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Changeset 2881 for trunk/yat

Timestamp:

Nov 18, 2012, 2:28:05 AM (11 years ago)

Author:

Peter

Message:

Define PP variables in config.h rather than in CPPFLAGS. Include
config.h into all source files. Only ammend CXXFLAGS with '-Wall
-pedantic' when --enable-debug. In default mode we respect CXXFLAGS
value set by user, or set to default value '-O3'.

Location:

trunk/yat

Files:

: 118 edited

classifier/BootstrapSampler.cc (modified) (1 diff)
classifier/ConsensusInputRanker.cc (modified) (1 diff)
classifier/CrossValidationSampler.cc (modified) (1 diff)
classifier/DataLookup1D.cc (modified) (1 diff)
classifier/DataLookupWeighted1D.cc (modified) (1 diff)
classifier/FeatureSelector.cc (modified) (1 diff)
classifier/FeatureSelectorIR.cc (modified) (1 diff)
classifier/FeatureSelectorRandom.cc (modified) (1 diff)
classifier/GaussianKernelFunction.cc (modified) (1 diff)
classifier/InputRanker.cc (modified) (1 diff)
classifier/KNN_ReciprocalDistance.cc (modified) (1 diff)
classifier/KNN_ReciprocalRank.cc (modified) (1 diff)
classifier/KNN_Uniform.cc (modified) (1 diff)
classifier/Kernel.cc (modified) (1 diff)
classifier/KernelLookup.cc (modified) (1 diff)
classifier/Kernel_MEV.cc (modified) (1 diff)
classifier/Kernel_SEV.cc (modified) (1 diff)
classifier/MatrixLookup.cc (modified) (1 diff)
classifier/MatrixLookupWeighted.cc (modified) (1 diff)
classifier/NBC.cc (modified) (1 diff)
classifier/PolynomialKernelFunction.cc (modified) (1 diff)
classifier/SVM.cc (modified) (1 diff)
classifier/SVindex.cc (modified) (1 diff)
classifier/Sampler.cc (modified) (1 diff)
classifier/SupervisedClassifier.cc (modified) (1 diff)
classifier/SvmMultiClass.cc (modified) (1 diff)
classifier/Target.cc (modified) (1 diff)
classifier/utility.cc (modified) (1 diff)
normalizer/QuantileNormalizer.cc (modified) (1 diff)
normalizer/qQuantileNormalizer.cc (modified) (1 diff)
omic/Codon.cc (modified) (1 diff)
omic/DNA.cc (modified) (1 diff)
omic/GFF.cc (modified) (1 diff)
omic/GFF2.cc (modified) (1 diff)
omic/GFF3.cc (modified) (1 diff)
omic/GenomicPosition.cc (modified) (1 diff)
random/random.cc (modified) (1 diff)
regression/AkimaInterpolation.cc (modified) (1 diff)
regression/AkimaPeriodicInterpolation.cc (modified) (1 diff)
regression/CSplineInterpolation.cc (modified) (1 diff)
regression/CSplinePeriodicInterpolation.cc (modified) (1 diff)
regression/GSLInterpolation.cc (modified) (1 diff)
regression/KernelBox.cc (modified) (1 diff)
regression/KernelTriCube.cc (modified) (1 diff)
regression/Linear.cc (modified) (1 diff)
regression/LinearInterpolation.cc (modified) (1 diff)
regression/LinearWeighted.cc (modified) (1 diff)
regression/Local.cc (modified) (1 diff)
regression/MultiDimensional.cc (modified) (1 diff)
regression/MultiDimensionalWeighted.cc (modified) (1 diff)
regression/Naive.cc (modified) (1 diff)
regression/NaiveWeighted.cc (modified) (1 diff)
regression/OneDimensional.cc (modified) (1 diff)
regression/OneDimensionalWeighted.cc (modified) (1 diff)
regression/Polynomial.cc (modified) (1 diff)
regression/PolynomialInterpolation.cc (modified) (1 diff)
regression/PolynomialWeighted.cc (modified) (1 diff)
regression/TukeyBiweight.cc (modified) (1 diff)
statistics/AUC.cc (modified) (1 diff)
statistics/Averager.cc (modified) (1 diff)
statistics/Averager1.cc (modified) (1 diff)
statistics/Averager3.cc (modified) (1 diff)
statistics/Averager4.cc (modified) (1 diff)
statistics/AveragerPair.cc (modified) (1 diff)
statistics/AveragerPairWeighted.cc (modified) (1 diff)
statistics/AveragerWeighted.cc (modified) (1 diff)
statistics/Fisher.cc (modified) (1 diff)
statistics/FoldChange.cc (modified) (1 diff)
statistics/Histogram.cc (modified) (1 diff)
statistics/Kendall.cc (modified) (1 diff)
statistics/Pearson.cc (modified) (1 diff)
statistics/PearsonCorrelation.cc (modified) (1 diff)
statistics/Percentiler.cc (modified) (1 diff)
statistics/ROC.cc (modified) (1 diff)
statistics/SAMScore.cc (modified) (1 diff)
statistics/SNRScore.cc (modified) (1 diff)
statistics/Score.cc (modified) (1 diff)
statistics/Smoother.cc (modified) (1 diff)
statistics/Spearman.cc (modified) (1 diff)
statistics/VectorFunction.cc (modified) (1 diff)
statistics/WilcoxonFoldChange.cc (modified) (1 diff)
statistics/tScore.cc (modified) (1 diff)
statistics/tTest.cc (modified) (1 diff)
statistics/utility.cc (modified) (1 diff)
utility/Aligner.cc (modified) (1 diff)
utility/Alignment.cc (modified) (1 diff)
utility/ColumnStream.cc (modified) (1 diff)
utility/CommandLine.cc (modified) (1 diff)
utility/DataWeight.cc (modified) (1 diff)
utility/Deleter.cc (modified) (1 diff)
utility/Exception.cc (modified) (1 diff)
utility/GetlineIterator.cc (modified) (1 diff)
utility/Index.cc (modified) (1 diff)
utility/KernelPCA.cc (modified) (1 diff)
utility/Matrix.cc (modified) (1 diff)
utility/MatrixWeighted.cc (modified) (1 diff)
utility/NNI.cc (modified) (1 diff)
utility/Option.cc (modified) (1 diff)
utility/OptionFile.cc (modified) (1 diff)
utility/OptionHelp.cc (modified) (1 diff)
utility/OptionInFile.cc (modified) (1 diff)
utility/OptionOutFile.cc (modified) (1 diff)
utility/OptionSwitch.cc (modified) (1 diff)
utility/PCA.cc (modified) (1 diff)
utility/SVD.cc (modified) (1 diff)
utility/TypeInfo.cc (modified) (1 diff)
utility/Vector.cc (modified) (1 diff)
utility/VectorBase.cc (modified) (1 diff)
utility/VectorConstView.cc (modified) (1 diff)
utility/VectorMutable.cc (modified) (1 diff)
utility/VectorView.cc (modified) (1 diff)
utility/WeNNI.cc (modified) (1 diff)
utility/kNNI.cc (modified) (1 diff)
utility/sort_index.cc (modified) (1 diff)
utility/split.cc (modified) (1 diff)
utility/stl_utility.cc (modified) (1 diff)
utility/utility.cc (modified) (1 diff)
utility/version.cc (modified) (1 diff)

Legend:

: Unmodified
: Added
: Removed

trunk/yat/classifier/BootstrapSampler.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "BootstrapSampler.h"

trunk/yat/classifier/ConsensusInputRanker.cc

r2384	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "ConsensusInputRanker.h"

trunk/yat/classifier/CrossValidationSampler.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "CrossValidationSampler.h"

trunk/yat/classifier/DataLookup1D.cc

r2121	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "DataLookup1D.h"

trunk/yat/classifier/DataLookupWeighted1D.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "DataLookupWeighted1D.h"

trunk/yat/classifier/FeatureSelector.cc

r2384	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "FeatureSelector.h"

trunk/yat/classifier/FeatureSelectorIR.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "FeatureSelectorIR.h"

trunk/yat/classifier/FeatureSelectorRandom.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "FeatureSelectorRandom.h"

trunk/yat/classifier/GaussianKernelFunction.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "GaussianKernelFunction.h"

trunk/yat/classifier/InputRanker.cc

r2119	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "InputRanker.h"

trunk/yat/classifier/KNN_ReciprocalDistance.cc

r2119	r2881
22	22	*/
23	23
	24	#include <config.h>
	25
24	26	#include "KNN_ReciprocalDistance.h"
25	27	#include "Target.h"

trunk/yat/classifier/KNN_ReciprocalRank.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "KNN_ReciprocalRank.h"

trunk/yat/classifier/KNN_Uniform.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "KNN_Uniform.h"

trunk/yat/classifier/Kernel.cc

r2384	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "Kernel.h"

trunk/yat/classifier/KernelLookup.cc

r2861	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "KernelLookup.h"

trunk/yat/classifier/Kernel_MEV.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Kernel_MEV.h"

trunk/yat/classifier/Kernel_SEV.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Kernel_SEV.h"

trunk/yat/classifier/MatrixLookup.cc

r2863	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "MatrixLookup.h"

trunk/yat/classifier/MatrixLookupWeighted.cc

r2862	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "MatrixLookupWeighted.h"

trunk/yat/classifier/NBC.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "NBC.h"

trunk/yat/classifier/PolynomialKernelFunction.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "PolynomialKernelFunction.h"

trunk/yat/classifier/SVM.cc

r2384	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "SVM.h"

trunk/yat/classifier/SVindex.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "SVindex.h"

trunk/yat/classifier/Sampler.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Sampler.h"

trunk/yat/classifier/SupervisedClassifier.cc

r2119	r2881
23	23	*/
24	24
	25	#include <config.h>
	26
25	27	#include "SupervisedClassifier.h"
26	28	#include "InputRanker.h"

trunk/yat/classifier/SvmMultiClass.cc

r2055	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "SvmMultiClass.h"

trunk/yat/classifier/Target.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "Target.h"

trunk/yat/classifier/utility.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "utility.h"

trunk/yat/normalizer/QuantileNormalizer.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "QuantileNormalizer.h"

trunk/yat/normalizer/qQuantileNormalizer.cc

r2384	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "qQuantileNormalizer.h"

trunk/yat/omic/Codon.cc

r2608	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Codon.h"

trunk/yat/omic/DNA.cc

r2763	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "DNA.h"

trunk/yat/omic/GFF.cc

r2723	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "GFF.h"

trunk/yat/omic/GFF2.cc

r2482	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "GFF2.h"

trunk/yat/omic/GFF3.cc

r2608	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "GFF3.h"

trunk/yat/omic/GenomicPosition.cc

r2591	r2881
17	17	along with this program. If not, see <http://www.gnu.org/licenses/>.
18	18	*/
	19
	20	#include <config.h>
19	21
20	22	#include "GenomicPosition.h"

trunk/yat/random/random.cc

r2838	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "random.h"

trunk/yat/regression/AkimaInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "AkimaInterpolation.h"

trunk/yat/regression/AkimaPeriodicInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "AkimaPeriodicInterpolation.h"

trunk/yat/regression/CSplineInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "CSplineInterpolation.h"

trunk/yat/regression/CSplinePeriodicInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "CSplinePeriodicInterpolation.h"

trunk/yat/regression/GSLInterpolation.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "GSLInterpolation.h"

trunk/yat/regression/KernelBox.cc

r2119	r2881
22	22	*/
23	23
	24	#include <config.h>
	25
24	26	#include "KernelBox.h"
25	27

trunk/yat/regression/KernelTriCube.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "KernelTriCube.h"

trunk/yat/regression/Linear.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Linear.h"

trunk/yat/regression/LinearInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "LinearInterpolation.h"

trunk/yat/regression/LinearWeighted.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "LinearWeighted.h"

trunk/yat/regression/Local.cc

r2564	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "Local.h"

trunk/yat/regression/MultiDimensional.cc

r2564	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "MultiDimensional.h"

trunk/yat/regression/MultiDimensionalWeighted.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "MultiDimensionalWeighted.h"

trunk/yat/regression/Naive.cc

r2532	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "Naive.h"

trunk/yat/regression/NaiveWeighted.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "NaiveWeighted.h"

trunk/yat/regression/OneDimensional.cc

r2564	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "OneDimensional.h"

trunk/yat/regression/OneDimensionalWeighted.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "OneDimensionalWeighted.h"

trunk/yat/regression/Polynomial.cc

r2564	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "Polynomial.h"

trunk/yat/regression/PolynomialInterpolation.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "PolynomialInterpolation.h"

trunk/yat/regression/PolynomialWeighted.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "PolynomialWeighted.h"

trunk/yat/regression/TukeyBiweight.cc

r2508	r2881
20	20	*/
21	21
	22	#include <config.h>
	23
22	24	#include "TukeyBiweight.h"
23	25

trunk/yat/statistics/AUC.cc

r2564	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include <iostream>

trunk/yat/statistics/Averager.cc

r2809	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "Averager.h"

trunk/yat/statistics/Averager1.cc

r2810	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Averager1.h"

trunk/yat/statistics/Averager3.cc

r2809	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Averager3.h"

trunk/yat/statistics/Averager4.cc

r2809	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Averager4.h"

trunk/yat/statistics/AveragerPair.cc

r2644	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "AveragerPair.h"

trunk/yat/statistics/AveragerPairWeighted.cc

r2571	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "AveragerPairWeighted.h"

trunk/yat/statistics/AveragerWeighted.cc

r2798	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "AveragerWeighted.h"

trunk/yat/statistics/Fisher.cc

r2523	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "Fisher.h"

trunk/yat/statistics/FoldChange.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "FoldChange.h"

trunk/yat/statistics/Histogram.cc

r2411	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "Histogram.h"

trunk/yat/statistics/Kendall.cc

r2766	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Kendall.h"

trunk/yat/statistics/Pearson.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "Pearson.h"

trunk/yat/statistics/PearsonCorrelation.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "PearsonCorrelation.h"

trunk/yat/statistics/Percentiler.cc

r2608	r2881
20	20	*/
21	21
	22	#include <config.h>
	23
22	24	#include "Percentiler.h"
23	25

trunk/yat/statistics/ROC.cc

r2838	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "ROC.h"

trunk/yat/statistics/SAMScore.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "SAMScore.h"

trunk/yat/statistics/SNRScore.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "SNRScore.h"

trunk/yat/statistics/Score.cc

r2119	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "Score.h"

trunk/yat/statistics/Smoother.cc

r2202	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "Smoother.h"

trunk/yat/statistics/Spearman.cc

r2648	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Spearman.h"

trunk/yat/statistics/VectorFunction.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "VectorFunction.h"

trunk/yat/statistics/WilcoxonFoldChange.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "WilcoxonFoldChange.h"

trunk/yat/statistics/tScore.cc

r2119	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "tScore.h"

trunk/yat/statistics/tTest.cc

r2119	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "tTest.h"

trunk/yat/statistics/utility.cc

r2787	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "utility.h"

trunk/yat/utility/Aligner.cc

r2853	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Aligner.h"

trunk/yat/utility/Alignment.cc

r2816	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "Alignment.h"

trunk/yat/utility/ColumnStream.cc

r2526	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "ColumnStream.h"

trunk/yat/utility/CommandLine.cc

r2853	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "CommandLine.h"

trunk/yat/utility/DataWeight.cc

r2119	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "DataWeight.h"

trunk/yat/utility/Deleter.cc

r2858	r2881
20	20	*/
21	21
	22	#include <config.h>
	23
22	24	#include "Deleter.h"
23	25

trunk/yat/utility/Exception.cc

r2526	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Exception.h"

trunk/yat/utility/GetlineIterator.cc

r1878	r2881
20	20	*/
21	21
	22
	23	#include <config.h>
22	24
23	25	#include "GetlineIterator.h"

trunk/yat/utility/Index.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "Index.h"

trunk/yat/utility/KernelPCA.cc

r2324	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include <iostream>

trunk/yat/utility/Matrix.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "Matrix.h"

trunk/yat/utility/MatrixWeighted.cc

r2384	r2881
24	24	*/
25	25
	26	#include <config.h>
	27
26	28	#include "MatrixWeighted.h"
27	29

trunk/yat/utility/NNI.cc

r2119	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "NNI.h"

trunk/yat/utility/Option.cc

r2384	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "Option.h"

trunk/yat/utility/OptionFile.cc

r2384	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "OptionFile.h"

trunk/yat/utility/OptionHelp.cc

r2384	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "OptionHelp.h"

trunk/yat/utility/OptionInFile.cc

r2121	r2881
20	20	along with yat. If not, see <http://www.gnu.org/licenses/>.
21	21	*/
	22
	23	#include <config.h>
22	24
23	25	#include "OptionInFile.h"

trunk/yat/utility/OptionOutFile.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "OptionOutFile.h"

trunk/yat/utility/OptionSwitch.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "OptionSwitch.h"

trunk/yat/utility/PCA.cc

r2384	r2881
24	24	along with yat. If not, see <http://www.gnu.org/licenses/>.
25	25	*/
	26
	27	#include <config.h>
26	28
27	29	#include "PCA.h"

trunk/yat/utility/SVD.cc

r2451	r2881
25	25	along with yat. If not, see <http://www.gnu.org/licenses/>.
26	26	*/
	27
	28	#include <config.h>
27	29
28	30	#include "SVD.h"

trunk/yat/utility/TypeInfo.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "TypeInfo.h"

trunk/yat/utility/Vector.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "Vector.h"

trunk/yat/utility/VectorBase.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "VectorBase.h"

trunk/yat/utility/VectorConstView.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "VectorConstView.h"

trunk/yat/utility/VectorMutable.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "VectorMutable.h"

trunk/yat/utility/VectorView.cc

r2787	r2881
23	23	along with yat. If not, see <http://www.gnu.org/licenses/>.
24	24	*/
	25
	26	#include <config.h>
25	27
26	28	#include "VectorView.h"

trunk/yat/utility/WeNNI.cc

r2526	r2881
24	24	along with yat. If not, see <http://www.gnu.org/licenses/>.
25	25	*/
	26
	27	#include <config.h>
26	28
27	29	#include "WeNNI.h"

trunk/yat/utility/kNNI.cc

r2119	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "kNNI.h"

trunk/yat/utility/sort_index.cc

r2608	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "sort_index.h"

trunk/yat/utility/split.cc

r2879	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "split.h"

trunk/yat/utility/stl_utility.cc

r2302	r2881
22	22	along with yat. If not, see <http://www.gnu.org/licenses/>.
23	23	*/
	24
	25	#include <config.h>
24	26
25	27	#include "stl_utility.h"

trunk/yat/utility/utility.cc

r2384	r2881
21	21	along with yat. If not, see <http://www.gnu.org/licenses/>.
22	22	*/
	23
	24	#include <config.h>
23	25
24	26	#include "utility.h"

trunk/yat/utility/version.cc

r2119	r2881
19	19	along with yat. If not, see <http://www.gnu.org/licenses/>.
20	20	*/
	21
	22	#include <config.h>
21	23
22	24	#include "version.h"

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