---|
| 497 | tp == MDirection::SUPERGAL ) { |
---|
| 498 | sLon = mvLon(0.0).string(MVAngle::ANGLE_CLEAN,prec); |
---|
| 499 | } |
---|
[281] | 500 | MVAngle mvLat(t[1]); |
---|
| 501 | String sLat = mvLat.string(MVAngle::ANGLE+MVAngle::DIG2,prec); |
---|
[380] | 502 | return sLon + String(" ") + sLat; |
---|
[281] | 503 | } |
---|
| 504 | |
---|
| 505 | |
---|
[805] | 506 | std::string Scantable::getFluxUnit() const |
---|
[206] | 507 | { |
---|
[847] | 508 | return table_.keywordSet().asString("FluxUnit"); |
---|
[206] | 509 | } |
---|
| 510 | |
---|
[805] | 511 | void Scantable::setFluxUnit(const std::string& unit) |
---|
[218] | 512 | { |
---|
| 513 | String tmp(unit); |
---|
| 514 | Unit tU(tmp); |
---|
| 515 | if (tU==Unit("K") || tU==Unit("Jy")) { |
---|
| 516 | table_.rwKeywordSet().define(String("FluxUnit"), tmp); |
---|
| 517 | } else { |
---|
| 518 | throw AipsError("Illegal unit - must be compatible with Jy or K"); |
---|
| 519 | } |
---|
| 520 | } |
---|
| 521 | |
---|
[805] | 522 | void Scantable::setInstrument(const std::string& name) |
---|
[236] | 523 | { |
---|
[805] | 524 | bool throwIt = true; |
---|
[996] | 525 | // create an Instrument to see if this is valid |
---|
| 526 | STAttr::convertInstrument(name, throwIt); |
---|
[236] | 527 | String nameU(name); |
---|
| 528 | nameU.upcase(); |
---|
| 529 | table_.rwKeywordSet().define(String("AntennaName"), nameU); |
---|
| 530 | } |
---|
| 531 | |
---|
[1189] | 532 | void Scantable::setFeedType(const std::string& feedtype) |
---|
| 533 | { |
---|
| 534 | if ( Scantable::factories_.find(feedtype) == Scantable::factories_.end() ) { |
---|
| 535 | std::string msg = "Illegal feed type "+ feedtype; |
---|
| 536 | throw(casa::AipsError(msg)); |
---|
| 537 | } |
---|
| 538 | table_.rwKeywordSet().define(String("POLTYPE"), feedtype); |
---|
| 539 | } |
---|
| 540 | |
---|
[1743] | 541 | MPosition Scantable::getAntennaPosition() const |
---|
[805] | 542 | { |
---|
| 543 | Vector<Double> antpos; |
---|
| 544 | table_.keywordSet().get("AntennaPosition", antpos); |
---|
| 545 | MVPosition mvpos(antpos(0),antpos(1),antpos(2)); |
---|
| 546 | return MPosition(mvpos); |
---|
| 547 | } |
---|
[281] | 548 | |
---|
[805] | 549 | void Scantable::makePersistent(const std::string& filename) |
---|
| 550 | { |
---|
| 551 | String inname(filename); |
---|
| 552 | Path path(inname); |
---|
[1111] | 553 | /// @todo reindex SCANNO, recompute nbeam, nif, npol |
---|
[805] | 554 | inname = path.expandedName(); |
---|
[2030] | 555 | // 2011/03/04 TN |
---|
| 556 | // We can comment out this workaround since the essential bug is |
---|
| 557 | // fixed in casacore (r20889 in google code). |
---|
| 558 | table_.deepCopy(inname, Table::New); |
---|
| 559 | // // WORKAROUND !!! for Table bug |
---|
| 560 | // // Remove when fixed in casacore |
---|
| 561 | // if ( table_.tableType() == Table::Memory && !selector_.empty() ) { |
---|
| 562 | // Table tab = table_.copyToMemoryTable(generateName()); |
---|
| 563 | // tab.deepCopy(inname, Table::New); |
---|
| 564 | // tab.markForDelete(); |
---|
| 565 | // |
---|
| 566 | // } else { |
---|
| 567 | // table_.deepCopy(inname, Table::New); |
---|
| 568 | // } |
---|
[805] | 569 | } |
---|
| 570 | |
---|
[837] | 571 | int Scantable::nbeam( int scanno ) const |
---|
[805] | 572 | { |
---|
| 573 | if ( scanno < 0 ) { |
---|
| 574 | Int n; |
---|
| 575 | table_.keywordSet().get("nBeam",n); |
---|
| 576 | return int(n); |
---|
[105] | 577 | } else { |
---|
[805] | 578 | // take the first POLNO,IFNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 579 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 580 | ROTableRow row(t); |
---|
| 581 | const TableRecord& rec = row.get(0); |
---|
| 582 | Table subt = t( t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 583 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 584 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 585 | ROTableVector<uInt> v(subt, "BEAMNO"); |
---|
[805] | 586 | return int(v.nelements()); |
---|
[105] | 587 | } |
---|
[805] | 588 | return 0; |
---|
| 589 | } |
---|
[455] | 590 | |
---|
[837] | 591 | int Scantable::nif( int scanno ) const |
---|
[805] | 592 | { |
---|
| 593 | if ( scanno < 0 ) { |
---|
| 594 | Int n; |
---|
| 595 | table_.keywordSet().get("nIF",n); |
---|
| 596 | return int(n); |
---|
| 597 | } else { |
---|
| 598 | // take the first POLNO,BEAMNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 599 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 600 | ROTableRow row(t); |
---|
| 601 | const TableRecord& rec = row.get(0); |
---|
| 602 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 603 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 604 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 605 | if ( subt.nrow() == 0 ) return 0; |
---|
| 606 | ROTableVector<uInt> v(subt, "IFNO"); |
---|
[805] | 607 | return int(v.nelements()); |
---|
[2] | 608 | } |
---|
[805] | 609 | return 0; |
---|
| 610 | } |
---|
[321] | 611 | |
---|
[837] | 612 | int Scantable::npol( int scanno ) const |
---|
[805] | 613 | { |
---|
| 614 | if ( scanno < 0 ) { |
---|
| 615 | Int n; |
---|
| 616 | table_.keywordSet().get("nPol",n); |
---|
| 617 | return n; |
---|
| 618 | } else { |
---|
| 619 | // take the first POLNO,IFNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 620 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 621 | ROTableRow row(t); |
---|
| 622 | const TableRecord& rec = row.get(0); |
---|
| 623 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 624 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 625 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 626 | if ( subt.nrow() == 0 ) return 0; |
---|
| 627 | ROTableVector<uInt> v(subt, "POLNO"); |
---|
[805] | 628 | return int(v.nelements()); |
---|
[321] | 629 | } |
---|
[805] | 630 | return 0; |
---|
[2] | 631 | } |
---|
[805] | 632 | |
---|
[845] | 633 | int Scantable::ncycle( int scanno ) const |
---|
[206] | 634 | { |
---|
[805] | 635 | if ( scanno < 0 ) { |
---|
[837] | 636 | Block<String> cols(2); |
---|
| 637 | cols[0] = "SCANNO"; |
---|
| 638 | cols[1] = "CYCLENO"; |
---|
| 639 | TableIterator it(table_, cols); |
---|
| 640 | int n = 0; |
---|
| 641 | while ( !it.pastEnd() ) { |
---|
| 642 | ++n; |
---|
[902] | 643 | ++it; |
---|
[837] | 644 | } |
---|
| 645 | return n; |
---|
[805] | 646 | } else { |
---|
[888] | 647 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 648 | ROTableRow row(t); |
---|
| 649 | const TableRecord& rec = row.get(0); |
---|
| 650 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 651 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 652 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) ); |
---|
| 653 | if ( subt.nrow() == 0 ) return 0; |
---|
| 654 | return int(subt.nrow()); |
---|
[805] | 655 | } |
---|
| 656 | return 0; |
---|
[18] | 657 | } |
---|
[455] | 658 | |
---|
| 659 | |
---|
[845] | 660 | int Scantable::nrow( int scanno ) const |
---|
[805] | 661 | { |
---|
[845] | 662 | return int(table_.nrow()); |
---|
| 663 | } |
---|
| 664 | |
---|
| 665 | int Scantable::nchan( int ifno ) const |
---|
| 666 | { |
---|
| 667 | if ( ifno < 0 ) { |
---|
[805] | 668 | Int n; |
---|
| 669 | table_.keywordSet().get("nChan",n); |
---|
| 670 | return int(n); |
---|
| 671 | } else { |
---|
[1360] | 672 | // take the first SCANNO,POLNO,BEAMNO,CYCLENO as nbeam shouldn't |
---|
| 673 | // vary with these |
---|
[888] | 674 | Table t = table_(table_.col("IFNO") == ifno); |
---|
| 675 | if ( t.nrow() == 0 ) return 0; |
---|
| 676 | ROArrayColumn<Float> v(t, "SPECTRA"); |
---|
[923] | 677 | return v.shape(0)(0); |
---|
[805] | 678 | } |
---|
| 679 | return 0; |
---|
[18] | 680 | } |
---|
[455] | 681 | |
---|
[1111] | 682 | int Scantable::nscan() const { |
---|
| 683 | Vector<uInt> scannos(scanCol_.getColumn()); |
---|
[1148] | 684 | uInt nout = genSort( scannos, Sort::Ascending, |
---|
[1111] | 685 | Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 686 | return int(nout); |
---|
| 687 | } |
---|
| 688 | |
---|
[923] | 689 | int Scantable::getChannels(int whichrow) const |
---|
| 690 | { |
---|
| 691 | return specCol_.shape(whichrow)(0); |
---|
| 692 | } |
---|
[847] | 693 | |
---|
| 694 | int Scantable::getBeam(int whichrow) const |
---|
| 695 | { |
---|
| 696 | return beamCol_(whichrow); |
---|
| 697 | } |
---|
| 698 | |
---|
[1694] | 699 | std::vector<uint> Scantable::getNumbers(const ScalarColumn<uInt>& col) const |
---|
[1111] | 700 | { |
---|
| 701 | Vector<uInt> nos(col.getColumn()); |
---|
[1148] | 702 | uInt n = genSort( nos, Sort::Ascending, Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 703 | nos.resize(n, True); |
---|
[1111] | 704 | std::vector<uint> stlout; |
---|
| 705 | nos.tovector(stlout); |
---|
| 706 | return stlout; |
---|
| 707 | } |
---|
| 708 | |
---|
[847] | 709 | int Scantable::getIF(int whichrow) const |
---|
| 710 | { |
---|
| 711 | return ifCol_(whichrow); |
---|
| 712 | } |
---|
| 713 | |
---|
| 714 | int Scantable::getPol(int whichrow) const |
---|
| 715 | { |
---|
| 716 | return polCol_(whichrow); |
---|
| 717 | } |
---|
| 718 | |
---|
[805] | 719 | std::string Scantable::formatTime(const MEpoch& me, bool showdate) const |
---|
| 720 | { |
---|
[1947] | 721 | return formatTime(me, showdate, 0); |
---|
| 722 | } |
---|
| 723 | |
---|
| 724 | std::string Scantable::formatTime(const MEpoch& me, bool showdate, uInt prec) const |
---|
| 725 | { |
---|
[805] | 726 | MVTime mvt(me.getValue()); |
---|
| 727 | if (showdate) |
---|
[1947] | 728 | //mvt.setFormat(MVTime::YMD); |
---|
| 729 | mvt.setFormat(MVTime::YMD, prec); |
---|
[805] | 730 | else |
---|
[1947] | 731 | //mvt.setFormat(MVTime::TIME); |
---|
| 732 | mvt.setFormat(MVTime::TIME, prec); |
---|
[805] | 733 | ostringstream oss; |
---|
| 734 | oss << mvt; |
---|
| 735 | return String(oss); |
---|
| 736 | } |
---|
[488] | 737 | |
---|
[805] | 738 | void Scantable::calculateAZEL() |
---|
| 739 | { |
---|
| 740 | MPosition mp = getAntennaPosition(); |
---|
| 741 | MEpoch::ROScalarColumn timeCol(table_, "TIME"); |
---|
| 742 | ostringstream oss; |
---|
| 743 | oss << "Computed azimuth/elevation using " << endl |
---|
| 744 | << mp << endl; |
---|
[996] | 745 | for (Int i=0; i<nrow(); ++i) { |
---|
[805] | 746 | MEpoch me = timeCol(i); |
---|
[987] | 747 | MDirection md = getDirection(i); |
---|
[805] | 748 | oss << " Time: " << formatTime(me,False) << " Direction: " << formatDirection(md) |
---|
| 749 | << endl << " => "; |
---|
| 750 | MeasFrame frame(mp, me); |
---|
| 751 | Vector<Double> azel = |
---|
| 752 | MDirection::Convert(md, MDirection::Ref(MDirection::AZEL, |
---|
| 753 | frame) |
---|
| 754 | )().getAngle("rad").getValue(); |
---|
[923] | 755 | azCol_.put(i,Float(azel[0])); |
---|
| 756 | elCol_.put(i,Float(azel[1])); |
---|
[805] | 757 | oss << "azel: " << azel[0]/C::pi*180.0 << " " |
---|
| 758 | << azel[1]/C::pi*180.0 << " (deg)" << endl; |
---|
[16] | 759 | } |
---|
[805] | 760 | pushLog(String(oss)); |
---|
| 761 | } |
---|
[89] | 762 | |
---|
[1819] | 763 | void Scantable::clip(const Float uthres, const Float dthres, bool clipoutside, bool unflag) |
---|
| 764 | { |
---|
| 765 | for (uInt i=0; i<table_.nrow(); ++i) { |
---|
| 766 | Vector<uChar> flgs = flagsCol_(i); |
---|
| 767 | srchChannelsToClip(i, uthres, dthres, clipoutside, unflag, flgs); |
---|
| 768 | flagsCol_.put(i, flgs); |
---|
| 769 | } |
---|
| 770 | } |
---|
| 771 | |
---|
| 772 | std::vector<bool> Scantable::getClipMask(int whichrow, const Float uthres, const Float dthres, bool clipoutside, bool unflag) |
---|
| 773 | { |
---|
| 774 | Vector<uChar> flags; |
---|
| 775 | flagsCol_.get(uInt(whichrow), flags); |
---|
| 776 | srchChannelsToClip(uInt(whichrow), uthres, dthres, clipoutside, unflag, flags); |
---|
| 777 | Vector<Bool> bflag(flags.shape()); |
---|
| 778 | convertArray(bflag, flags); |
---|
| 779 | //bflag = !bflag; |
---|
| 780 | |
---|
| 781 | std::vector<bool> mask; |
---|
| 782 | bflag.tovector(mask); |
---|
| 783 | return mask; |
---|
| 784 | } |
---|
| 785 | |
---|
| 786 | void Scantable::srchChannelsToClip(uInt whichrow, const Float uthres, const Float dthres, bool clipoutside, bool unflag, |
---|
| 787 | Vector<uChar> flgs) |
---|
| 788 | { |
---|
| 789 | Vector<Float> spcs = specCol_(whichrow); |
---|
| 790 | uInt nchannel = nchan(); |
---|
| 791 | if (spcs.nelements() != nchannel) { |
---|
| 792 | throw(AipsError("Data has incorrect number of channels")); |
---|
| 793 | } |
---|
| 794 | uChar userflag = 1 << 7; |
---|
| 795 | if (unflag) { |
---|
| 796 | userflag = 0 << 7; |
---|
| 797 | } |
---|
| 798 | if (clipoutside) { |
---|
| 799 | for (uInt j = 0; j < nchannel; ++j) { |
---|
| 800 | Float spc = spcs(j); |
---|
| 801 | if ((spc >= uthres) || (spc <= dthres)) { |
---|
| 802 | flgs(j) = userflag; |
---|
| 803 | } |
---|
| 804 | } |
---|
| 805 | } else { |
---|
| 806 | for (uInt j = 0; j < nchannel; ++j) { |
---|
| 807 | Float spc = spcs(j); |
---|
| 808 | if ((spc < uthres) && (spc > dthres)) { |
---|
| 809 | flgs(j) = userflag; |
---|
| 810 | } |
---|
| 811 | } |
---|
| 812 | } |
---|
| 813 | } |
---|
| 814 | |
---|
[1994] | 815 | |
---|
| 816 | void Scantable::flag( int whichrow, const std::vector<bool>& msk, bool unflag ) { |
---|
[1333] | 817 | std::vector<bool>::const_iterator it; |
---|
| 818 | uInt ntrue = 0; |
---|
[1994] | 819 | if (whichrow >= int(table_.nrow()) ) { |
---|
| 820 | throw(AipsError("Invalid row number")); |
---|
| 821 | } |
---|
[1333] | 822 | for (it = msk.begin(); it != msk.end(); ++it) { |
---|
| 823 | if ( *it ) { |
---|
| 824 | ntrue++; |
---|
| 825 | } |
---|
| 826 | } |
---|
[1994] | 827 | //if ( selector_.empty() && (msk.size() == 0 || msk.size() == ntrue) ) |
---|
| 828 | if ( whichrow == -1 && !unflag && selector_.empty() && (msk.size() == 0 || msk.size() == ntrue) ) |
---|
[1000] | 829 | throw(AipsError("Trying to flag whole scantable.")); |
---|
[1994] | 830 | uChar userflag = 1 << 7; |
---|
| 831 | if ( unflag ) { |
---|
| 832 | userflag = 0 << 7; |
---|
| 833 | } |
---|
| 834 | if (whichrow > -1 ) { |
---|
| 835 | applyChanFlag(uInt(whichrow), msk, userflag); |
---|
| 836 | } else { |
---|
[1000] | 837 | for ( uInt i=0; i<table_.nrow(); ++i) { |
---|
[1994] | 838 | applyChanFlag(i, msk, userflag); |
---|
[1000] | 839 | } |
---|
[1994] | 840 | } |
---|
| 841 | } |
---|
| 842 | |
---|
| 843 | void Scantable::applyChanFlag( uInt whichrow, const std::vector<bool>& msk, uChar flagval ) |
---|
| 844 | { |
---|
| 845 | if (whichrow >= table_.nrow() ) { |
---|
| 846 | throw( casa::indexError<int>( whichrow, "asap::Scantable::applyChanFlag: Invalid row number" ) ); |
---|
| 847 | } |
---|
| 848 | Vector<uChar> flgs = flagsCol_(whichrow); |
---|
| 849 | if ( msk.size() == 0 ) { |
---|
| 850 | flgs = flagval; |
---|
| 851 | flagsCol_.put(whichrow, flgs); |
---|
[1000] | 852 | return; |
---|
| 853 | } |
---|
| 854 | if ( int(msk.size()) != nchan() ) { |
---|
| 855 | throw(AipsError("Mask has incorrect number of channels.")); |
---|
| 856 | } |
---|
[1994] | 857 | if ( flgs.nelements() != msk.size() ) { |
---|
| 858 | throw(AipsError("Mask has incorrect number of channels." |
---|
| 859 | " Probably varying with IF. Please flag per IF")); |
---|
| 860 | } |
---|
| 861 | std::vector<bool>::const_iterator it; |
---|
| 862 | uInt j = 0; |
---|
| 863 | for (it = msk.begin(); it != msk.end(); ++it) { |
---|
| 864 | if ( *it ) { |
---|
| 865 | flgs(j) = flagval; |
---|
[1000] | 866 | } |
---|
[1994] | 867 | ++j; |
---|
[1000] | 868 | } |
---|
[1994] | 869 | flagsCol_.put(whichrow, flgs); |
---|
[865] | 870 | } |
---|
| 871 | |
---|
[1819] | 872 | void Scantable::flagRow(const std::vector<uInt>& rows, bool unflag) |
---|
| 873 | { |
---|
| 874 | if ( selector_.empty() && (rows.size() == table_.nrow()) ) |
---|
| 875 | throw(AipsError("Trying to flag whole scantable.")); |
---|
| 876 | |
---|
| 877 | uInt rowflag = (unflag ? 0 : 1); |
---|
| 878 | std::vector<uInt>::const_iterator it; |
---|
| 879 | for (it = rows.begin(); it != rows.end(); ++it) |
---|
| 880 | flagrowCol_.put(*it, rowflag); |
---|
| 881 | } |
---|
| 882 | |
---|
[805] | 883 | std::vector<bool> Scantable::getMask(int whichrow) const |
---|
| 884 | { |
---|
| 885 | Vector<uChar> flags; |
---|
| 886 | flagsCol_.get(uInt(whichrow), flags); |
---|
| 887 | Vector<Bool> bflag(flags.shape()); |
---|
| 888 | convertArray(bflag, flags); |
---|
| 889 | bflag = !bflag; |
---|
| 890 | std::vector<bool> mask; |
---|
| 891 | bflag.tovector(mask); |
---|
| 892 | return mask; |
---|
| 893 | } |
---|
[89] | 894 | |
---|
[896] | 895 | std::vector<float> Scantable::getSpectrum( int whichrow, |
---|
[902] | 896 | const std::string& poltype ) const |
---|
[805] | 897 | { |
---|
[905] | 898 | String ptype = poltype; |
---|
| 899 | if (poltype == "" ) ptype = getPolType(); |
---|
[902] | 900 | if ( whichrow < 0 || whichrow >= nrow() ) |
---|
| 901 | throw(AipsError("Illegal row number.")); |
---|
[896] | 902 | std::vector<float> out; |
---|
[805] | 903 | Vector<Float> arr; |
---|
[896] | 904 | uInt requestedpol = polCol_(whichrow); |
---|
| 905 | String basetype = getPolType(); |
---|
[905] | 906 | if ( ptype == basetype ) { |
---|
[896] | 907 | specCol_.get(whichrow, arr); |
---|
| 908 | } else { |
---|
[1598] | 909 | CountedPtr<STPol> stpol(STPol::getPolClass(Scantable::factories_, |
---|
[1586] | 910 | basetype)); |
---|
[1334] | 911 | uInt row = uInt(whichrow); |
---|
| 912 | stpol->setSpectra(getPolMatrix(row)); |
---|
[2047] | 913 | Float fang,fhand; |
---|
[1586] | 914 | fang = focusTable_.getTotalAngle(mfocusidCol_(row)); |
---|
[1334] | 915 | fhand = focusTable_.getFeedHand(mfocusidCol_(row)); |
---|
[1586] | 916 | stpol->setPhaseCorrections(fang, fhand); |
---|
[1334] | 917 | arr = stpol->getSpectrum(requestedpol, ptype); |
---|
[896] | 918 | } |
---|
[902] | 919 | if ( arr.nelements() == 0 ) |
---|
| 920 | pushLog("Not enough polarisations present to do the conversion."); |
---|
[805] | 921 | arr.tovector(out); |
---|
| 922 | return out; |
---|
[89] | 923 | } |
---|
[212] | 924 | |
---|
[1360] | 925 | void Scantable::setSpectrum( const std::vector<float>& spec, |
---|
[884] | 926 | int whichrow ) |
---|
| 927 | { |
---|
| 928 | Vector<Float> spectrum(spec); |
---|
| 929 | Vector<Float> arr; |
---|
| 930 | specCol_.get(whichrow, arr); |
---|
| 931 | if ( spectrum.nelements() != arr.nelements() ) |
---|
[896] | 932 | throw AipsError("The spectrum has incorrect number of channels."); |
---|
[884] | 933 | specCol_.put(whichrow, spectrum); |
---|
| 934 | } |
---|
| 935 | |
---|
| 936 | |
---|
[805] | 937 | String Scantable::generateName() |
---|
[745] | 938 | { |
---|
[805] | 939 | return (File::newUniqueName("./","temp")).baseName(); |
---|
[212] | 940 | } |
---|
| 941 | |
---|
[805] | 942 | const casa::Table& Scantable::table( ) const |
---|
[212] | 943 | { |
---|
[805] | 944 | return table_; |
---|
[212] | 945 | } |
---|
| 946 | |
---|
[805] | 947 | casa::Table& Scantable::table( ) |
---|
[386] | 948 | { |
---|
[805] | 949 | return table_; |
---|
[386] | 950 | } |
---|
| 951 | |
---|
[896] | 952 | std::string Scantable::getPolType() const |
---|
| 953 | { |
---|
| 954 | return table_.keywordSet().asString("POLTYPE"); |
---|
| 955 | } |
---|
| 956 | |
---|
[805] | 957 | void Scantable::unsetSelection() |
---|
[380] | 958 | { |
---|
[805] | 959 | table_ = originalTable_; |
---|
[847] | 960 | attach(); |
---|
[805] | 961 | selector_.reset(); |
---|
[380] | 962 | } |
---|
[386] | 963 | |
---|
[805] | 964 | void Scantable::setSelection( const STSelector& selection ) |
---|
[430] | 965 | { |
---|
[805] | 966 | Table tab = const_cast<STSelector&>(selection).apply(originalTable_); |
---|
| 967 | if ( tab.nrow() == 0 ) { |
---|
| 968 | throw(AipsError("Selection contains no data. Not applying it.")); |
---|
| 969 | } |
---|
| 970 | table_ = tab; |
---|
[847] | 971 | attach(); |
---|
[2084] | 972 | // tab.rwKeywordSet().define("nBeam",(Int)(getBeamNos().size())) ; |
---|
| 973 | // vector<uint> selectedIFs = getIFNos() ; |
---|
| 974 | // Int newnIF = selectedIFs.size() ; |
---|
| 975 | // tab.rwKeywordSet().define("nIF",newnIF) ; |
---|
| 976 | // if ( newnIF != 0 ) { |
---|
| 977 | // Int newnChan = 0 ; |
---|
| 978 | // for ( Int i = 0 ; i < newnIF ; i++ ) { |
---|
| 979 | // Int nChan = nchan( selectedIFs[i] ) ; |
---|
| 980 | // if ( newnChan > nChan ) |
---|
| 981 | // newnChan = nChan ; |
---|
| 982 | // } |
---|
| 983 | // tab.rwKeywordSet().define("nChan",newnChan) ; |
---|
| 984 | // } |
---|
| 985 | // tab.rwKeywordSet().define("nPol",(Int)(getPolNos().size())) ; |
---|
[805] | 986 | selector_ = selection; |
---|
[430] | 987 | } |
---|
| 988 | |
---|
[2111] | 989 | |
---|
[2163] | 990 | std::string Scantable::headerSummary() |
---|
[447] | 991 | { |
---|
[805] | 992 | // Format header info |
---|
[2111] | 993 | // STHeader sdh; |
---|
| 994 | // sdh = getHeader(); |
---|
| 995 | // sdh.print(); |
---|
[805] | 996 | ostringstream oss; |
---|
| 997 | oss.flags(std::ios_base::left); |
---|
| 998 | oss << setw(15) << "Beams:" << setw(4) << nbeam() << endl |
---|
| 999 | << setw(15) << "IFs:" << setw(4) << nif() << endl |
---|
[896] | 1000 | << setw(15) << "Polarisations:" << setw(4) << npol() |
---|
| 1001 | << "(" << getPolType() << ")" << endl |
---|
[1694] | 1002 | << setw(15) << "Channels:" << nchan() << endl; |
---|
[805] | 1003 | String tmp; |
---|
[860] | 1004 | oss << setw(15) << "Observer:" |
---|
| 1005 | << table_.keywordSet().asString("Observer") << endl; |
---|
[805] | 1006 | oss << setw(15) << "Obs Date:" << getTime(-1,true) << endl; |
---|
| 1007 | table_.keywordSet().get("Project", tmp); |
---|
| 1008 | oss << setw(15) << "Project:" << tmp << endl; |
---|
| 1009 | table_.keywordSet().get("Obstype", tmp); |
---|
| 1010 | oss << setw(15) << "Obs. Type:" << tmp << endl; |
---|
| 1011 | table_.keywordSet().get("AntennaName", tmp); |
---|
| 1012 | oss << setw(15) << "Antenna Name:" << tmp << endl; |
---|
| 1013 | table_.keywordSet().get("FluxUnit", tmp); |
---|
| 1014 | oss << setw(15) << "Flux Unit:" << tmp << endl; |
---|
[1819] | 1015 | //Vector<Double> vec(moleculeTable_.getRestFrequencies()); |
---|
| 1016 | int nid = moleculeTable_.nrow(); |
---|
| 1017 | Bool firstline = True; |
---|
[805] | 1018 | oss << setw(15) << "Rest Freqs:"; |
---|
[1819] | 1019 | for (int i=0; i<nid; i++) { |
---|
| 1020 | Table t = table_(table_.col("MOLECULE_ID") == i); |
---|
| 1021 | if (t.nrow() > 0) { |
---|
| 1022 | Vector<Double> vec(moleculeTable_.getRestFrequency(i)); |
---|
| 1023 | if (vec.nelements() > 0) { |
---|
| 1024 | if (firstline) { |
---|
| 1025 | oss << setprecision(10) << vec << " [Hz]" << endl; |
---|
| 1026 | firstline=False; |
---|
| 1027 | } |
---|
| 1028 | else{ |
---|
| 1029 | oss << setw(15)<<" " << setprecision(10) << vec << " [Hz]" << endl; |
---|
| 1030 | } |
---|
| 1031 | } else { |
---|
| 1032 | oss << "none" << endl; |
---|
| 1033 | } |
---|
| 1034 | } |
---|
[805] | 1035 | } |
---|
[941] | 1036 | |
---|
| 1037 | oss << setw(15) << "Abcissa:" << getAbcissaLabel(0) << endl; |
---|
[805] | 1038 | oss << selector_.print() << endl; |
---|
[2111] | 1039 | return String(oss); |
---|
| 1040 | } |
---|
| 1041 | |
---|
[2163] | 1042 | std::string Scantable::summary() |
---|
[2111] | 1043 | { |
---|
| 1044 | ostringstream oss; |
---|
[805] | 1045 | oss << endl; |
---|
[2111] | 1046 | oss << asap::SEPERATOR << endl; |
---|
| 1047 | oss << " Scan Table Summary" << endl; |
---|
| 1048 | oss << asap::SEPERATOR << endl; |
---|
| 1049 | |
---|
| 1050 | // Format header info |
---|
[2163] | 1051 | oss << headerSummary(); |
---|
[2111] | 1052 | oss << endl; |
---|
| 1053 | |
---|
[805] | 1054 | // main table |
---|
| 1055 | String dirtype = "Position (" |
---|
[987] | 1056 | + getDirectionRefString() |
---|
[805] | 1057 | + ")"; |
---|
[2111] | 1058 | oss.flags(std::ios_base::left); |
---|
[941] | 1059 | oss << setw(5) << "Scan" << setw(15) << "Source" |
---|
[2005] | 1060 | << setw(10) << "Time" << setw(18) << "Integration" |
---|
| 1061 | << setw(15) << "Source Type" << endl; |
---|
[941] | 1062 | oss << setw(5) << "" << setw(5) << "Beam" << setw(3) << "" << dirtype << endl; |
---|
[1694] | 1063 | oss << setw(10) << "" << setw(3) << "IF" << setw(3) << "" |
---|
[805] | 1064 | << setw(8) << "Frame" << setw(16) |
---|
[1694] | 1065 | << "RefVal" << setw(10) << "RefPix" << setw(12) << "Increment" |
---|
| 1066 | << setw(7) << "Channels" |
---|
| 1067 | << endl; |
---|
[805] | 1068 | oss << asap::SEPERATOR << endl; |
---|
| 1069 | TableIterator iter(table_, "SCANNO"); |
---|
| 1070 | while (!iter.pastEnd()) { |
---|
| 1071 | Table subt = iter.table(); |
---|
| 1072 | ROTableRow row(subt); |
---|
| 1073 | MEpoch::ROScalarColumn timeCol(subt,"TIME"); |
---|
| 1074 | const TableRecord& rec = row.get(0); |
---|
| 1075 | oss << setw(4) << std::right << rec.asuInt("SCANNO") |
---|
| 1076 | << std::left << setw(1) << "" |
---|
| 1077 | << setw(15) << rec.asString("SRCNAME") |
---|
| 1078 | << setw(10) << formatTime(timeCol(0), false); |
---|
| 1079 | // count the cycles in the scan |
---|
| 1080 | TableIterator cyciter(subt, "CYCLENO"); |
---|
| 1081 | int nint = 0; |
---|
| 1082 | while (!cyciter.pastEnd()) { |
---|
| 1083 | ++nint; |
---|
| 1084 | ++cyciter; |
---|
| 1085 | } |
---|
| 1086 | oss << setw(3) << std::right << nint << setw(3) << " x " << std::left |
---|
[2005] | 1087 | << setw(11) << formatSec(rec.asFloat("INTERVAL")) << setw(1) << "" |
---|
| 1088 | << setw(15) << SrcType::getName(rec.asInt("SRCTYPE")) << endl; |
---|
[447] | 1089 | |
---|
[805] | 1090 | TableIterator biter(subt, "BEAMNO"); |
---|
| 1091 | while (!biter.pastEnd()) { |
---|
| 1092 | Table bsubt = biter.table(); |
---|
| 1093 | ROTableRow brow(bsubt); |
---|
| 1094 | const TableRecord& brec = brow.get(0); |
---|
[1000] | 1095 | uInt row0 = bsubt.rowNumbers(table_)[0]; |
---|
[941] | 1096 | oss << setw(5) << "" << setw(4) << std::right << brec.asuInt("BEAMNO")<< std::left; |
---|
[987] | 1097 | oss << setw(4) << "" << formatDirection(getDirection(row0)) << endl; |
---|
[805] | 1098 | TableIterator iiter(bsubt, "IFNO"); |
---|
| 1099 | while (!iiter.pastEnd()) { |
---|
| 1100 | Table isubt = iiter.table(); |
---|
| 1101 | ROTableRow irow(isubt); |
---|
| 1102 | const TableRecord& irec = irow.get(0); |
---|
[1694] | 1103 | oss << setw(9) << ""; |
---|
[941] | 1104 | oss << setw(3) << std::right << irec.asuInt("IFNO") << std::left |
---|
[1694] | 1105 | << setw(1) << "" << frequencies().print(irec.asuInt("FREQ_ID")) |
---|
| 1106 | << setw(3) << "" << nchan(irec.asuInt("IFNO")) |
---|
[1375] | 1107 | << endl; |
---|
[447] | 1108 | |
---|
[805] | 1109 | ++iiter; |
---|
| 1110 | } |
---|
| 1111 | ++biter; |
---|
| 1112 | } |
---|
| 1113 | ++iter; |
---|
[447] | 1114 | } |
---|
[805] | 1115 | return String(oss); |
---|
[447] | 1116 | } |
---|
| 1117 | |
---|
[1947] | 1118 | // std::string Scantable::getTime(int whichrow, bool showdate) const |
---|
| 1119 | // { |
---|
| 1120 | // MEpoch::ROScalarColumn timeCol(table_, "TIME"); |
---|
| 1121 | // MEpoch me; |
---|
| 1122 | // if (whichrow > -1) { |
---|
| 1123 | // me = timeCol(uInt(whichrow)); |
---|
| 1124 | // } else { |
---|
| 1125 | // Double tm; |
---|
| 1126 | // table_.keywordSet().get("UTC",tm); |
---|
| 1127 | // me = MEpoch(MVEpoch(tm)); |
---|
| 1128 | // } |
---|
| 1129 | // return formatTime(me, showdate); |
---|
| 1130 | // } |
---|
| 1131 | |
---|
| 1132 | std::string Scantable::getTime(int whichrow, bool showdate, uInt prec) const |
---|
[777] | 1133 | { |
---|
[805] | 1134 | MEpoch me; |
---|
[1947] | 1135 | me = getEpoch(whichrow); |
---|
| 1136 | return formatTime(me, showdate, prec); |
---|
[777] | 1137 | } |
---|
[805] | 1138 | |
---|
[1411] | 1139 | MEpoch Scantable::getEpoch(int whichrow) const |
---|
| 1140 | { |
---|
| 1141 | if (whichrow > -1) { |
---|
| 1142 | return timeCol_(uInt(whichrow)); |
---|
| 1143 | } else { |
---|
| 1144 | Double tm; |
---|
| 1145 | table_.keywordSet().get("UTC",tm); |
---|
[1598] | 1146 | return MEpoch(MVEpoch(tm)); |
---|
[1411] | 1147 | } |
---|
| 1148 | } |
---|
| 1149 | |
---|
[1068] | 1150 | std::string Scantable::getDirectionString(int whichrow) const |
---|
| 1151 | { |
---|
| 1152 | return formatDirection(getDirection(uInt(whichrow))); |
---|
| 1153 | } |
---|
| 1154 | |
---|
[1598] | 1155 | |
---|
| 1156 | SpectralCoordinate Scantable::getSpectralCoordinate(int whichrow) const { |
---|
| 1157 | const MPosition& mp = getAntennaPosition(); |
---|
| 1158 | const MDirection& md = getDirection(whichrow); |
---|
| 1159 | const MEpoch& me = timeCol_(whichrow); |
---|
[1819] | 1160 | //Double rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
| 1161 | Vector<Double> rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
[1598] | 1162 | return freqTable_.getSpectralCoordinate(md, mp, me, rf, |
---|
| 1163 | mfreqidCol_(whichrow)); |
---|
| 1164 | } |
---|
| 1165 | |
---|
[1360] | 1166 | std::vector< double > Scantable::getAbcissa( int whichrow ) const |
---|
[865] | 1167 | { |
---|
[1507] | 1168 | if ( whichrow > int(table_.nrow()) ) throw(AipsError("Illegal row number")); |
---|
[865] | 1169 | std::vector<double> stlout; |
---|
| 1170 | int nchan = specCol_(whichrow).nelements(); |
---|
| 1171 | String us = freqTable_.getUnitString(); |
---|
| 1172 | if ( us == "" || us == "pixel" || us == "channel" ) { |
---|
| 1173 | for (int i=0; i<nchan; ++i) { |
---|
| 1174 | stlout.push_back(double(i)); |
---|
| 1175 | } |
---|
| 1176 | return stlout; |
---|
| 1177 | } |
---|
[1598] | 1178 | SpectralCoordinate spc = getSpectralCoordinate(whichrow); |
---|
[865] | 1179 | Vector<Double> pixel(nchan); |
---|
| 1180 | Vector<Double> world; |
---|
| 1181 | indgen(pixel); |
---|
| 1182 | if ( Unit(us) == Unit("Hz") ) { |
---|
| 1183 | for ( int i=0; i < nchan; ++i) { |
---|
| 1184 | Double world; |
---|
| 1185 | spc.toWorld(world, pixel[i]); |
---|
| 1186 | stlout.push_back(double(world)); |
---|
| 1187 | } |
---|
| 1188 | } else if ( Unit(us) == Unit("km/s") ) { |
---|
| 1189 | Vector<Double> world; |
---|
| 1190 | spc.pixelToVelocity(world, pixel); |
---|
| 1191 | world.tovector(stlout); |
---|
| 1192 | } |
---|
| 1193 | return stlout; |
---|
| 1194 | } |
---|
[1360] | 1195 | void Scantable::setDirectionRefString( const std::string & refstr ) |
---|
[987] | 1196 | { |
---|
| 1197 | MDirection::Types mdt; |
---|
| 1198 | if (refstr != "" && !MDirection::getType(mdt, refstr)) { |
---|
| 1199 | throw(AipsError("Illegal Direction frame.")); |
---|
| 1200 | } |
---|
| 1201 | if ( refstr == "" ) { |
---|
| 1202 | String defaultstr = MDirection::showType(dirCol_.getMeasRef().getType()); |
---|
| 1203 | table_.rwKeywordSet().define("DIRECTIONREF", defaultstr); |
---|
| 1204 | } else { |
---|
| 1205 | table_.rwKeywordSet().define("DIRECTIONREF", String(refstr)); |
---|
| 1206 | } |
---|
| 1207 | } |
---|
[865] | 1208 | |
---|
[1360] | 1209 | std::string Scantable::getDirectionRefString( ) const |
---|
[987] | 1210 | { |
---|
| 1211 | return table_.keywordSet().asString("DIRECTIONREF"); |
---|
| 1212 | } |
---|
| 1213 | |
---|
| 1214 | MDirection Scantable::getDirection(int whichrow ) const |
---|
| 1215 | { |
---|
| 1216 | String usertype = table_.keywordSet().asString("DIRECTIONREF"); |
---|
| 1217 | String type = MDirection::showType(dirCol_.getMeasRef().getType()); |
---|
| 1218 | if ( usertype != type ) { |
---|
| 1219 | MDirection::Types mdt; |
---|
| 1220 | if (!MDirection::getType(mdt, usertype)) { |
---|
| 1221 | throw(AipsError("Illegal Direction frame.")); |
---|
| 1222 | } |
---|
| 1223 | return dirCol_.convert(uInt(whichrow), mdt); |
---|
| 1224 | } else { |
---|
| 1225 | return dirCol_(uInt(whichrow)); |
---|
| 1226 | } |
---|
| 1227 | } |
---|
| 1228 | |
---|
[847] | 1229 | std::string Scantable::getAbcissaLabel( int whichrow ) const |
---|
| 1230 | { |
---|
[996] | 1231 | if ( whichrow > int(table_.nrow()) ) throw(AipsError("Illegal ro number")); |
---|
[847] | 1232 | const MPosition& mp = getAntennaPosition(); |
---|
[987] | 1233 | const MDirection& md = getDirection(whichrow); |
---|
[847] | 1234 | const MEpoch& me = timeCol_(whichrow); |
---|
[1819] | 1235 | //const Double& rf = mmolidCol_(whichrow); |
---|
| 1236 | const Vector<Double> rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
[847] | 1237 | SpectralCoordinate spc = |
---|
| 1238 | freqTable_.getSpectralCoordinate(md, mp, me, rf, mfreqidCol_(whichrow)); |
---|
| 1239 | |
---|
| 1240 | String s = "Channel"; |
---|
| 1241 | Unit u = Unit(freqTable_.getUnitString()); |
---|
| 1242 | if (u == Unit("km/s")) { |
---|
[1170] | 1243 | s = CoordinateUtil::axisLabel(spc, 0, True,True, True); |
---|
[847] | 1244 | } else if (u == Unit("Hz")) { |
---|
| 1245 | Vector<String> wau(1);wau = u.getName(); |
---|
| 1246 | spc.setWorldAxisUnits(wau); |
---|
[1170] | 1247 | s = CoordinateUtil::axisLabel(spc, 0, True, True, False); |
---|
[847] | 1248 | } |
---|
| 1249 | return s; |
---|
| 1250 | |
---|
| 1251 | } |
---|
| 1252 | |
---|
[1819] | 1253 | /** |
---|
| 1254 | void asap::Scantable::setRestFrequencies( double rf, const std::string& name, |
---|
[1170] | 1255 | const std::string& unit ) |
---|
[1819] | 1256 | **/ |
---|
| 1257 | void Scantable::setRestFrequencies( vector<double> rf, const vector<std::string>& name, |
---|
| 1258 | const std::string& unit ) |
---|
| 1259 | |
---|
[847] | 1260 | { |
---|
[923] | 1261 | ///@todo lookup in line table to fill in name and formattedname |
---|
[847] | 1262 | Unit u(unit); |
---|
[1819] | 1263 | //Quantum<Double> urf(rf, u); |
---|
| 1264 | Quantum<Vector<Double> >urf(rf, u); |
---|
| 1265 | Vector<String> formattedname(0); |
---|
| 1266 | //cerr<<"Scantable::setRestFrequnecies="<<urf<<endl; |
---|
| 1267 | |
---|
| 1268 | //uInt id = moleculeTable_.addEntry(urf.getValue("Hz"), name, ""); |
---|
| 1269 | uInt id = moleculeTable_.addEntry(urf.getValue("Hz"), mathutil::toVectorString(name), formattedname); |
---|
[847] | 1270 | TableVector<uInt> tabvec(table_, "MOLECULE_ID"); |
---|
| 1271 | tabvec = id; |
---|
| 1272 | } |
---|
| 1273 | |
---|
[1819] | 1274 | /** |
---|
| 1275 | void asap::Scantable::setRestFrequencies( const std::string& name ) |
---|
[847] | 1276 | { |
---|
| 1277 | throw(AipsError("setRestFrequencies( const std::string& name ) NYI")); |
---|
| 1278 | ///@todo implement |
---|
| 1279 | } |
---|
[1819] | 1280 | **/ |
---|
[2012] | 1281 | |
---|
[1819] | 1282 | void Scantable::setRestFrequencies( const vector<std::string>& name ) |
---|
| 1283 | { |
---|
[2163] | 1284 | (void) name; // suppress unused warning |
---|
[1819] | 1285 | throw(AipsError("setRestFrequencies( const vector<std::string>& name ) NYI")); |
---|
| 1286 | ///@todo implement |
---|
| 1287 | } |
---|
[847] | 1288 | |
---|
[1360] | 1289 | std::vector< unsigned int > Scantable::rownumbers( ) const |
---|
[852] | 1290 | { |
---|
| 1291 | std::vector<unsigned int> stlout; |
---|
| 1292 | Vector<uInt> vec = table_.rowNumbers(); |
---|
| 1293 | vec.tovector(stlout); |
---|
| 1294 | return stlout; |
---|
| 1295 | } |
---|
| 1296 | |
---|
[865] | 1297 | |
---|
[1360] | 1298 | Matrix<Float> Scantable::getPolMatrix( uInt whichrow ) const |
---|
[896] | 1299 | { |
---|
| 1300 | ROTableRow row(table_); |
---|
| 1301 | const TableRecord& rec = row.get(whichrow); |
---|
| 1302 | Table t = |
---|
| 1303 | originalTable_( originalTable_.col("SCANNO") == Int(rec.asuInt("SCANNO")) |
---|
| 1304 | && originalTable_.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 1305 | && originalTable_.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 1306 | && originalTable_.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 1307 | ROArrayColumn<Float> speccol(t, "SPECTRA"); |
---|
| 1308 | return speccol.getColumn(); |
---|
| 1309 | } |
---|
[865] | 1310 | |
---|
[1360] | 1311 | std::vector< std::string > Scantable::columnNames( ) const |
---|
[902] | 1312 | { |
---|
| 1313 | Vector<String> vec = table_.tableDesc().columnNames(); |
---|
| 1314 | return mathutil::tovectorstring(vec); |
---|
| 1315 | } |
---|
[896] | 1316 | |
---|
[1360] | 1317 | MEpoch::Types Scantable::getTimeReference( ) const |
---|
[915] | 1318 | { |
---|
| 1319 | return MEpoch::castType(timeCol_.getMeasRef().getType()); |
---|
[972] | 1320 | } |
---|
[915] | 1321 | |
---|
[1360] | 1322 | void Scantable::addFit( const STFitEntry& fit, int row ) |
---|
[972] | 1323 | { |
---|
[1819] | 1324 | //cout << mfitidCol_(uInt(row)) << endl; |
---|
| 1325 | LogIO os( LogOrigin( "Scantable", "addFit()", WHERE ) ) ; |
---|
| 1326 | os << mfitidCol_(uInt(row)) << LogIO::POST ; |
---|
[972] | 1327 | uInt id = fitTable_.addEntry(fit, mfitidCol_(uInt(row))); |
---|
| 1328 | mfitidCol_.put(uInt(row), id); |
---|
| 1329 | } |
---|
[915] | 1330 | |
---|
[1360] | 1331 | void Scantable::shift(int npix) |
---|
| 1332 | { |
---|
| 1333 | Vector<uInt> fids(mfreqidCol_.getColumn()); |
---|
| 1334 | genSort( fids, Sort::Ascending, |
---|
| 1335 | Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 1336 | for (uInt i=0; i<fids.nelements(); ++i) { |
---|
[1567] | 1337 | frequencies().shiftRefPix(npix, fids[i]); |
---|
[1360] | 1338 | } |
---|
| 1339 | } |
---|
[987] | 1340 | |
---|
[1819] | 1341 | String Scantable::getAntennaName() const |
---|
[1391] | 1342 | { |
---|
| 1343 | String out; |
---|
| 1344 | table_.keywordSet().get("AntennaName", out); |
---|
[1987] | 1345 | String::size_type pos1 = out.find("@") ; |
---|
| 1346 | String::size_type pos2 = out.find("//") ; |
---|
| 1347 | if ( pos2 != String::npos ) |
---|
[2036] | 1348 | out = out.substr(pos2+2,pos1-pos2-2) ; |
---|
[1987] | 1349 | else if ( pos1 != String::npos ) |
---|
| 1350 | out = out.substr(0,pos1) ; |
---|
[1391] | 1351 | return out; |
---|
[987] | 1352 | } |
---|
[1391] | 1353 | |
---|
[1730] | 1354 | int Scantable::checkScanInfo(const std::vector<int>& scanlist) const |
---|
[1391] | 1355 | { |
---|
| 1356 | String tbpath; |
---|
| 1357 | int ret = 0; |
---|
| 1358 | if ( table_.keywordSet().isDefined("GBT_GO") ) { |
---|
| 1359 | table_.keywordSet().get("GBT_GO", tbpath); |
---|
| 1360 | Table t(tbpath,Table::Old); |
---|
| 1361 | // check each scan if other scan of the pair exist |
---|
| 1362 | int nscan = scanlist.size(); |
---|
| 1363 | for (int i = 0; i < nscan; i++) { |
---|
| 1364 | Table subt = t( t.col("SCAN") == scanlist[i]+1 ); |
---|
| 1365 | if (subt.nrow()==0) { |
---|
[1819] | 1366 | //cerr <<"Scan "<<scanlist[i]<<" cannot be found in the scantable."<<endl; |
---|
| 1367 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1368 | os <<LogIO::WARN<<"Scan "<<scanlist[i]<<" cannot be found in the scantable."<<LogIO::POST; |
---|
[1391] | 1369 | ret = 1; |
---|
| 1370 | break; |
---|
| 1371 | } |
---|
| 1372 | ROTableRow row(subt); |
---|
| 1373 | const TableRecord& rec = row.get(0); |
---|
| 1374 | int scan1seqn = rec.asuInt("PROCSEQN"); |
---|
| 1375 | int laston1 = rec.asuInt("LASTON"); |
---|
| 1376 | if ( rec.asuInt("PROCSIZE")==2 ) { |
---|
| 1377 | if ( i < nscan-1 ) { |
---|
| 1378 | Table subt2 = t( t.col("SCAN") == scanlist[i+1]+1 ); |
---|
| 1379 | if ( subt2.nrow() == 0) { |
---|
[1819] | 1380 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1381 | |
---|
| 1382 | //cerr<<"Scan "<<scanlist[i+1]<<" cannot be found in the scantable."<<endl; |
---|
| 1383 | os<<LogIO::WARN<<"Scan "<<scanlist[i+1]<<" cannot be found in the scantable."<<LogIO::POST; |
---|
[1391] | 1384 | ret = 1; |
---|
| 1385 | break; |
---|
| 1386 | } |
---|
| 1387 | ROTableRow row2(subt2); |
---|
| 1388 | const TableRecord& rec2 = row2.get(0); |
---|
| 1389 | int scan2seqn = rec2.asuInt("PROCSEQN"); |
---|
| 1390 | int laston2 = rec2.asuInt("LASTON"); |
---|
| 1391 | if (scan1seqn == 1 && scan2seqn == 2) { |
---|
| 1392 | if (laston1 == laston2) { |
---|
[1819] | 1393 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1394 | //cerr<<"A valid scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<endl; |
---|
| 1395 | os<<"A valid scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<LogIO::POST; |
---|
[1391] | 1396 | i +=1; |
---|
| 1397 | } |
---|
| 1398 | else { |
---|
[1819] | 1399 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1400 | //cerr<<"Incorrect scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<endl; |
---|
| 1401 | os<<LogIO::WARN<<"Incorrect scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<LogIO::POST; |
---|
[1391] | 1402 | } |
---|
| 1403 | } |
---|
| 1404 | else if (scan1seqn==2 && scan2seqn == 1) { |
---|
| 1405 | if (laston1 == laston2) { |
---|
[1819] | 1406 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1407 | //cerr<<"["<<scanlist[i]<<","<<scanlist[i+1]<<"] is a valid scan pair but in incorrect order."<<endl; |
---|
| 1408 | os<<LogIO::WARN<<"["<<scanlist[i]<<","<<scanlist[i+1]<<"] is a valid scan pair but in incorrect order."<<LogIO::POST; |
---|
[1391] | 1409 | ret = 1; |
---|
| 1410 | break; |
---|
| 1411 | } |
---|
| 1412 | } |
---|
| 1413 | else { |
---|
[1819] | 1414 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1415 | //cerr<<"The other scan for "<<scanlist[i]<<" appears to be missing. Check the input scan numbers."<<endl; |
---|
| 1416 | os<<LogIO::WARN<<"The other scan for "<<scanlist[i]<<" appears to be missing. Check the input scan numbers."<<LogIO::POST; |
---|
[1391] | 1417 | ret = 1; |
---|
| 1418 | break; |
---|
| 1419 | } |
---|
| 1420 | } |
---|
| 1421 | } |
---|
| 1422 | else { |
---|
[1819] | 1423 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1424 | //cerr<<"The scan does not appear to be standard obsevation."<<endl; |
---|
| 1425 | os<<LogIO::WARN<<"The scan does not appear to be standard obsevation."<<LogIO::POST; |
---|
[1391] | 1426 | } |
---|
| 1427 | //if ( i >= nscan ) break; |
---|
| 1428 | } |
---|
| 1429 | } |
---|
| 1430 | else { |
---|
[1819] | 1431 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1432 | //cerr<<"No reference to GBT_GO table."<<endl; |
---|
| 1433 | os<<LogIO::WARN<<"No reference to GBT_GO table."<<LogIO::POST; |
---|
[1391] | 1434 | ret = 1; |
---|
| 1435 | } |
---|
| 1436 | return ret; |
---|
| 1437 | } |
---|
| 1438 | |
---|
[1730] | 1439 | std::vector<double> Scantable::getDirectionVector(int whichrow) const |
---|
[1391] | 1440 | { |
---|
| 1441 | Vector<Double> Dir = dirCol_(whichrow).getAngle("rad").getValue(); |
---|
| 1442 | std::vector<double> dir; |
---|
| 1443 | Dir.tovector(dir); |
---|
| 1444 | return dir; |
---|
| 1445 | } |
---|
| 1446 | |
---|
[1819] | 1447 | void asap::Scantable::reshapeSpectrum( int nmin, int nmax ) |
---|
| 1448 | throw( casa::AipsError ) |
---|
| 1449 | { |
---|
| 1450 | // assumed that all rows have same nChan |
---|
| 1451 | Vector<Float> arr = specCol_( 0 ) ; |
---|
| 1452 | int nChan = arr.nelements() ; |
---|
| 1453 | |
---|
| 1454 | // if nmin < 0 or nmax < 0, nothing to do |
---|
| 1455 | if ( nmin < 0 ) { |
---|
| 1456 | throw( casa::indexError<int>( nmin, "asap::Scantable::reshapeSpectrum: Invalid range. Negative index is specified." ) ) ; |
---|
| 1457 | } |
---|
| 1458 | if ( nmax < 0 ) { |
---|
| 1459 | throw( casa::indexError<int>( nmax, "asap::Scantable::reshapeSpectrum: Invalid range. Negative index is specified." ) ) ; |
---|
| 1460 | } |
---|
| 1461 | |
---|
| 1462 | // if nmin > nmax, exchange values |
---|
| 1463 | if ( nmin > nmax ) { |
---|
| 1464 | int tmp = nmax ; |
---|
| 1465 | nmax = nmin ; |
---|
| 1466 | nmin = tmp ; |
---|
| 1467 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1468 | os << "Swap values. Applied range is [" |
---|
| 1469 | << nmin << ", " << nmax << "]" << LogIO::POST ; |
---|
| 1470 | } |
---|
| 1471 | |
---|
| 1472 | // if nmin exceeds nChan, nothing to do |
---|
| 1473 | if ( nmin >= nChan ) { |
---|
| 1474 | throw( casa::indexError<int>( nmin, "asap::Scantable::reshapeSpectrum: Invalid range. Specified minimum exceeds nChan." ) ) ; |
---|
| 1475 | } |
---|
| 1476 | |
---|
| 1477 | // if nmax exceeds nChan, reset nmax to nChan |
---|
| 1478 | if ( nmax >= nChan ) { |
---|
| 1479 | if ( nmin == 0 ) { |
---|
| 1480 | // nothing to do |
---|
| 1481 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1482 | os << "Whole range is selected. Nothing to do." << LogIO::POST ; |
---|
| 1483 | return ; |
---|
| 1484 | } |
---|
| 1485 | else { |
---|
| 1486 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1487 | os << "Specified maximum exceeds nChan. Applied range is [" |
---|
| 1488 | << nmin << ", " << nChan-1 << "]." << LogIO::POST ; |
---|
| 1489 | nmax = nChan - 1 ; |
---|
| 1490 | } |
---|
| 1491 | } |
---|
| 1492 | |
---|
| 1493 | // reshape specCol_ and flagCol_ |
---|
| 1494 | for ( int irow = 0 ; irow < nrow() ; irow++ ) { |
---|
| 1495 | reshapeSpectrum( nmin, nmax, irow ) ; |
---|
| 1496 | } |
---|
| 1497 | |
---|
| 1498 | // update FREQUENCIES subtable |
---|
| 1499 | Double refpix ; |
---|
| 1500 | Double refval ; |
---|
| 1501 | Double increment ; |
---|
| 1502 | int freqnrow = freqTable_.table().nrow() ; |
---|
| 1503 | Vector<uInt> oldId( freqnrow ) ; |
---|
| 1504 | Vector<uInt> newId( freqnrow ) ; |
---|
| 1505 | for ( int irow = 0 ; irow < freqnrow ; irow++ ) { |
---|
| 1506 | freqTable_.getEntry( refpix, refval, increment, irow ) ; |
---|
| 1507 | /*** |
---|
| 1508 | * need to shift refpix to nmin |
---|
| 1509 | * note that channel nmin in old index will be channel 0 in new one |
---|
| 1510 | ***/ |
---|
| 1511 | refval = refval - ( refpix - nmin ) * increment ; |
---|
| 1512 | refpix = 0 ; |
---|
| 1513 | freqTable_.setEntry( refpix, refval, increment, irow ) ; |
---|
| 1514 | } |
---|
| 1515 | |
---|
| 1516 | // update nchan |
---|
| 1517 | int newsize = nmax - nmin + 1 ; |
---|
| 1518 | table_.rwKeywordSet().define( "nChan", newsize ) ; |
---|
| 1519 | |
---|
| 1520 | // update bandwidth |
---|
| 1521 | // assumed all spectra in the scantable have same bandwidth |
---|
| 1522 | table_.rwKeywordSet().define( "Bandwidth", increment * newsize ) ; |
---|
| 1523 | |
---|
| 1524 | return ; |
---|
| 1525 | } |
---|
| 1526 | |
---|
| 1527 | void asap::Scantable::reshapeSpectrum( int nmin, int nmax, int irow ) |
---|
| 1528 | { |
---|
| 1529 | // reshape specCol_ and flagCol_ |
---|
| 1530 | Vector<Float> oldspec = specCol_( irow ) ; |
---|
| 1531 | Vector<uChar> oldflag = flagsCol_( irow ) ; |
---|
| 1532 | uInt newsize = nmax - nmin + 1 ; |
---|
| 1533 | specCol_.put( irow, oldspec( Slice( nmin, newsize, 1 ) ) ) ; |
---|
| 1534 | flagsCol_.put( irow, oldflag( Slice( nmin, newsize, 1 ) ) ) ; |
---|
| 1535 | |
---|
| 1536 | return ; |
---|
| 1537 | } |
---|
| 1538 | |
---|
| 1539 | void asap::Scantable::regridChannel( int nChan, double dnu ) |
---|
| 1540 | { |
---|
| 1541 | LogIO os( LogOrigin( "Scantable", "regridChannel()", WHERE ) ) ; |
---|
| 1542 | os << "Regrid abcissa with channel number " << nChan << " and spectral resoultion " << dnu << "Hz." << LogIO::POST ; |
---|
| 1543 | // assumed that all rows have same nChan |
---|
| 1544 | Vector<Float> arr = specCol_( 0 ) ; |
---|
| 1545 | int oldsize = arr.nelements() ; |
---|
| 1546 | |
---|
| 1547 | // if oldsize == nChan, nothing to do |
---|
| 1548 | if ( oldsize == nChan ) { |
---|
| 1549 | os << "Specified channel number is same as current one. Nothing to do." << LogIO::POST ; |
---|
| 1550 | return ; |
---|
| 1551 | } |
---|
| 1552 | |
---|
| 1553 | // if oldChan < nChan, unphysical operation |
---|
| 1554 | if ( oldsize < nChan ) { |
---|
| 1555 | os << "Unphysical operation. Nothing to do." << LogIO::POST ; |
---|
| 1556 | return ; |
---|
| 1557 | } |
---|
| 1558 | |
---|
| 1559 | // change channel number for specCol_ and flagCol_ |
---|
| 1560 | Vector<Float> newspec( nChan, 0 ) ; |
---|
| 1561 | Vector<uChar> newflag( nChan, false ) ; |
---|
| 1562 | vector<string> coordinfo = getCoordInfo() ; |
---|
| 1563 | string oldinfo = coordinfo[0] ; |
---|
| 1564 | coordinfo[0] = "Hz" ; |
---|
| 1565 | setCoordInfo( coordinfo ) ; |
---|
| 1566 | for ( int irow = 0 ; irow < nrow() ; irow++ ) { |
---|
| 1567 | regridChannel( nChan, dnu, irow ) ; |
---|
| 1568 | } |
---|
| 1569 | coordinfo[0] = oldinfo ; |
---|
| 1570 | setCoordInfo( coordinfo ) ; |
---|
| 1571 | |
---|
| 1572 | |
---|
| 1573 | // NOTE: this method does not update metadata such as |
---|
| 1574 | // FREQUENCIES subtable, nChan, Bandwidth, etc. |
---|
| 1575 | |
---|
| 1576 | return ; |
---|
| 1577 | } |
---|
| 1578 | |
---|
| 1579 | void asap::Scantable::regridChannel( int nChan, double dnu, int irow ) |
---|
| 1580 | { |
---|
| 1581 | // logging |
---|
| 1582 | //ofstream ofs( "average.log", std::ios::out | std::ios::app ) ; |
---|
| 1583 | //ofs << "IFNO = " << getIF( irow ) << " irow = " << irow << endl ; |
---|
| 1584 | |
---|
| 1585 | Vector<Float> oldspec = specCol_( irow ) ; |
---|
| 1586 | Vector<uChar> oldflag = flagsCol_( irow ) ; |
---|
| 1587 | Vector<Float> newspec( nChan, 0 ) ; |
---|
| 1588 | Vector<uChar> newflag( nChan, false ) ; |
---|
| 1589 | |
---|
| 1590 | // regrid |
---|
| 1591 | vector<double> abcissa = getAbcissa( irow ) ; |
---|
| 1592 | int oldsize = abcissa.size() ; |
---|
| 1593 | double olddnu = abcissa[1] - abcissa[0] ; |
---|
| 1594 | //int refChan = 0 ; |
---|
| 1595 | //double frac = 0.0 ; |
---|
| 1596 | //double wedge = 0.0 ; |
---|
| 1597 | //double pile = 0.0 ; |
---|
| 1598 | int ichan = 0 ; |
---|
| 1599 | double wsum = 0.0 ; |
---|
| 1600 | Vector<Float> zi( nChan+1 ) ; |
---|
| 1601 | Vector<Float> yi( oldsize + 1 ) ; |
---|
[2133] | 1602 | zi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
| 1603 | zi[1] = zi[1] + dnu ; |
---|
[1819] | 1604 | for ( int ii = 2 ; ii < nChan ; ii++ ) |
---|
[2133] | 1605 | zi[ii] = zi[0] + dnu * ii ; |
---|
| 1606 | zi[nChan] = zi[nChan-1] + dnu ; |
---|
[1819] | 1607 | yi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
| 1608 | yi[1] = abcissa[1] + 0.5 * olddnu ; |
---|
| 1609 | for ( int ii = 2 ; ii < oldsize ; ii++ ) |
---|
| 1610 | yi[ii] = abcissa[ii-1] + olddnu ; |
---|
| 1611 | yi[oldsize] = abcissa[oldsize-1] + 0.5 * olddnu ; |
---|
| 1612 | if ( dnu > 0.0 ) { |
---|
| 1613 | for ( int ii = 0 ; ii < nChan ; ii++ ) { |
---|
| 1614 | double zl = zi[ii] ; |
---|
| 1615 | double zr = zi[ii+1] ; |
---|
| 1616 | for ( int j = ichan ; j < oldsize ; j++ ) { |
---|
| 1617 | double yl = yi[j] ; |
---|
| 1618 | double yr = yi[j+1] ; |
---|
| 1619 | if ( yl <= zl ) { |
---|
| 1620 | if ( yr <= zl ) { |
---|
| 1621 | continue ; |
---|
| 1622 | } |
---|
| 1623 | else if ( yr <= zr ) { |
---|
| 1624 | newspec[ii] += oldspec[j] * ( yr - zl ) ; |
---|
| 1625 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1626 | wsum += ( yr - zl ) ; |
---|
| 1627 | } |
---|
| 1628 | else { |
---|
| 1629 | newspec[ii] += oldspec[j] * dnu ; |
---|
| 1630 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1631 | wsum += dnu ; |
---|
| 1632 | ichan = j ; |
---|
| 1633 | break ; |
---|
| 1634 | } |
---|
| 1635 | } |
---|
| 1636 | else if ( yl < zr ) { |
---|
| 1637 | if ( yr <= zr ) { |
---|
| 1638 | newspec[ii] += oldspec[j] * ( yr - yl ) ; |
---|
| 1639 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1640 | wsum += ( yr - yl ) ; |
---|
| 1641 | } |
---|
| 1642 | else { |
---|
| 1643 | newspec[ii] += oldspec[j] * ( zr - yl ) ; |
---|
| 1644 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1645 | wsum += ( zr - yl ) ; |
---|
| 1646 | ichan = j ; |
---|
| 1647 | break ; |
---|
| 1648 | } |
---|
| 1649 | } |
---|
| 1650 | else { |
---|
| 1651 | ichan = j - 1 ; |
---|
| 1652 | break ; |
---|
| 1653 | } |
---|
| 1654 | } |
---|
[2133] | 1655 | if ( wsum != 0.0 ) |
---|
| 1656 | newspec[ii] /= wsum ; |
---|
[1819] | 1657 | wsum = 0.0 ; |
---|
| 1658 | } |
---|
| 1659 | } |
---|
| 1660 | else if ( dnu < 0.0 ) { |
---|
| 1661 | for ( int ii = 0 ; ii < nChan ; ii++ ) { |
---|
| 1662 | double zl = zi[ii] ; |
---|
| 1663 | double zr = zi[ii+1] ; |
---|
| 1664 | for ( int j = ichan ; j < oldsize ; j++ ) { |
---|
| 1665 | double yl = yi[j] ; |
---|
| 1666 | double yr = yi[j+1] ; |
---|
| 1667 | if ( yl >= zl ) { |
---|
| 1668 | if ( yr >= zl ) { |
---|
| 1669 | continue ; |
---|
| 1670 | } |
---|
| 1671 | else if ( yr >= zr ) { |
---|
| 1672 | newspec[ii] += oldspec[j] * abs( yr - zl ) ; |
---|
| 1673 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1674 | wsum += abs( yr - zl ) ; |
---|
| 1675 | } |
---|
| 1676 | else { |
---|
| 1677 | newspec[ii] += oldspec[j] * abs( dnu ) ; |
---|
| 1678 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1679 | wsum += abs( dnu ) ; |
---|
| 1680 | ichan = j ; |
---|
| 1681 | break ; |
---|
| 1682 | } |
---|
| 1683 | } |
---|
| 1684 | else if ( yl > zr ) { |
---|
| 1685 | if ( yr >= zr ) { |
---|
| 1686 | newspec[ii] += oldspec[j] * abs( yr - yl ) ; |
---|
| 1687 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1688 | wsum += abs( yr - yl ) ; |
---|
| 1689 | } |
---|
| 1690 | else { |
---|
| 1691 | newspec[ii] += oldspec[j] * abs( zr - yl ) ; |
---|
| 1692 | newflag[ii] = newflag[ii] || oldflag[j] ; |
---|
| 1693 | wsum += abs( zr - yl ) ; |
---|
| 1694 | ichan = j ; |
---|
| 1695 | break ; |
---|
| 1696 | } |
---|
| 1697 | } |
---|
| 1698 | else { |
---|
| 1699 | ichan = j - 1 ; |
---|
| 1700 | break ; |
---|
| 1701 | } |
---|
| 1702 | } |
---|
[2133] | 1703 | if ( wsum != 0.0 ) |
---|
| 1704 | newspec[ii] /= wsum ; |
---|
[1819] | 1705 | wsum = 0.0 ; |
---|
| 1706 | } |
---|
| 1707 | } |
---|
| 1708 | // * ichan = 0 |
---|
| 1709 | // ***/ |
---|
| 1710 | // //ofs << "olddnu = " << olddnu << ", dnu = " << dnu << endl ; |
---|
| 1711 | // pile += dnu ; |
---|
| 1712 | // wedge = olddnu * ( refChan + 1 ) ; |
---|
| 1713 | // while ( wedge < pile ) { |
---|
| 1714 | // newspec[0] += olddnu * oldspec[refChan] ; |
---|
| 1715 | // newflag[0] = newflag[0] || oldflag[refChan] ; |
---|
| 1716 | // //ofs << "channel " << refChan << " is included in new channel 0" << endl ; |
---|
| 1717 | // refChan++ ; |
---|
| 1718 | // wedge += olddnu ; |
---|
| 1719 | // wsum += olddnu ; |
---|
| 1720 | // //ofs << "newspec[0] = " << newspec[0] << " wsum = " << wsum << endl ; |
---|
| 1721 | // } |
---|
| 1722 | // frac = ( wedge - pile ) / olddnu ; |
---|
| 1723 | // wsum += ( 1.0 - frac ) * olddnu ; |
---|
| 1724 | // newspec[0] += ( 1.0 - frac ) * olddnu * oldspec[refChan] ; |
---|
| 1725 | // newflag[0] = newflag[0] || oldflag[refChan] ; |
---|
| 1726 | // //ofs << "channel " << refChan << " is partly included in new channel 0" << " with fraction of " << ( 1.0 - frac ) << endl ; |
---|
| 1727 | // //ofs << "newspec[0] = " << newspec[0] << " wsum = " << wsum << endl ; |
---|
| 1728 | // newspec[0] /= wsum ; |
---|
| 1729 | // //ofs << "newspec[0] = " << newspec[0] << endl ; |
---|
| 1730 | // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
| 1731 | |
---|
| 1732 | // /*** |
---|
| 1733 | // * ichan = 1 - nChan-2 |
---|
| 1734 | // ***/ |
---|
| 1735 | // for ( int ichan = 1 ; ichan < nChan - 1 ; ichan++ ) { |
---|
| 1736 | // pile += dnu ; |
---|
| 1737 | // newspec[ichan] += frac * olddnu * oldspec[refChan] ; |
---|
| 1738 | // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 1739 | // //ofs << "channel " << refChan << " is partly included in new channel " << ichan << " with fraction of " << frac << endl ; |
---|
| 1740 | // refChan++ ; |
---|
| 1741 | // wedge += olddnu ; |
---|
| 1742 | // wsum = frac * olddnu ; |
---|
| 1743 | // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 1744 | // while ( wedge < pile ) { |
---|
| 1745 | // newspec[ichan] += olddnu * oldspec[refChan] ; |
---|
| 1746 | // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 1747 | // //ofs << "channel " << refChan << " is included in new channel " << ichan << endl ; |
---|
| 1748 | // refChan++ ; |
---|
| 1749 | // wedge += olddnu ; |
---|
| 1750 | // wsum += olddnu ; |
---|
| 1751 | // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 1752 | // } |
---|
| 1753 | // frac = ( wedge - pile ) / olddnu ; |
---|
| 1754 | // wsum += ( 1.0 - frac ) * olddnu ; |
---|
| 1755 | // newspec[ichan] += ( 1.0 - frac ) * olddnu * oldspec[refChan] ; |
---|
| 1756 | // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 1757 | // //ofs << "channel " << refChan << " is partly included in new channel " << ichan << " with fraction of " << ( 1.0 - frac ) << endl ; |
---|
| 1758 | // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
| 1759 | // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 1760 | // newspec[ichan] /= wsum ; |
---|
| 1761 | // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << endl ; |
---|
| 1762 | // } |
---|
| 1763 | |
---|
| 1764 | // /*** |
---|
| 1765 | // * ichan = nChan-1 |
---|
| 1766 | // ***/ |
---|
| 1767 | // // NOTE: Assumed that all spectra have the same bandwidth |
---|
| 1768 | // pile += dnu ; |
---|
| 1769 | // newspec[nChan-1] += frac * olddnu * oldspec[refChan] ; |
---|
| 1770 | // newflag[nChan-1] = newflag[nChan-1] || oldflag[refChan] ; |
---|
| 1771 | // //ofs << "channel " << refChan << " is partly included in new channel " << nChan-1 << " with fraction of " << frac << endl ; |
---|
| 1772 | // refChan++ ; |
---|
| 1773 | // wedge += olddnu ; |
---|
| 1774 | // wsum = frac * olddnu ; |
---|
| 1775 | // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 1776 | // for ( int jchan = refChan ; jchan < oldsize ; jchan++ ) { |
---|
| 1777 | // newspec[nChan-1] += olddnu * oldspec[jchan] ; |
---|
| 1778 | // newflag[nChan-1] = newflag[nChan-1] || oldflag[jchan] ; |
---|
| 1779 | // wsum += olddnu ; |
---|
| 1780 | // //ofs << "channel " << jchan << " is included in new channel " << nChan-1 << " with fraction of " << frac << endl ; |
---|
| 1781 | // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 1782 | // } |
---|
| 1783 | // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
| 1784 | // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 1785 | // newspec[nChan-1] /= wsum ; |
---|
| 1786 | // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << endl ; |
---|
| 1787 | |
---|
| 1788 | // // ofs.close() ; |
---|
| 1789 | |
---|
[2032] | 1790 | specCol_.put( irow, newspec ) ; |
---|
| 1791 | flagsCol_.put( irow, newflag ) ; |
---|
[1819] | 1792 | |
---|
| 1793 | return ; |
---|
| 1794 | } |
---|
| 1795 | |
---|
[1730] | 1796 | std::vector<float> Scantable::getWeather(int whichrow) const |
---|
| 1797 | { |
---|
| 1798 | std::vector<float> out(5); |
---|
| 1799 | //Float temperature, pressure, humidity, windspeed, windaz; |
---|
| 1800 | weatherTable_.getEntry(out[0], out[1], out[2], out[3], out[4], |
---|
| 1801 | mweatheridCol_(uInt(whichrow))); |
---|
| 1802 | |
---|
| 1803 | |
---|
| 1804 | return out; |
---|
[1391] | 1805 | } |
---|
[1730] | 1806 | |
---|
[2047] | 1807 | bool Scantable::getFlagtraFast(uInt whichrow) |
---|
[1907] | 1808 | { |
---|
| 1809 | uChar flag; |
---|
| 1810 | Vector<uChar> flags; |
---|
[2047] | 1811 | flagsCol_.get(whichrow, flags); |
---|
[2012] | 1812 | flag = flags[0]; |
---|
[2047] | 1813 | for (uInt i = 1; i < flags.size(); ++i) { |
---|
[2012] | 1814 | flag &= flags[i]; |
---|
| 1815 | } |
---|
| 1816 | return ((flag >> 7) == 1); |
---|
| 1817 | } |
---|
| 1818 | |
---|
[2094] | 1819 | void Scantable::polyBaseline(const std::vector<bool>& mask, int order, bool getResidual, bool outLogger, const std::string& blfile) |
---|
[2047] | 1820 | { |
---|
| 1821 | ofstream ofs; |
---|
[2081] | 1822 | String coordInfo = ""; |
---|
[2047] | 1823 | bool hasSameNchan = true; |
---|
| 1824 | bool outTextFile = false; |
---|
| 1825 | |
---|
| 1826 | if (blfile != "") { |
---|
| 1827 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 1828 | if (ofs) outTextFile = true; |
---|
| 1829 | } |
---|
| 1830 | |
---|
| 1831 | if (outLogger || outTextFile) { |
---|
| 1832 | coordInfo = getCoordInfo()[0]; |
---|
| 1833 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 1834 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 1835 | } |
---|
| 1836 | |
---|
| 1837 | Fitter fitter = Fitter(); |
---|
| 1838 | fitter.setExpression("poly", order); |
---|
[2081] | 1839 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2047] | 1840 | |
---|
| 1841 | int nRow = nrow(); |
---|
| 1842 | std::vector<bool> chanMask; |
---|
| 1843 | |
---|
| 1844 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 1845 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
| 1846 | fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 1847 | setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2047] | 1848 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "polyBaseline()", fitter); |
---|
| 1849 | } |
---|
| 1850 | |
---|
| 1851 | if (outTextFile) ofs.close(); |
---|
| 1852 | } |
---|
| 1853 | |
---|
[2094] | 1854 | void Scantable::autoPolyBaseline(const std::vector<bool>& mask, int order, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, bool outLogger, const std::string& blfile) |
---|
[2047] | 1855 | { |
---|
| 1856 | ofstream ofs; |
---|
[2081] | 1857 | String coordInfo = ""; |
---|
[2047] | 1858 | bool hasSameNchan = true; |
---|
| 1859 | bool outTextFile = false; |
---|
| 1860 | |
---|
| 1861 | if (blfile != "") { |
---|
| 1862 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 1863 | if (ofs) outTextFile = true; |
---|
| 1864 | } |
---|
| 1865 | |
---|
| 1866 | if (outLogger || outTextFile) { |
---|
| 1867 | coordInfo = getCoordInfo()[0]; |
---|
| 1868 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 1869 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 1870 | } |
---|
| 1871 | |
---|
| 1872 | Fitter fitter = Fitter(); |
---|
| 1873 | fitter.setExpression("poly", order); |
---|
[2081] | 1874 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2047] | 1875 | |
---|
| 1876 | int nRow = nrow(); |
---|
| 1877 | std::vector<bool> chanMask; |
---|
| 1878 | int minEdgeSize = getIFNos().size()*2; |
---|
| 1879 | STLineFinder lineFinder = STLineFinder(); |
---|
| 1880 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
| 1881 | |
---|
| 1882 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 1883 | |
---|
| 1884 | //------------------------------------------------------- |
---|
| 1885 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 1886 | //------------------------------------------------------- |
---|
| 1887 | int edgeSize = edge.size(); |
---|
| 1888 | std::vector<int> currentEdge; |
---|
| 1889 | if (edgeSize >= 2) { |
---|
| 1890 | int idx = 0; |
---|
| 1891 | if (edgeSize > 2) { |
---|
| 1892 | if (edgeSize < minEdgeSize) { |
---|
| 1893 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 1894 | } |
---|
| 1895 | idx = 2 * getIF(whichrow); |
---|
| 1896 | } |
---|
| 1897 | currentEdge.push_back(edge[idx]); |
---|
| 1898 | currentEdge.push_back(edge[idx+1]); |
---|
| 1899 | } else { |
---|
| 1900 | throw(AipsError("Wrong length of edge element")); |
---|
| 1901 | } |
---|
| 1902 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 1903 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 1904 | chanMask = lineFinder.getMask(); |
---|
| 1905 | //------------------------------------------------------- |
---|
| 1906 | |
---|
| 1907 | fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 1908 | setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2047] | 1909 | |
---|
| 1910 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoPolyBaseline()", fitter); |
---|
| 1911 | } |
---|
| 1912 | |
---|
| 1913 | if (outTextFile) ofs.close(); |
---|
| 1914 | } |
---|
| 1915 | |
---|
[2094] | 1916 | void Scantable::cubicSplineBaseline(const std::vector<bool>& mask, int nPiece, float thresClip, int nIterClip, bool getResidual, bool outLogger, const std::string& blfile) |
---|
[2081] | 1917 | { |
---|
[2012] | 1918 | ofstream ofs; |
---|
[2081] | 1919 | String coordInfo = ""; |
---|
[2047] | 1920 | bool hasSameNchan = true; |
---|
[2012] | 1921 | bool outTextFile = false; |
---|
| 1922 | |
---|
| 1923 | if (blfile != "") { |
---|
| 1924 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 1925 | if (ofs) outTextFile = true; |
---|
| 1926 | } |
---|
| 1927 | |
---|
| 1928 | if (outLogger || outTextFile) { |
---|
| 1929 | coordInfo = getCoordInfo()[0]; |
---|
| 1930 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 1931 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 1932 | } |
---|
| 1933 | |
---|
| 1934 | //Fitter fitter = Fitter(); |
---|
[2047] | 1935 | //fitter.setExpression("cspline", nPiece); |
---|
[2081] | 1936 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 1937 | |
---|
| 1938 | int nRow = nrow(); |
---|
| 1939 | std::vector<bool> chanMask; |
---|
| 1940 | |
---|
| 1941 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 1942 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
[2081] | 1943 | //fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 1944 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2081] | 1945 | std::vector<int> pieceEdges; |
---|
[2012] | 1946 | std::vector<float> params; |
---|
[2094] | 1947 | std::vector<float> res = doCubicSplineFitting(getSpectrum(whichrow), chanMask, nPiece, pieceEdges, params, thresClip, nIterClip, getResidual); |
---|
[2012] | 1948 | setSpectrum(res, whichrow); |
---|
[2047] | 1949 | // |
---|
[2012] | 1950 | |
---|
[2081] | 1951 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "cubicSplineBaseline()", pieceEdges, params); |
---|
[2012] | 1952 | } |
---|
| 1953 | |
---|
| 1954 | if (outTextFile) ofs.close(); |
---|
| 1955 | } |
---|
| 1956 | |
---|
[2094] | 1957 | void Scantable::autoCubicSplineBaseline(const std::vector<bool>& mask, int nPiece, float thresClip, int nIterClip, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, bool outLogger, const std::string& blfile) |
---|
[2012] | 1958 | { |
---|
| 1959 | ofstream ofs; |
---|
[2081] | 1960 | String coordInfo = ""; |
---|
[2047] | 1961 | bool hasSameNchan = true; |
---|
[2012] | 1962 | bool outTextFile = false; |
---|
| 1963 | |
---|
| 1964 | if (blfile != "") { |
---|
| 1965 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 1966 | if (ofs) outTextFile = true; |
---|
| 1967 | } |
---|
| 1968 | |
---|
| 1969 | if (outLogger || outTextFile) { |
---|
| 1970 | coordInfo = getCoordInfo()[0]; |
---|
| 1971 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 1972 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 1973 | } |
---|
| 1974 | |
---|
| 1975 | //Fitter fitter = Fitter(); |
---|
[2047] | 1976 | //fitter.setExpression("cspline", nPiece); |
---|
[2081] | 1977 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 1978 | |
---|
| 1979 | int nRow = nrow(); |
---|
| 1980 | std::vector<bool> chanMask; |
---|
| 1981 | int minEdgeSize = getIFNos().size()*2; |
---|
| 1982 | STLineFinder lineFinder = STLineFinder(); |
---|
| 1983 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
| 1984 | |
---|
| 1985 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 1986 | |
---|
| 1987 | //------------------------------------------------------- |
---|
| 1988 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 1989 | //------------------------------------------------------- |
---|
| 1990 | int edgeSize = edge.size(); |
---|
| 1991 | std::vector<int> currentEdge; |
---|
| 1992 | if (edgeSize >= 2) { |
---|
| 1993 | int idx = 0; |
---|
| 1994 | if (edgeSize > 2) { |
---|
| 1995 | if (edgeSize < minEdgeSize) { |
---|
| 1996 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 1997 | } |
---|
| 1998 | idx = 2 * getIF(whichrow); |
---|
| 1999 | } |
---|
| 2000 | currentEdge.push_back(edge[idx]); |
---|
| 2001 | currentEdge.push_back(edge[idx+1]); |
---|
| 2002 | } else { |
---|
| 2003 | throw(AipsError("Wrong length of edge element")); |
---|
[1907] | 2004 | } |
---|
[2012] | 2005 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 2006 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 2007 | chanMask = lineFinder.getMask(); |
---|
| 2008 | //------------------------------------------------------- |
---|
| 2009 | |
---|
| 2010 | |
---|
[2081] | 2011 | //fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 2012 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2081] | 2013 | std::vector<int> pieceEdges; |
---|
[2012] | 2014 | std::vector<float> params; |
---|
[2094] | 2015 | std::vector<float> res = doCubicSplineFitting(getSpectrum(whichrow), chanMask, nPiece, pieceEdges, params, thresClip, nIterClip, getResidual); |
---|
[2012] | 2016 | setSpectrum(res, whichrow); |
---|
[2047] | 2017 | // |
---|
[2012] | 2018 | |
---|
[2081] | 2019 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoCubicSplineBaseline()", pieceEdges, params); |
---|
[2012] | 2020 | } |
---|
| 2021 | |
---|
| 2022 | if (outTextFile) ofs.close(); |
---|
[1730] | 2023 | } |
---|
[1907] | 2024 | |
---|
[2081] | 2025 | std::vector<float> Scantable::doCubicSplineFitting(const std::vector<float>& data, const std::vector<bool>& mask, int nPiece, std::vector<int>& idxEdge, std::vector<float>& params, float thresClip, int nIterClip, bool getResidual) |
---|
| 2026 | { |
---|
| 2027 | if (data.size() != mask.size()) { |
---|
| 2028 | throw(AipsError("data and mask sizes are not identical")); |
---|
| 2029 | } |
---|
[2012] | 2030 | if (nPiece < 1) { |
---|
[2094] | 2031 | throw(AipsError("number of the sections must be one or more")); |
---|
[2012] | 2032 | } |
---|
| 2033 | |
---|
| 2034 | int nChan = data.size(); |
---|
| 2035 | std::vector<int> maskArray; |
---|
| 2036 | std::vector<int> x; |
---|
| 2037 | for (int i = 0; i < nChan; ++i) { |
---|
| 2038 | maskArray.push_back(mask[i] ? 1 : 0); |
---|
| 2039 | if (mask[i]) { |
---|
| 2040 | x.push_back(i); |
---|
| 2041 | } |
---|
| 2042 | } |
---|
| 2043 | |
---|
[2081] | 2044 | int initNData = x.size(); |
---|
| 2045 | |
---|
| 2046 | int nElement = (int)(floor(floor((double)(initNData/nPiece))+0.5)); |
---|
[2064] | 2047 | std::vector<double> invEdge; |
---|
| 2048 | idxEdge.clear(); |
---|
| 2049 | idxEdge.push_back(x[0]); |
---|
[2012] | 2050 | for (int i = 1; i < nPiece; ++i) { |
---|
[2047] | 2051 | int valX = x[nElement*i]; |
---|
[2064] | 2052 | idxEdge.push_back(valX); |
---|
| 2053 | invEdge.push_back(1.0/(double)valX); |
---|
[2012] | 2054 | } |
---|
[2064] | 2055 | idxEdge.push_back(x[x.size()-1]+1); |
---|
| 2056 | |
---|
[2081] | 2057 | int nData = initNData; |
---|
| 2058 | int nDOF = nPiece + 3; //number of parameters to solve, namely, 4+(nPiece-1). |
---|
| 2059 | |
---|
| 2060 | std::vector<double> x1, x2, x3, z1, x1z1, x2z1, x3z1, r1, residual; |
---|
[2012] | 2061 | for (int i = 0; i < nChan; ++i) { |
---|
[2064] | 2062 | double di = (double)i; |
---|
| 2063 | double dD = (double)data[i]; |
---|
| 2064 | x1.push_back(di); |
---|
| 2065 | x2.push_back(di*di); |
---|
| 2066 | x3.push_back(di*di*di); |
---|
| 2067 | z1.push_back(dD); |
---|
| 2068 | x1z1.push_back(dD*di); |
---|
| 2069 | x2z1.push_back(dD*di*di); |
---|
| 2070 | x3z1.push_back(dD*di*di*di); |
---|
[2012] | 2071 | r1.push_back(0.0); |
---|
[2081] | 2072 | residual.push_back(0.0); |
---|
[2012] | 2073 | } |
---|
| 2074 | |
---|
| 2075 | for (int nClip = 0; nClip < nIterClip+1; ++nClip) { |
---|
[2064] | 2076 | // xMatrix : horizontal concatenation of |
---|
| 2077 | // the least-sq. matrix (left) and an |
---|
| 2078 | // identity matrix (right). |
---|
| 2079 | // the right part is used to calculate the inverse matrix of the left part. |
---|
[2012] | 2080 | double xMatrix[nDOF][2*nDOF]; |
---|
| 2081 | double zMatrix[nDOF]; |
---|
| 2082 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2083 | for (int j = 0; j < 2*nDOF; ++j) { |
---|
| 2084 | xMatrix[i][j] = 0.0; |
---|
| 2085 | } |
---|
| 2086 | xMatrix[i][nDOF+i] = 1.0; |
---|
| 2087 | zMatrix[i] = 0.0; |
---|
| 2088 | } |
---|
| 2089 | |
---|
| 2090 | for (int n = 0; n < nPiece; ++n) { |
---|
[2064] | 2091 | for (int i = idxEdge[n]; i < idxEdge[n+1]; ++i) { |
---|
| 2092 | |
---|
[2012] | 2093 | if (maskArray[i] == 0) continue; |
---|
[2064] | 2094 | |
---|
[2012] | 2095 | xMatrix[0][0] += 1.0; |
---|
[2064] | 2096 | xMatrix[0][1] += x1[i]; |
---|
| 2097 | xMatrix[0][2] += x2[i]; |
---|
| 2098 | xMatrix[0][3] += x3[i]; |
---|
| 2099 | xMatrix[1][1] += x2[i]; |
---|
| 2100 | xMatrix[1][2] += x3[i]; |
---|
| 2101 | xMatrix[1][3] += x2[i]*x2[i]; |
---|
| 2102 | xMatrix[2][2] += x2[i]*x2[i]; |
---|
| 2103 | xMatrix[2][3] += x3[i]*x2[i]; |
---|
| 2104 | xMatrix[3][3] += x3[i]*x3[i]; |
---|
[2012] | 2105 | zMatrix[0] += z1[i]; |
---|
[2064] | 2106 | zMatrix[1] += x1z1[i]; |
---|
| 2107 | zMatrix[2] += x2z1[i]; |
---|
| 2108 | zMatrix[3] += x3z1[i]; |
---|
| 2109 | |
---|
[2012] | 2110 | for (int j = 0; j < n; ++j) { |
---|
[2064] | 2111 | double q = 1.0 - x1[i]*invEdge[j]; |
---|
[2012] | 2112 | q = q*q*q; |
---|
| 2113 | xMatrix[0][j+4] += q; |
---|
[2064] | 2114 | xMatrix[1][j+4] += q*x1[i]; |
---|
| 2115 | xMatrix[2][j+4] += q*x2[i]; |
---|
| 2116 | xMatrix[3][j+4] += q*x3[i]; |
---|
[2012] | 2117 | for (int k = 0; k < j; ++k) { |
---|
[2064] | 2118 | double r = 1.0 - x1[i]*invEdge[k]; |
---|
[2012] | 2119 | r = r*r*r; |
---|
| 2120 | xMatrix[k+4][j+4] += r*q; |
---|
| 2121 | } |
---|
| 2122 | xMatrix[j+4][j+4] += q*q; |
---|
| 2123 | zMatrix[j+4] += q*z1[i]; |
---|
| 2124 | } |
---|
[2064] | 2125 | |
---|
[2012] | 2126 | } |
---|
| 2127 | } |
---|
| 2128 | |
---|
| 2129 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2130 | for (int j = 0; j < i; ++j) { |
---|
| 2131 | xMatrix[i][j] = xMatrix[j][i]; |
---|
| 2132 | } |
---|
| 2133 | } |
---|
| 2134 | |
---|
| 2135 | std::vector<double> invDiag; |
---|
| 2136 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2137 | invDiag.push_back(1.0/xMatrix[i][i]); |
---|
| 2138 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2139 | xMatrix[i][j] *= invDiag[i]; |
---|
| 2140 | } |
---|
| 2141 | } |
---|
| 2142 | |
---|
| 2143 | for (int k = 0; k < nDOF; ++k) { |
---|
| 2144 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2145 | if (i != k) { |
---|
| 2146 | double factor1 = xMatrix[k][k]; |
---|
| 2147 | double factor2 = xMatrix[i][k]; |
---|
| 2148 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2149 | xMatrix[i][j] *= factor1; |
---|
| 2150 | xMatrix[i][j] -= xMatrix[k][j]*factor2; |
---|
| 2151 | xMatrix[i][j] /= factor1; |
---|
| 2152 | } |
---|
| 2153 | } |
---|
| 2154 | } |
---|
| 2155 | double xDiag = xMatrix[k][k]; |
---|
| 2156 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2157 | xMatrix[k][j] /= xDiag; |
---|
| 2158 | } |
---|
| 2159 | } |
---|
| 2160 | |
---|
| 2161 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2162 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2163 | xMatrix[i][nDOF+j] *= invDiag[j]; |
---|
| 2164 | } |
---|
| 2165 | } |
---|
| 2166 | //compute a vector y which consists of the coefficients of the best-fit spline curves |
---|
| 2167 | //(a0,a1,a2,a3(,b3,c3,...)), namely, the ones for the leftmost piece and the ones of |
---|
| 2168 | //cubic terms for the other pieces (in case nPiece>1). |
---|
| 2169 | std::vector<double> y; |
---|
[2058] | 2170 | y.clear(); |
---|
[2012] | 2171 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2172 | y.push_back(0.0); |
---|
| 2173 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2174 | y[i] += xMatrix[i][nDOF+j]*zMatrix[j]; |
---|
| 2175 | } |
---|
| 2176 | } |
---|
| 2177 | |
---|
| 2178 | double a0 = y[0]; |
---|
| 2179 | double a1 = y[1]; |
---|
| 2180 | double a2 = y[2]; |
---|
| 2181 | double a3 = y[3]; |
---|
| 2182 | params.clear(); |
---|
| 2183 | |
---|
| 2184 | for (int n = 0; n < nPiece; ++n) { |
---|
[2064] | 2185 | for (int i = idxEdge[n]; i < idxEdge[n+1]; ++i) { |
---|
| 2186 | r1[i] = a0 + a1*x1[i] + a2*x2[i] + a3*x3[i]; |
---|
[2081] | 2187 | residual[i] = z1[i] - r1[i]; |
---|
[2012] | 2188 | } |
---|
| 2189 | params.push_back(a0); |
---|
| 2190 | params.push_back(a1); |
---|
| 2191 | params.push_back(a2); |
---|
| 2192 | params.push_back(a3); |
---|
| 2193 | |
---|
| 2194 | if (n == nPiece-1) break; |
---|
| 2195 | |
---|
| 2196 | double d = y[4+n]; |
---|
[2064] | 2197 | double iE = invEdge[n]; |
---|
| 2198 | a0 += d; |
---|
| 2199 | a1 -= 3.0*d*iE; |
---|
| 2200 | a2 += 3.0*d*iE*iE; |
---|
| 2201 | a3 -= d*iE*iE*iE; |
---|
[2012] | 2202 | } |
---|
| 2203 | |
---|
| 2204 | if ((nClip == nIterClip) || (thresClip <= 0.0)) { |
---|
| 2205 | break; |
---|
| 2206 | } else { |
---|
| 2207 | double stdDev = 0.0; |
---|
| 2208 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2209 | stdDev += residual[i]*residual[i]*(double)maskArray[i]; |
---|
[2012] | 2210 | } |
---|
| 2211 | stdDev = sqrt(stdDev/(double)nData); |
---|
| 2212 | |
---|
| 2213 | double thres = stdDev * thresClip; |
---|
| 2214 | int newNData = 0; |
---|
| 2215 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2216 | if (abs(residual[i]) >= thres) { |
---|
[2012] | 2217 | maskArray[i] = 0; |
---|
| 2218 | } |
---|
| 2219 | if (maskArray[i] > 0) { |
---|
| 2220 | newNData++; |
---|
| 2221 | } |
---|
| 2222 | } |
---|
[2081] | 2223 | if (newNData == nData) { |
---|
[2064] | 2224 | break; //no more flag to add. iteration stops. |
---|
[2012] | 2225 | } else { |
---|
[2081] | 2226 | nData = newNData; |
---|
[2012] | 2227 | } |
---|
| 2228 | } |
---|
| 2229 | } |
---|
| 2230 | |
---|
[2058] | 2231 | std::vector<float> result; |
---|
| 2232 | if (getResidual) { |
---|
| 2233 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2234 | result.push_back((float)residual[i]); |
---|
[2058] | 2235 | } |
---|
| 2236 | } else { |
---|
| 2237 | for (int i = 0; i < nChan; ++i) { |
---|
| 2238 | result.push_back((float)r1[i]); |
---|
| 2239 | } |
---|
[2012] | 2240 | } |
---|
| 2241 | |
---|
[2058] | 2242 | return result; |
---|
[2012] | 2243 | } |
---|
| 2244 | |
---|
[2081] | 2245 | void Scantable::sinusoidBaseline(const std::vector<bool>& mask, const std::vector<int>& nWaves, float maxWaveLength, float thresClip, int nIterClip, bool getResidual, bool outLogger, const std::string& blfile) |
---|
| 2246 | { |
---|
[2012] | 2247 | ofstream ofs; |
---|
[2081] | 2248 | String coordInfo = ""; |
---|
[2047] | 2249 | bool hasSameNchan = true; |
---|
[2012] | 2250 | bool outTextFile = false; |
---|
| 2251 | |
---|
| 2252 | if (blfile != "") { |
---|
| 2253 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 2254 | if (ofs) outTextFile = true; |
---|
| 2255 | } |
---|
| 2256 | |
---|
| 2257 | if (outLogger || outTextFile) { |
---|
| 2258 | coordInfo = getCoordInfo()[0]; |
---|
| 2259 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2260 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2261 | } |
---|
| 2262 | |
---|
[2047] | 2263 | //Fitter fitter = Fitter(); |
---|
[2081] | 2264 | //fitter.setExpression("sinusoid", nWaves); |
---|
| 2265 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 2266 | |
---|
| 2267 | int nRow = nrow(); |
---|
| 2268 | std::vector<bool> chanMask; |
---|
| 2269 | |
---|
| 2270 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 2271 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
[2081] | 2272 | //fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 2273 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2047] | 2274 | std::vector<float> params; |
---|
[2081] | 2275 | std::vector<float> res = doSinusoidFitting(getSpectrum(whichrow), chanMask, nWaves, maxWaveLength, params, thresClip, nIterClip, getResidual); |
---|
[2047] | 2276 | setSpectrum(res, whichrow); |
---|
| 2277 | // |
---|
[2012] | 2278 | |
---|
[2081] | 2279 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "sinusoidBaseline()", params); |
---|
[1931] | 2280 | } |
---|
[2012] | 2281 | |
---|
| 2282 | if (outTextFile) ofs.close(); |
---|
[1907] | 2283 | } |
---|
| 2284 | |
---|
[2081] | 2285 | void Scantable::autoSinusoidBaseline(const std::vector<bool>& mask, const std::vector<int>& nWaves, float maxWaveLength, float thresClip, int nIterClip, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, bool outLogger, const std::string& blfile) |
---|
[2012] | 2286 | { |
---|
| 2287 | ofstream ofs; |
---|
[2081] | 2288 | String coordInfo = ""; |
---|
[2047] | 2289 | bool hasSameNchan = true; |
---|
[2012] | 2290 | bool outTextFile = false; |
---|
| 2291 | |
---|
| 2292 | if (blfile != "") { |
---|
| 2293 | ofs.open(blfile.c_str(), ios::out | ios::app); |
---|
| 2294 | if (ofs) outTextFile = true; |
---|
| 2295 | } |
---|
| 2296 | |
---|
| 2297 | if (outLogger || outTextFile) { |
---|
| 2298 | coordInfo = getCoordInfo()[0]; |
---|
| 2299 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2300 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2301 | } |
---|
| 2302 | |
---|
[2047] | 2303 | //Fitter fitter = Fitter(); |
---|
[2081] | 2304 | //fitter.setExpression("sinusoid", nWaves); |
---|
| 2305 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 2306 | |
---|
| 2307 | int nRow = nrow(); |
---|
| 2308 | std::vector<bool> chanMask; |
---|
| 2309 | int minEdgeSize = getIFNos().size()*2; |
---|
| 2310 | STLineFinder lineFinder = STLineFinder(); |
---|
| 2311 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
| 2312 | |
---|
| 2313 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 2314 | |
---|
| 2315 | //------------------------------------------------------- |
---|
| 2316 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 2317 | //------------------------------------------------------- |
---|
| 2318 | int edgeSize = edge.size(); |
---|
| 2319 | std::vector<int> currentEdge; |
---|
| 2320 | if (edgeSize >= 2) { |
---|
| 2321 | int idx = 0; |
---|
| 2322 | if (edgeSize > 2) { |
---|
| 2323 | if (edgeSize < minEdgeSize) { |
---|
| 2324 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 2325 | } |
---|
| 2326 | idx = 2 * getIF(whichrow); |
---|
| 2327 | } |
---|
| 2328 | currentEdge.push_back(edge[idx]); |
---|
| 2329 | currentEdge.push_back(edge[idx+1]); |
---|
| 2330 | } else { |
---|
| 2331 | throw(AipsError("Wrong length of edge element")); |
---|
| 2332 | } |
---|
| 2333 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 2334 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 2335 | chanMask = lineFinder.getMask(); |
---|
| 2336 | //------------------------------------------------------- |
---|
| 2337 | |
---|
| 2338 | |
---|
[2081] | 2339 | //fitBaseline(chanMask, whichrow, fitter); |
---|
[2094] | 2340 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2047] | 2341 | std::vector<float> params; |
---|
[2081] | 2342 | std::vector<float> res = doSinusoidFitting(getSpectrum(whichrow), chanMask, nWaves, maxWaveLength, params, thresClip, nIterClip, getResidual); |
---|
[2047] | 2343 | setSpectrum(res, whichrow); |
---|
| 2344 | // |
---|
[2012] | 2345 | |
---|
[2081] | 2346 | outputFittingResult(outLogger, outTextFile, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoSinusoidBaseline()", params); |
---|
[2047] | 2347 | } |
---|
[2012] | 2348 | |
---|
[2047] | 2349 | if (outTextFile) ofs.close(); |
---|
| 2350 | } |
---|
| 2351 | |
---|
[2081] | 2352 | std::vector<float> Scantable::doSinusoidFitting(const std::vector<float>& data, const std::vector<bool>& mask, const std::vector<int>& waveNumbers, float maxWaveLength, std::vector<float>& params, float thresClip, int nIterClip, bool getResidual) |
---|
| 2353 | { |
---|
[2047] | 2354 | if (data.size() != mask.size()) { |
---|
[2081] | 2355 | throw(AipsError("data and mask sizes are not identical")); |
---|
[2047] | 2356 | } |
---|
[2081] | 2357 | if (data.size() < 2) { |
---|
| 2358 | throw(AipsError("data size is too short")); |
---|
| 2359 | } |
---|
| 2360 | if (waveNumbers.size() == 0) { |
---|
| 2361 | throw(AipsError("missing wave number info")); |
---|
| 2362 | } |
---|
| 2363 | std::vector<int> nWaves; // sorted and uniqued array of wave numbers |
---|
| 2364 | nWaves.reserve(waveNumbers.size()); |
---|
| 2365 | copy(waveNumbers.begin(), waveNumbers.end(), back_inserter(nWaves)); |
---|
| 2366 | sort(nWaves.begin(), nWaves.end()); |
---|
| 2367 | std::vector<int>::iterator end_it = unique(nWaves.begin(), nWaves.end()); |
---|
| 2368 | nWaves.erase(end_it, nWaves.end()); |
---|
| 2369 | |
---|
| 2370 | int minNWaves = nWaves[0]; |
---|
| 2371 | if (minNWaves < 0) { |
---|
[2058] | 2372 | throw(AipsError("wave number must be positive or zero (i.e. constant)")); |
---|
| 2373 | } |
---|
[2081] | 2374 | bool hasConstantTerm = (minNWaves == 0); |
---|
[2047] | 2375 | |
---|
| 2376 | int nChan = data.size(); |
---|
| 2377 | std::vector<int> maskArray; |
---|
| 2378 | std::vector<int> x; |
---|
| 2379 | for (int i = 0; i < nChan; ++i) { |
---|
| 2380 | maskArray.push_back(mask[i] ? 1 : 0); |
---|
| 2381 | if (mask[i]) { |
---|
| 2382 | x.push_back(i); |
---|
| 2383 | } |
---|
| 2384 | } |
---|
| 2385 | |
---|
[2081] | 2386 | int initNData = x.size(); |
---|
[2047] | 2387 | |
---|
[2081] | 2388 | int nData = initNData; |
---|
| 2389 | int nDOF = nWaves.size() * 2 - (hasConstantTerm ? 1 : 0); //number of parameters to solve. |
---|
| 2390 | |
---|
| 2391 | const double PI = 6.0 * asin(0.5); // PI (= 3.141592653...) |
---|
[2094] | 2392 | double baseXFactor = 2.0*PI/(double)maxWaveLength/(double)(nChan-1); //the denominator (nChan-1) should be changed to (xdata[nChan-1]-xdata[0]) for accepting x-values given in velocity or frequency when this function is moved to fitter. (2011/03/30 WK) |
---|
[2081] | 2393 | |
---|
| 2394 | // xArray : contains elemental values for computing the least-square matrix. |
---|
| 2395 | // xArray.size() is nDOF and xArray[*].size() is nChan. |
---|
| 2396 | // Each xArray element are as follows: |
---|
| 2397 | // xArray[0] = {1.0, 1.0, 1.0, ..., 1.0}, |
---|
| 2398 | // xArray[2n-1] = {sin(nPI/L*x[0]), sin(nPI/L*x[1]), ..., sin(nPI/L*x[nChan])}, |
---|
| 2399 | // xArray[2n] = {cos(nPI/L*x[0]), cos(nPI/L*x[1]), ..., cos(nPI/L*x[nChan])}, |
---|
| 2400 | // where (1 <= n <= nMaxWavesInSW), |
---|
| 2401 | // or, |
---|
| 2402 | // xArray[2n-1] = {sin(wn[n]PI/L*x[0]), sin(wn[n]PI/L*x[1]), ..., sin(wn[n]PI/L*x[nChan])}, |
---|
| 2403 | // xArray[2n] = {cos(wn[n]PI/L*x[0]), cos(wn[n]PI/L*x[1]), ..., cos(wn[n]PI/L*x[nChan])}, |
---|
| 2404 | // where wn[n] denotes waveNumbers[n] (1 <= n <= waveNumbers.size()). |
---|
| 2405 | std::vector<std::vector<double> > xArray; |
---|
| 2406 | if (hasConstantTerm) { |
---|
| 2407 | std::vector<double> xu; |
---|
| 2408 | for (int j = 0; j < nChan; ++j) { |
---|
| 2409 | xu.push_back(1.0); |
---|
| 2410 | } |
---|
| 2411 | xArray.push_back(xu); |
---|
| 2412 | } |
---|
| 2413 | for (uInt i = (hasConstantTerm ? 1 : 0); i < nWaves.size(); ++i) { |
---|
| 2414 | double xFactor = baseXFactor*(double)nWaves[i]; |
---|
| 2415 | std::vector<double> xs, xc; |
---|
| 2416 | xs.clear(); |
---|
| 2417 | xc.clear(); |
---|
| 2418 | for (int j = 0; j < nChan; ++j) { |
---|
| 2419 | xs.push_back(sin(xFactor*(double)j)); |
---|
| 2420 | xc.push_back(cos(xFactor*(double)j)); |
---|
| 2421 | } |
---|
| 2422 | xArray.push_back(xs); |
---|
| 2423 | xArray.push_back(xc); |
---|
| 2424 | } |
---|
| 2425 | |
---|
| 2426 | std::vector<double> z1, r1, residual; |
---|
[2047] | 2427 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2428 | z1.push_back((double)data[i]); |
---|
[2047] | 2429 | r1.push_back(0.0); |
---|
[2081] | 2430 | residual.push_back(0.0); |
---|
[2047] | 2431 | } |
---|
| 2432 | |
---|
| 2433 | for (int nClip = 0; nClip < nIterClip+1; ++nClip) { |
---|
[2081] | 2434 | // xMatrix : horizontal concatenation of |
---|
| 2435 | // the least-sq. matrix (left) and an |
---|
| 2436 | // identity matrix (right). |
---|
| 2437 | // the right part is used to calculate the inverse matrix of the left part. |
---|
[2047] | 2438 | double xMatrix[nDOF][2*nDOF]; |
---|
| 2439 | double zMatrix[nDOF]; |
---|
| 2440 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2441 | for (int j = 0; j < 2*nDOF; ++j) { |
---|
| 2442 | xMatrix[i][j] = 0.0; |
---|
[2012] | 2443 | } |
---|
[2047] | 2444 | xMatrix[i][nDOF+i] = 1.0; |
---|
| 2445 | zMatrix[i] = 0.0; |
---|
| 2446 | } |
---|
| 2447 | |
---|
[2081] | 2448 | for (int k = 0; k < nChan; ++k) { |
---|
| 2449 | if (maskArray[k] == 0) continue; |
---|
| 2450 | |
---|
| 2451 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2452 | for (int j = i; j < nDOF; ++j) { |
---|
| 2453 | xMatrix[i][j] += xArray[i][k] * xArray[j][k]; |
---|
| 2454 | } |
---|
| 2455 | zMatrix[i] += z1[k] * xArray[i][k]; |
---|
| 2456 | } |
---|
[2047] | 2457 | } |
---|
| 2458 | |
---|
| 2459 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2460 | for (int j = 0; j < i; ++j) { |
---|
| 2461 | xMatrix[i][j] = xMatrix[j][i]; |
---|
[2012] | 2462 | } |
---|
| 2463 | } |
---|
| 2464 | |
---|
[2047] | 2465 | std::vector<double> invDiag; |
---|
| 2466 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2467 | invDiag.push_back(1.0/xMatrix[i][i]); |
---|
| 2468 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2469 | xMatrix[i][j] *= invDiag[i]; |
---|
| 2470 | } |
---|
| 2471 | } |
---|
| 2472 | |
---|
| 2473 | for (int k = 0; k < nDOF; ++k) { |
---|
| 2474 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2475 | if (i != k) { |
---|
| 2476 | double factor1 = xMatrix[k][k]; |
---|
| 2477 | double factor2 = xMatrix[i][k]; |
---|
| 2478 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2479 | xMatrix[i][j] *= factor1; |
---|
| 2480 | xMatrix[i][j] -= xMatrix[k][j]*factor2; |
---|
| 2481 | xMatrix[i][j] /= factor1; |
---|
| 2482 | } |
---|
| 2483 | } |
---|
| 2484 | } |
---|
| 2485 | double xDiag = xMatrix[k][k]; |
---|
| 2486 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2487 | xMatrix[k][j] /= xDiag; |
---|
| 2488 | } |
---|
| 2489 | } |
---|
| 2490 | |
---|
| 2491 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2492 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2493 | xMatrix[i][nDOF+j] *= invDiag[j]; |
---|
| 2494 | } |
---|
| 2495 | } |
---|
| 2496 | //compute a vector y which consists of the coefficients of the sinusoids forming the |
---|
[2081] | 2497 | //best-fit curves (a0,s1,c1,s2,c2,...), where a0 is constant and s* and c* are of sine |
---|
| 2498 | //and cosine functions, respectively. |
---|
[2047] | 2499 | std::vector<double> y; |
---|
[2081] | 2500 | params.clear(); |
---|
[2047] | 2501 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2502 | y.push_back(0.0); |
---|
| 2503 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2504 | y[i] += xMatrix[i][nDOF+j]*zMatrix[j]; |
---|
| 2505 | } |
---|
[2081] | 2506 | params.push_back(y[i]); |
---|
[2047] | 2507 | } |
---|
| 2508 | |
---|
| 2509 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2510 | r1[i] = y[0]; |
---|
| 2511 | for (int j = 1; j < nDOF; ++j) { |
---|
| 2512 | r1[i] += y[j]*xArray[j][i]; |
---|
| 2513 | } |
---|
| 2514 | residual[i] = z1[i] - r1[i]; |
---|
[2047] | 2515 | } |
---|
| 2516 | |
---|
| 2517 | if ((nClip == nIterClip) || (thresClip <= 0.0)) { |
---|
| 2518 | break; |
---|
| 2519 | } else { |
---|
| 2520 | double stdDev = 0.0; |
---|
| 2521 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2522 | stdDev += residual[i]*residual[i]*(double)maskArray[i]; |
---|
[2047] | 2523 | } |
---|
| 2524 | stdDev = sqrt(stdDev/(double)nData); |
---|
| 2525 | |
---|
| 2526 | double thres = stdDev * thresClip; |
---|
| 2527 | int newNData = 0; |
---|
| 2528 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2529 | if (abs(residual[i]) >= thres) { |
---|
[2047] | 2530 | maskArray[i] = 0; |
---|
| 2531 | } |
---|
| 2532 | if (maskArray[i] > 0) { |
---|
| 2533 | newNData++; |
---|
| 2534 | } |
---|
| 2535 | } |
---|
[2081] | 2536 | if (newNData == nData) { |
---|
| 2537 | break; //no more flag to add. iteration stops. |
---|
[2047] | 2538 | } else { |
---|
[2081] | 2539 | nData = newNData; |
---|
[2047] | 2540 | } |
---|
| 2541 | } |
---|
[2012] | 2542 | } |
---|
| 2543 | |
---|
[2058] | 2544 | std::vector<float> result; |
---|
| 2545 | if (getResidual) { |
---|
| 2546 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 2547 | result.push_back((float)residual[i]); |
---|
[2058] | 2548 | } |
---|
| 2549 | } else { |
---|
| 2550 | for (int i = 0; i < nChan; ++i) { |
---|
| 2551 | result.push_back((float)r1[i]); |
---|
| 2552 | } |
---|
[2047] | 2553 | } |
---|
| 2554 | |
---|
[2058] | 2555 | return result; |
---|
[2012] | 2556 | } |
---|
| 2557 | |
---|
[2047] | 2558 | void Scantable::fitBaseline(const std::vector<bool>& mask, int whichrow, Fitter& fitter) |
---|
| 2559 | { |
---|
[2081] | 2560 | std::vector<double> dAbcissa = getAbcissa(whichrow); |
---|
| 2561 | std::vector<float> abcissa; |
---|
| 2562 | for (uInt i = 0; i < dAbcissa.size(); ++i) { |
---|
| 2563 | abcissa.push_back((float)dAbcissa[i]); |
---|
[2047] | 2564 | } |
---|
| 2565 | std::vector<float> spec = getSpectrum(whichrow); |
---|
[2012] | 2566 | |
---|
[2081] | 2567 | fitter.setData(abcissa, spec, mask); |
---|
[2047] | 2568 | fitter.lfit(); |
---|
| 2569 | } |
---|
| 2570 | |
---|
| 2571 | std::vector<bool> Scantable::getCompositeChanMask(int whichrow, const std::vector<bool>& inMask) |
---|
| 2572 | { |
---|
| 2573 | std::vector<bool> chanMask = getMask(whichrow); |
---|
| 2574 | uInt chanMaskSize = chanMask.size(); |
---|
| 2575 | if (chanMaskSize != inMask.size()) { |
---|
| 2576 | throw(AipsError("different mask sizes")); |
---|
| 2577 | } |
---|
| 2578 | for (uInt i = 0; i < chanMaskSize; ++i) { |
---|
| 2579 | chanMask[i] = chanMask[i] && inMask[i]; |
---|
| 2580 | } |
---|
| 2581 | |
---|
| 2582 | return chanMask; |
---|
| 2583 | } |
---|
| 2584 | |
---|
| 2585 | /* |
---|
| 2586 | std::vector<bool> Scantable::getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, const int minEdgeSize, STLineFinder& lineFinder) |
---|
| 2587 | { |
---|
| 2588 | int edgeSize = edge.size(); |
---|
| 2589 | std::vector<int> currentEdge; |
---|
| 2590 | if (edgeSize >= 2) { |
---|
| 2591 | int idx = 0; |
---|
| 2592 | if (edgeSize > 2) { |
---|
| 2593 | if (edgeSize < minEdgeSize) { |
---|
| 2594 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 2595 | } |
---|
| 2596 | idx = 2 * getIF(whichrow); |
---|
| 2597 | } |
---|
| 2598 | currentEdge.push_back(edge[idx]); |
---|
| 2599 | currentEdge.push_back(edge[idx+1]); |
---|
| 2600 | } else { |
---|
| 2601 | throw(AipsError("Wrong length of edge element")); |
---|
| 2602 | } |
---|
| 2603 | |
---|
| 2604 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 2605 | lineFinder.findLines(getCompositeChanMask(whichrow, inMask), currentEdge, whichrow); |
---|
| 2606 | |
---|
| 2607 | return lineFinder.getMask(); |
---|
| 2608 | } |
---|
| 2609 | */ |
---|
| 2610 | |
---|
| 2611 | /* for poly. the variations of outputFittingResult() should be merged into one eventually (2011/3/10 WK) */ |
---|
| 2612 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, Fitter& fitter) { |
---|
| 2613 | if (outLogger || outTextFile) { |
---|
| 2614 | std::vector<float> params = fitter.getParameters(); |
---|
| 2615 | std::vector<bool> fixed = fitter.getFixedParameters(); |
---|
| 2616 | float rms = getRms(chanMask, whichrow); |
---|
| 2617 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
| 2618 | |
---|
| 2619 | if (outLogger) { |
---|
| 2620 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
| 2621 | ols << formatBaselineParams(params, fixed, rms, masklist, whichrow, false) << LogIO::POST ; |
---|
| 2622 | } |
---|
| 2623 | if (outTextFile) { |
---|
| 2624 | ofs << formatBaselineParams(params, fixed, rms, masklist, whichrow, true) << flush; |
---|
| 2625 | } |
---|
| 2626 | } |
---|
| 2627 | } |
---|
| 2628 | |
---|
| 2629 | /* for cspline. will be merged once cspline is available in fitter (2011/3/10 WK) */ |
---|
[2081] | 2630 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, const std::vector<int>& edge, const std::vector<float>& params) { |
---|
[2047] | 2631 | if (outLogger || outTextFile) { |
---|
| 2632 | float rms = getRms(chanMask, whichrow); |
---|
| 2633 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
[2081] | 2634 | std::vector<bool> fixed; |
---|
| 2635 | fixed.clear(); |
---|
[2047] | 2636 | |
---|
| 2637 | if (outLogger) { |
---|
| 2638 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
[2064] | 2639 | ols << formatPiecewiseBaselineParams(edge, params, fixed, rms, masklist, whichrow, false) << LogIO::POST ; |
---|
[2047] | 2640 | } |
---|
| 2641 | if (outTextFile) { |
---|
[2064] | 2642 | ofs << formatPiecewiseBaselineParams(edge, params, fixed, rms, masklist, whichrow, true) << flush; |
---|
[2047] | 2643 | } |
---|
| 2644 | } |
---|
| 2645 | } |
---|
| 2646 | |
---|
| 2647 | /* for sinusoid. will be merged once sinusoid is available in fitter (2011/3/10 WK) */ |
---|
[2081] | 2648 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, const std::vector<float>& params) { |
---|
[2047] | 2649 | if (outLogger || outTextFile) { |
---|
| 2650 | float rms = getRms(chanMask, whichrow); |
---|
| 2651 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
[2081] | 2652 | std::vector<bool> fixed; |
---|
| 2653 | fixed.clear(); |
---|
[2047] | 2654 | |
---|
| 2655 | if (outLogger) { |
---|
| 2656 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
| 2657 | ols << formatBaselineParams(params, fixed, rms, masklist, whichrow, false) << LogIO::POST ; |
---|
| 2658 | } |
---|
| 2659 | if (outTextFile) { |
---|
| 2660 | ofs << formatBaselineParams(params, fixed, rms, masklist, whichrow, true) << flush; |
---|
| 2661 | } |
---|
| 2662 | } |
---|
| 2663 | } |
---|
| 2664 | |
---|
[2012] | 2665 | float Scantable::getRms(const std::vector<bool>& mask, int whichrow) { |
---|
| 2666 | Vector<Float> spec; |
---|
| 2667 | specCol_.get(whichrow, spec); |
---|
| 2668 | |
---|
| 2669 | float mean = 0.0; |
---|
| 2670 | float smean = 0.0; |
---|
| 2671 | int n = 0; |
---|
[2047] | 2672 | for (uInt i = 0; i < spec.nelements(); ++i) { |
---|
[2012] | 2673 | if (mask[i]) { |
---|
| 2674 | mean += spec[i]; |
---|
| 2675 | smean += spec[i]*spec[i]; |
---|
| 2676 | n++; |
---|
| 2677 | } |
---|
| 2678 | } |
---|
| 2679 | |
---|
| 2680 | mean /= (float)n; |
---|
| 2681 | smean /= (float)n; |
---|
| 2682 | |
---|
| 2683 | return sqrt(smean - mean*mean); |
---|
| 2684 | } |
---|
| 2685 | |
---|
| 2686 | |
---|
[2163] | 2687 | std::string Scantable::formatBaselineParamsHeader(int whichrow, |
---|
| 2688 | const std::string& masklist, |
---|
| 2689 | bool verbose) const |
---|
[2012] | 2690 | { |
---|
| 2691 | ostringstream oss; |
---|
| 2692 | |
---|
| 2693 | if (verbose) { |
---|
| 2694 | oss << " Scan[" << getScan(whichrow) << "]"; |
---|
| 2695 | oss << " Beam[" << getBeam(whichrow) << "]"; |
---|
| 2696 | oss << " IF[" << getIF(whichrow) << "]"; |
---|
| 2697 | oss << " Pol[" << getPol(whichrow) << "]"; |
---|
| 2698 | oss << " Cycle[" << getCycle(whichrow) << "]: " << endl; |
---|
| 2699 | oss << "Fitter range = " << masklist << endl; |
---|
| 2700 | oss << "Baseline parameters" << endl; |
---|
| 2701 | oss << flush; |
---|
| 2702 | } |
---|
| 2703 | |
---|
| 2704 | return String(oss); |
---|
| 2705 | } |
---|
| 2706 | |
---|
| 2707 | std::string Scantable::formatBaselineParamsFooter(float rms, bool verbose) const |
---|
| 2708 | { |
---|
| 2709 | ostringstream oss; |
---|
| 2710 | |
---|
| 2711 | if (verbose) { |
---|
| 2712 | oss << "Results of baseline fit" << endl; |
---|
| 2713 | oss << " rms = " << setprecision(6) << rms << endl; |
---|
[2094] | 2714 | for (int i = 0; i < 60; ++i) { |
---|
| 2715 | oss << "-"; |
---|
| 2716 | } |
---|
[2131] | 2717 | oss << endl; |
---|
[2094] | 2718 | oss << flush; |
---|
[2012] | 2719 | } |
---|
| 2720 | |
---|
| 2721 | return String(oss); |
---|
| 2722 | } |
---|
| 2723 | |
---|
[2163] | 2724 | std::string Scantable::formatBaselineParams(const std::vector<float>& params, |
---|
| 2725 | const std::vector<bool>& fixed, |
---|
| 2726 | float rms, |
---|
| 2727 | const std::string& masklist, |
---|
| 2728 | int whichrow, |
---|
| 2729 | bool verbose, |
---|
| 2730 | int start, int count, |
---|
| 2731 | bool resetparamid) const |
---|
[2047] | 2732 | { |
---|
[2064] | 2733 | int nParam = (int)(params.size()); |
---|
[2047] | 2734 | |
---|
[2064] | 2735 | if (nParam < 1) { |
---|
| 2736 | return(" Not fitted"); |
---|
| 2737 | } else { |
---|
| 2738 | |
---|
| 2739 | ostringstream oss; |
---|
| 2740 | oss << formatBaselineParamsHeader(whichrow, masklist, verbose); |
---|
| 2741 | |
---|
| 2742 | if (start < 0) start = 0; |
---|
| 2743 | if (count < 0) count = nParam; |
---|
| 2744 | int end = start + count; |
---|
| 2745 | if (end > nParam) end = nParam; |
---|
| 2746 | int paramidoffset = (resetparamid) ? (-start) : 0; |
---|
| 2747 | |
---|
| 2748 | for (int i = start; i < end; ++i) { |
---|
| 2749 | if (i > start) { |
---|
[2047] | 2750 | oss << ","; |
---|
| 2751 | } |
---|
[2064] | 2752 | std::string sFix = ((fixed.size() > 0) && (fixed[i]) && verbose) ? "(fixed)" : ""; |
---|
| 2753 | oss << " p" << (i+paramidoffset) << sFix << "= " << right << setw(13) << setprecision(6) << params[i]; |
---|
[2047] | 2754 | } |
---|
[2064] | 2755 | |
---|
| 2756 | oss << endl; |
---|
| 2757 | oss << formatBaselineParamsFooter(rms, verbose); |
---|
| 2758 | |
---|
| 2759 | return String(oss); |
---|
[2047] | 2760 | } |
---|
| 2761 | |
---|
| 2762 | } |
---|
| 2763 | |
---|
[2012] | 2764 | std::string Scantable::formatPiecewiseBaselineParams(const std::vector<int>& ranges, const std::vector<float>& params, const std::vector<bool>& fixed, float rms, const std::string& masklist, int whichrow, bool verbose) const |
---|
| 2765 | { |
---|
[2064] | 2766 | int nOutParam = (int)(params.size()); |
---|
| 2767 | int nPiece = (int)(ranges.size()) - 1; |
---|
[2012] | 2768 | |
---|
[2064] | 2769 | if (nOutParam < 1) { |
---|
| 2770 | return(" Not fitted"); |
---|
| 2771 | } else if (nPiece < 0) { |
---|
| 2772 | return formatBaselineParams(params, fixed, rms, masklist, whichrow, verbose); |
---|
| 2773 | } else if (nPiece < 1) { |
---|
| 2774 | return(" Bad count of the piece edge info"); |
---|
| 2775 | } else if (nOutParam % nPiece != 0) { |
---|
| 2776 | return(" Bad count of the output baseline parameters"); |
---|
| 2777 | } else { |
---|
| 2778 | |
---|
| 2779 | int nParam = nOutParam / nPiece; |
---|
| 2780 | |
---|
| 2781 | ostringstream oss; |
---|
| 2782 | oss << formatBaselineParamsHeader(whichrow, masklist, verbose); |
---|
| 2783 | |
---|
| 2784 | stringstream ss; |
---|
| 2785 | ss << ranges[nPiece] << flush; |
---|
| 2786 | int wRange = ss.str().size() * 2 + 5; |
---|
| 2787 | |
---|
| 2788 | for (int i = 0; i < nPiece; ++i) { |
---|
[2047] | 2789 | ss.str(""); |
---|
[2064] | 2790 | ss << " [" << ranges[i] << "," << (ranges[i+1]-1) << "]"; |
---|
| 2791 | oss << left << setw(wRange) << ss.str(); |
---|
| 2792 | oss << formatBaselineParams(params, fixed, rms, masklist, whichrow, false, i*nParam, nParam, true); |
---|
[2012] | 2793 | } |
---|
[2064] | 2794 | |
---|
| 2795 | oss << formatBaselineParamsFooter(rms, verbose); |
---|
| 2796 | |
---|
| 2797 | return String(oss); |
---|
[2012] | 2798 | } |
---|
| 2799 | |
---|
| 2800 | } |
---|
| 2801 | |
---|
[2047] | 2802 | bool Scantable::hasSameNchanOverIFs() |
---|
[2012] | 2803 | { |
---|
[2047] | 2804 | int nIF = nif(-1); |
---|
| 2805 | int nCh; |
---|
| 2806 | int totalPositiveNChan = 0; |
---|
| 2807 | int nPositiveNChan = 0; |
---|
[2012] | 2808 | |
---|
[2047] | 2809 | for (int i = 0; i < nIF; ++i) { |
---|
| 2810 | nCh = nchan(i); |
---|
| 2811 | if (nCh > 0) { |
---|
| 2812 | totalPositiveNChan += nCh; |
---|
| 2813 | nPositiveNChan++; |
---|
[2012] | 2814 | } |
---|
| 2815 | } |
---|
| 2816 | |
---|
[2047] | 2817 | return (totalPositiveNChan == (nPositiveNChan * nchan(0))); |
---|
[2012] | 2818 | } |
---|
| 2819 | |
---|
[2047] | 2820 | std::string Scantable::getMaskRangeList(const std::vector<bool>& mask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, bool verbose) |
---|
[2012] | 2821 | { |
---|
| 2822 | if (mask.size() < 2) { |
---|
| 2823 | throw(AipsError("The mask elements should be > 1")); |
---|
| 2824 | } |
---|
[2047] | 2825 | int IF = getIF(whichrow); |
---|
| 2826 | if (mask.size() != (uInt)nchan(IF)) { |
---|
[2012] | 2827 | throw(AipsError("Number of channels in scantable != number of mask elements")); |
---|
| 2828 | } |
---|
| 2829 | |
---|
[2047] | 2830 | if (verbose) { |
---|
[2012] | 2831 | LogIO logOs(LogOrigin("Scantable", "getMaskRangeList()", WHERE)); |
---|
| 2832 | logOs << LogIO::WARN << "The current mask window unit is " << coordInfo; |
---|
| 2833 | if (!hasSameNchan) { |
---|
[2047] | 2834 | logOs << endl << "This mask is only valid for IF=" << IF; |
---|
[2012] | 2835 | } |
---|
| 2836 | logOs << LogIO::POST; |
---|
| 2837 | } |
---|
| 2838 | |
---|
| 2839 | std::vector<double> abcissa = getAbcissa(whichrow); |
---|
[2047] | 2840 | std::vector<int> edge = getMaskEdgeIndices(mask); |
---|
| 2841 | |
---|
[2012] | 2842 | ostringstream oss; |
---|
| 2843 | oss.setf(ios::fixed); |
---|
| 2844 | oss << setprecision(1) << "["; |
---|
[2047] | 2845 | for (uInt i = 0; i < edge.size(); i+=2) { |
---|
[2012] | 2846 | if (i > 0) oss << ","; |
---|
[2047] | 2847 | oss << "[" << (float)abcissa[edge[i]] << "," << (float)abcissa[edge[i+1]] << "]"; |
---|
[2012] | 2848 | } |
---|
| 2849 | oss << "]" << flush; |
---|
| 2850 | |
---|
| 2851 | return String(oss); |
---|
| 2852 | } |
---|
| 2853 | |
---|
[2047] | 2854 | std::vector<int> Scantable::getMaskEdgeIndices(const std::vector<bool>& mask) |
---|
[2012] | 2855 | { |
---|
[2047] | 2856 | if (mask.size() < 2) { |
---|
| 2857 | throw(AipsError("The mask elements should be > 1")); |
---|
[2012] | 2858 | } |
---|
| 2859 | |
---|
[2047] | 2860 | std::vector<int> out, startIndices, endIndices; |
---|
| 2861 | int maskSize = mask.size(); |
---|
[2012] | 2862 | |
---|
[2047] | 2863 | startIndices.clear(); |
---|
| 2864 | endIndices.clear(); |
---|
| 2865 | |
---|
| 2866 | if (mask[0]) { |
---|
| 2867 | startIndices.push_back(0); |
---|
[2012] | 2868 | } |
---|
[2047] | 2869 | for (int i = 1; i < maskSize; ++i) { |
---|
| 2870 | if ((!mask[i-1]) && mask[i]) { |
---|
| 2871 | startIndices.push_back(i); |
---|
| 2872 | } else if (mask[i-1] && (!mask[i])) { |
---|
| 2873 | endIndices.push_back(i-1); |
---|
| 2874 | } |
---|
[2012] | 2875 | } |
---|
[2047] | 2876 | if (mask[maskSize-1]) { |
---|
| 2877 | endIndices.push_back(maskSize-1); |
---|
| 2878 | } |
---|
[2012] | 2879 | |
---|
[2047] | 2880 | if (startIndices.size() != endIndices.size()) { |
---|
| 2881 | throw(AipsError("Inconsistent Mask Size: bad data?")); |
---|
| 2882 | } |
---|
| 2883 | for (uInt i = 0; i < startIndices.size(); ++i) { |
---|
| 2884 | if (startIndices[i] > endIndices[i]) { |
---|
| 2885 | throw(AipsError("Mask start index > mask end index")); |
---|
[2012] | 2886 | } |
---|
| 2887 | } |
---|
| 2888 | |
---|
[2047] | 2889 | out.clear(); |
---|
| 2890 | for (uInt i = 0; i < startIndices.size(); ++i) { |
---|
| 2891 | out.push_back(startIndices[i]); |
---|
| 2892 | out.push_back(endIndices[i]); |
---|
| 2893 | } |
---|
| 2894 | |
---|
[2012] | 2895 | return out; |
---|
| 2896 | } |
---|
| 2897 | |
---|
[2161] | 2898 | vector<float> Scantable::getTsysSpectrum( int whichrow ) const |
---|
| 2899 | { |
---|
| 2900 | Vector<Float> tsys( tsysCol_(whichrow) ) ; |
---|
| 2901 | vector<float> stlTsys ; |
---|
| 2902 | tsys.tovector( stlTsys ) ; |
---|
| 2903 | return stlTsys ; |
---|
| 2904 | } |
---|
[2012] | 2905 | |
---|
| 2906 | /* |
---|
[1931] | 2907 | STFitEntry Scantable::polyBaseline(const std::vector<bool>& mask, int order, int rowno) |
---|
[1907] | 2908 | { |
---|
| 2909 | Fitter fitter = Fitter(); |
---|
[2012] | 2910 | fitter.setExpression("poly", order); |
---|
| 2911 | |
---|
| 2912 | std::vector<bool> fmask = getMask(rowno); |
---|
| 2913 | if (fmask.size() != mask.size()) { |
---|
| 2914 | throw(AipsError("different mask sizes")); |
---|
| 2915 | } |
---|
| 2916 | for (int i = 0; i < fmask.size(); ++i) { |
---|
| 2917 | fmask[i] = fmask[i] && mask[i]; |
---|
| 2918 | } |
---|
| 2919 | |
---|
| 2920 | fitBaseline(fmask, rowno, fitter); |
---|
[1907] | 2921 | setSpectrum(fitter.getResidual(), rowno); |
---|
[1931] | 2922 | return fitter.getFitEntry(); |
---|
[1907] | 2923 | } |
---|
[2012] | 2924 | */ |
---|
[1907] | 2925 | |
---|
| 2926 | } |
---|
[1819] | 2927 | //namespace asap |
---|