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Add visualizations package with dependencies.
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Update baseline dependencies.
Also reduce baseline long method.
Update Roassal deprecated class names.
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Hernán Morales Durand committed Dec 27, 2023
1 parent 264d746 commit f24cbfb
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Showing 9 changed files with 240 additions and 137 deletions.
261 changes: 179 additions & 82 deletions src/BaselineOfPolyMath/BaselineOfPolyMath.class.st
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Original file line number Diff line number Diff line change
Expand Up @@ -10,12 +10,13 @@ PolyMath is a Smalltalk project, similar to existing scientific libraries like N
"
Class {
#name : #BaselineOfPolyMath,
#superclass : #BaselineOf,
#category : #BaselineOfPolyMath
#name : 'BaselineOfPolyMath',
#superclass : 'BaselineOf',
#category : 'BaselineOfPolyMath',
#package : 'BaselineOfPolyMath'
}

{ #category : #baseline }
{ #category : 'baselines' }
BaselineOfPolyMath >> baseline: spec [

<baseline>
Expand All @@ -24,80 +25,13 @@ BaselineOfPolyMath >> baseline: spec [
sMark: spec;
xmlWriter: spec;
vectorMatrix: spec;
randomNumbers: spec.
randomNumbers: spec;
datasets: spec;
dataFrameInspector: spec.

spec
package: 'ExtendedNumberParser';
package: 'Math-Accuracy-Core';
package: 'Math-Accuracy-ODE' with: [ spec requires: #( 'Math-ODE' 'XMLWriter' ) ];
package: 'Math-ArbitraryPrecisionFloat' with: [ spec requires: #( 'ExtendedNumberParser' ) ];
package: 'Math-AutomaticDifferenciation' with: [ spec requires: #( 'Math-Numerical' 'MathVectorMatrix' ) ];
package: 'Math-Benchmarks-KDTree' with: [ spec requires: #( 'Math-KDTree' 'SMark' ) ];
package: 'Math-Benchmarks-ODE' with: [ spec requires: #( 'Math-ODE' 'SMark' 'XMLWriter' ) ];
package: 'Math-Chromosome' with: [ spec requires: #( 'MathVectorMatrix' ) ];
package: 'Math-Clustering' with: [ spec requires: #( 'Math-Numerical' 'Math-Core-Process' 'MathVectorMatrix' ) ];
package: 'Math-Complex' with: [ spec requires: #( 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Helpers';
package: 'Math-Distributions' with: [ spec requires: #( 'MathVectorMatrix' 'Math-Quantile' 'Math-Core-Process' ) ];
package: 'Math-Core-Process';
package: 'Math-Numerical'
with: [ spec requires: #( 'MathVectorMatrix' 'Math-Core-Process' 'Math-Distributions' 'Math-StatisticalMoments'
'Math-Series' ) ];
package: 'Math-Polynomials'
with: [ spec requires: #( 'MathVectorMatrix' 'Math-Core-Process' 'Math-Distributions' 'Math-StatisticalMoments'
'Math-Series' ) ];
package: 'Math-FastFourierTransform' with: [ spec requires: #( 'Math-Complex' ) ];
package: 'Math-FunctionFit'
with: [ spec requires: #( 'Math-Numerical' 'Math-Chromosome' 'Math-Accuracy-Core' 'MathVectorMatrix' 'Math-Helpers' 'Math-Polynomials' ) ];
package: 'Math-KDTree';
package: 'Math-Number-Extensions';
package: 'Math-ODE' with: [ spec requires: #( 'Math-Numerical' 'MathVectorMatrix' 'Math-Polynomials' ) ];
package: 'Math-Permutation' with: [ spec requires: #( 'MathVectorMatrix' 'Math-Core-Process' ) ];
package: 'Math-Physics-Constants';
package: 'Math-PrincipalComponentAnalysis' with: [ spec requires: #( 'Math-Numerical' 'MathVectorMatrix' 'Math-Polynomials' ) ];
package: 'Math-Quantile';
package: 'Math-Quaternion' with: [ spec requires: #( 'Math-Complex' 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Series';
package: 'Math-StatisticalMoments' with: [ spec requires: #( 'Math-Helpers' 'Math-Distributions' ) ];
package: 'Math-TSNE';
package: 'Math-Tests-Accuracy' with: [ spec requires: #( 'Math-Accuracy-Core' ) ];
package: 'Math-Tests-ArbitraryPrecisionFloat' with: [ spec requires: #( 'Math-ArbitraryPrecisionFloat' ) ];
package: 'Math-Tests-AutomaticDifferenciation' with: [ spec requires: #( 'Math-AutomaticDifferenciation' 'MathVectorMatrix' ) ];
package: 'Math-Tests-Clustering' with: [ spec requires: #( 'Math-Clustering' 'Math-Distributions' 'Math-UtilsDataServer' ) ];
package: 'Math-Tests-Complex' with: [ spec requires: #( 'Math-Complex' ) ];
package: 'Math-Tests-Distributions' with: [ spec requires: #( 'Math-Distributions' ) ];
package: 'Math-Tests-Core-Process' with: [ spec requires: #( 'Math-Core-Process' ) ];
package: 'Math-Tests-Numerical' with: [ spec requires: #( 'Math-Numerical' 'Math-UtilsDataServer' ) ];
package: 'Math-Tests-FastFourierTransform' with: [ spec requires: #( 'Math-FastFourierTransform' 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Tests-FunctionFit';
package: 'Math-Tests-KDTree' with: [ spec requires: #( 'Math-KDTree' ) ];
package: 'Math-Tests-Number-Extensions' with: [ spec requires: #( 'Math-Number-Extensions' ) ];
package: 'Math-Tests-ODE' with: [ spec requires: #( 'Math-ODE' ) ];
package: 'Math-Tests-Permutation' with: [ spec requires: #( 'Math-Permutation' ) ];
package: 'Math-Tests-PrincipalComponentAnalysis' with: [ spec requires: #( 'Math-PrincipalComponentAnalysis' ) ];
package: 'Math-Tests-Quantile' with: [ spec requires: #( 'Math-Quantile' ) ];
package: 'Math-Tests-Polynomials' with: [ spec requires: #( 'Math-Polynomials' ) ];
package: 'Math-Tests-Quaternion' with: [ spec requires: #( 'Math-Quaternion' ) ];
package: 'Math-Tests-TSNE' with: [ spec requires: #( 'Math-TSNE' ) ];
package: 'Math-UtilsDataServer'.
spec
group: 'Accuracy' with: #( 'Math-Accuracy-ODE' 'Math-Accuracy-Core' );
group: 'Benchmarks' with: #( 'Math-Benchmarks-ODE' 'Math-Benchmarks-KDTree' );
group: 'Core'
with:
#( 'Math-Complex' 'Math-Quaternion' 'Math-Numerical' 'MathRandomNumbers' 'Math-KDTree' 'Math-ODE' 'Math-ArbitraryPrecisionFloat'
'Math-FastFourierTransform' 'ExtendedNumberParser' 'Math-Quantile' 'Math-Physics-Constants' 'Math-Polynomials' 'Math-TSNE' 'Math-Core-Process'
'Math-Helpers' 'MathVectorMatrix' 'Math-Distributions' );
group: 'Extensions'
with: #( 'Math-Clustering' 'Math-Number-Extensions' 'Math-Chromosome' 'Math-PrincipalComponentAnalysis' 'Math-FunctionFit' 'Math-AutomaticDifferenciation'
'Math-Permutation' );
group: 'Tests'
with:
#( 'Math-Tests-Clustering' 'Math-Tests-Numerical' 'Math-Tests-Complex' 'Math-Tests-Quaternion' 'Math-Tests-ODE' 'Math-Tests-KDTree' 'Math-Tests-FunctionFit'
'Math-Tests-AutomaticDifferenciation' 'Math-Tests-FastFourierTransform' 'Math-Tests-Accuracy' 'Math-Tests-ArbitraryPrecisionFloat'
'Math-Tests-Quantile' 'Math-Tests-Polynomials' 'Math-Tests-PrincipalComponentAnalysis' 'Math-Tests-Number-Extensions' 'Math-Tests-Permutation'
'Math-Tests-TSNE' 'Math-Tests-Core-Process' 'Math-Tests-Distributions' );
group: 'default' with: #( 'Core' 'Extensions' 'Tests' 'Benchmarks' 'Accuracy' ) ].
self
packages: spec;
groups: spec ].

spec for: #( #'pharo6.x' #'pharo7.x' #'pharo8.x' #'pharo9.x' #'pharo10.x' ) do: [
spec
Expand All @@ -107,32 +41,195 @@ BaselineOfPolyMath >> baseline: spec [
package: 'Math-CompatibilityUpToPharo11' ]
]

{ #category : #accessing }
{ #category : 'dependencies' }
BaselineOfPolyMath >> dataFrameInspector: spec [

spec
baseline: 'AIDataInspector'
with: [ spec repository: 'github://pharo-ai/data-inspector/src' ]
]

{ #category : 'dependencies' }
BaselineOfPolyMath >> datasets: spec [

spec
baseline: 'AIDatasets'
with: [ spec repository: 'github://pharo-ai/datasets' ].
]

{ #category : 'baselines' }
BaselineOfPolyMath >> groups: spec [

spec
group: 'Accuracy'
with: #( 'Math-Accuracy-ODE' 'Math-Accuracy-Core' );
group: 'Benchmarks'
with: #( 'Math-Benchmarks-ODE' 'Math-Benchmarks-KDTree' );
group: 'Core'
with:
#( 'Math-Complex' 'Math-Quaternion' 'Math-Numerical'
'MathRandomNumbers' 'Math-KDTree' 'Math-ODE' 'Math-ArbitraryPrecisionFloat'
'Math-FastFourierTransform' 'ExtendedNumberParser'
'Math-Quantile' 'Math-Physics-Constants'
'Math-Polynomials' 'Math-TSNE' 'Math-Core-Process'
'Math-Helpers' 'MathVectorMatrix' 'Math-Distributions' );
group: 'Extensions'
with:
#( 'Math-Clustering' 'Math-Number-Extensions'
'Math-Chromosome' 'Math-PrincipalComponentAnalysis'
'Math-FunctionFit' 'Math-AutomaticDifferenciation'
'Math-Permutation' );
group: 'Tests'
with: #( 'Math-Tests-Clustering' 'Math-Tests-Numerical'
'Math-Tests-Complex' 'Math-Tests-Quaternion'
'Math-Tests-ODE' 'Math-Tests-KDTree' 'Math-Tests-FunctionFit'
'Math-Tests-AutomaticDifferenciation'
'Math-Tests-FastFourierTransform'
'Math-Tests-Accuracy' 'Math-Tests-ArbitraryPrecisionFloat'
'Math-Tests-Quantile' 'Math-Tests-Polynomials'
'Math-Tests-PrincipalComponentAnalysis'
'Math-Tests-Number-Extensions' 'Math-Tests-Permutation'
'Math-Tests-TSNE' 'Math-Tests-Core-Process'
'Math-Tests-Distributions' );
group: 'visualizations'
with:
#( 'Core' 'Extensions' 'Tests' 'Benchmarks' 'Accuracy' 'Math-Visualizations' );
group: 'default'
with: #( 'Core' 'Extensions' 'Tests' 'Benchmarks' 'Accuracy' )
]

{ #category : 'baselines' }
BaselineOfPolyMath >> packages: spec [

spec
package: 'ExtendedNumberParser';
package: 'Math-Accuracy-Core';
package: 'Math-Accuracy-ODE'
with: [ spec requires: #( 'Math-ODE' 'XMLWriter' ) ];
package: 'Math-ArbitraryPrecisionFloat'
with: [ spec requires: #( 'ExtendedNumberParser' ) ];
package: 'Math-AutomaticDifferenciation'
with: [ spec requires: #( 'Math-Numerical' 'MathVectorMatrix' ) ];
package: 'Math-Benchmarks-KDTree'
with: [ spec requires: #( 'Math-KDTree' 'SMark' ) ];
package: 'Math-Benchmarks-ODE'
with: [ spec requires: #( 'Math-ODE' 'SMark' 'XMLWriter' ) ];
package: 'Math-Chromosome'
with: [ spec requires: #( 'MathVectorMatrix' ) ];
package: 'Math-Clustering' with: [
spec requires:
#( 'Math-Numerical' 'Math-Core-Process' 'MathVectorMatrix' ) ];
package: 'Math-Complex'
with: [ spec requires: #( 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Helpers';
package: 'Math-Distributions' with: [
spec requires:
#( 'MathVectorMatrix' 'Math-Quantile' 'Math-Core-Process' ) ];
package: 'Math-Core-Process';
package: 'Math-Numerical' with: [
spec requires:
#( 'MathVectorMatrix' 'Math-Core-Process' 'Math-Distributions'
'Math-StatisticalMoments' 'Math-Series' ) ];
package: 'Math-Polynomials' with: [
spec requires:
#( 'MathVectorMatrix' 'Math-Core-Process' 'Math-Distributions'
'Math-StatisticalMoments' 'Math-Series' ) ];
package: 'Math-FastFourierTransform'
with: [ spec requires: #( 'Math-Complex' ) ];
package: 'Math-FunctionFit' with: [
spec requires:
#( 'Math-Numerical' 'Math-Chromosome' 'Math-Accuracy-Core'
'MathVectorMatrix' 'Math-Helpers' 'Math-Polynomials' ) ];
package: 'Math-KDTree';
package: 'Math-Number-Extensions';
package: 'Math-ODE' with: [
spec requires:
#( 'Math-Numerical' 'MathVectorMatrix' 'Math-Polynomials' ) ];
package: 'Math-Permutation'
with: [ spec requires: #( 'MathVectorMatrix' 'Math-Core-Process' ) ];
package: 'Math-Physics-Constants';
package: 'Math-PrincipalComponentAnalysis' with: [
spec requires:
#( 'Math-Numerical' 'MathVectorMatrix' 'Math-Polynomials' ) ];
package: 'Math-Quantile';
package: 'Math-Quaternion' with: [
spec requires:
#( 'Math-Complex' 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Series';
package: 'Math-StatisticalMoments'
with: [ spec requires: #( 'Math-Helpers' 'Math-Distributions' ) ];
package: 'Math-TSNE';
package: 'Math-Tests-Accuracy'
with: [ spec requires: #( 'Math-Accuracy-Core' ) ];
package: 'Math-Tests-ArbitraryPrecisionFloat'
with: [ spec requires: #( 'Math-ArbitraryPrecisionFloat' ) ];
package: 'Math-Tests-AutomaticDifferenciation' with: [
spec requires:
#( 'Math-AutomaticDifferenciation'
'MathVectorMatrix' ) ];
package: 'Math-Tests-Clustering' with: [
spec requires:
#( 'Math-Clustering' 'Math-Distributions' 'Math-UtilsDataServer' ) ];
package: 'Math-Tests-Complex'
with: [ spec requires: #( 'Math-Complex' ) ];
package: 'Math-Tests-Distributions'
with: [ spec requires: #( 'Math-Distributions' ) ];
package: 'Math-Tests-Core-Process'
with: [ spec requires: #( 'Math-Core-Process' ) ];
package: 'Math-Tests-Numerical'
with: [ spec requires: #( 'Math-Numerical' 'Math-UtilsDataServer' ) ];
package: 'Math-Tests-FastFourierTransform' with: [
spec requires:
#( 'Math-FastFourierTransform' 'Math-Numerical' 'Math-Polynomials' ) ];
package: 'Math-Tests-FunctionFit';
package: 'Math-Tests-KDTree'
with: [ spec requires: #( 'Math-KDTree' ) ];
package: 'Math-Tests-Number-Extensions'
with: [ spec requires: #( 'Math-Number-Extensions' ) ];
package: 'Math-Tests-ODE' with: [ spec requires: #( 'Math-ODE' ) ];
package: 'Math-Tests-Permutation'
with: [ spec requires: #( 'Math-Permutation' ) ];
package: 'Math-Tests-PrincipalComponentAnalysis'
with: [ spec requires: #( 'Math-PrincipalComponentAnalysis' ) ];
package: 'Math-Tests-Quantile'
with: [ spec requires: #( 'Math-Quantile' ) ];
package: 'Math-Tests-Polynomials'
with: [ spec requires: #( 'Math-Polynomials' ) ];
package: 'Math-Tests-Quaternion'
with: [ spec requires: #( 'Math-Quaternion' ) ];
package: 'Math-Tests-TSNE'
with: [ spec requires: #( 'Math-TSNE' ) ];
package: 'Math-UtilsDataServer';
package: 'Math-Visualizations'
with: [ spec requires: #( 'Roassal' 'AIDatasets' 'AIDataInspector') ]
]

{ #category : 'accessing' }
BaselineOfPolyMath >> projectClass [
^ [ self class environment at: #MetacelloCypressBaselineProject ]
on: NotFound
do: [ super projectClass ]
]

{ #category : #dependencies }
{ #category : 'dependencies' }
BaselineOfPolyMath >> randomNumbers: spec [

spec baseline: 'MathRandomNumbers' with: [ spec repository: 'github://PolyMathOrg/random-numbers:v1.x.x/src' ]
]

{ #category : #dependencies }
{ #category : 'dependencies' }
BaselineOfPolyMath >> sMark: spec [

spec baseline: 'SMark' with: [ spec repository: 'github://smarr/SMark:v1.0.4' ]
]

{ #category : #dependencies }
{ #category : 'dependencies' }
BaselineOfPolyMath >> vectorMatrix: spec [

spec baseline: 'MathVectorMatrix' with: [ spec repository: 'github://PolyMathOrg/vector-matrix:v1.x.x/src' ]
]

{ #category : #dependencies }
{ #category : 'dependencies' }
BaselineOfPolyMath >> xmlWriter: spec [

spec baseline: 'XMLWriter' with: [ spec repository: 'github://pharo-contributions/XML-XMLWriter:2.9.x/src' ]
Expand Down
2 changes: 1 addition & 1 deletion src/BaselineOfPolyMath/package.st
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Original file line number Diff line number Diff line change
@@ -1 +1 @@
Package { #name : #BaselineOfPolyMath }
Package { #name : 'BaselineOfPolyMath' }
13 changes: 7 additions & 6 deletions src/Math-PrincipalComponentAnalysis/PMDataTransformer.class.st
View file
Original file line number Diff line number Diff line change
Expand Up @@ -3,22 +3,23 @@ PMDataTransformer is the abstract root class of transformers. All data transform
"
Class {
#name : #PMDataTransformer,
#superclass : #Object,
#category : #'Math-PrincipalComponentAnalysis'
#name : 'PMDataTransformer',
#superclass : 'Object',
#category : 'Math-PrincipalComponentAnalysis',
#package : 'Math-PrincipalComponentAnalysis'
}

{ #category : #accessing }
{ #category : 'accessing' }
PMDataTransformer >> fit: aPMMatrix [
^ self subclassResponsibility
]

{ #category : #accessing }
{ #category : 'accessing' }
PMDataTransformer >> fitAndTransform: aPMMatrix [
^ (self fit: aPMMatrix) transform: aPMMatrix
]

{ #category : #transforming }
{ #category : 'transforming' }
PMDataTransformer >> transform: aPMMatrix [
^ self subclassResponsibility
]
17 changes: 9 additions & 8 deletions src/Math-PrincipalComponentAnalysis/PMPrincipalComponentAnalyser.class.st
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Original file line number Diff line number Diff line change
@@ -1,33 +1,34 @@
Class {
#name : #PMPrincipalComponentAnalyser,
#superclass : #Object,
#name : 'PMPrincipalComponentAnalyser',
#superclass : 'Object',
#instVars : [
'componentsNumber'
],
#category : #'Math-PrincipalComponentAnalysis'
#category : 'Math-PrincipalComponentAnalysis',
#package : 'Math-PrincipalComponentAnalysis'
}

{ #category : #accessing }
{ #category : 'accessing' }
PMPrincipalComponentAnalyser >> componentsNumber [
^ componentsNumber
]

{ #category : #accessing }
{ #category : 'accessing' }
PMPrincipalComponentAnalyser >> componentsNumber: anInteger [
componentsNumber := anInteger
]

{ #category : #accessing }
{ #category : 'accessing' }
PMPrincipalComponentAnalyser >> fit: aPMMatrix [
^ self subclassResponsibility
]

{ #category : #accessing }
{ #category : 'accessing' }
PMPrincipalComponentAnalyser >> fitAndTransform: aPMMatrix [
^ (self fit: aPMMatrix) transform: aPMMatrix
]

{ #category : #accessing }
{ #category : 'accessing' }
PMPrincipalComponentAnalyser >> transform: aPMMatrix [
^ self subclassResponsibility
]
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