Added some tests

8008d6ee · Grégoire Locqueville · 62f59938 · 8008d6ee · 8008d6ee · 8008d6ee
Commit 8008d6ee authored May 16, 2025 by Grégoire Locqueville
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Showing with 81 additions and 13 deletions

Clustering.hs test/Test/Graph/Clustering.hs +20 -2

Distance.hs test/Test/Graph/Distance.hs +56 -9

Main.hs test/drivers/tasty/Main.hs +5 -2

No files found.
--- a/test/Test/Graph/Clustering.hs
+++ b/test/Test/Graph/Clustering.hs
@@ -17,7 +17,6 @@ import Data.HashMap.Strict qualified as HashMap
 import Data.List qualified as List
 import Gargantext.API.Ngrams.Types (NgramsTerm(..))
 import Gargantext.Core.Methods.Similarities (Similarity(..))
-- import Gargantext.Core.Viz.Graph
 import Gargantext.Core.Viz.Graph.Tools (doSimilarityMap)
 import Gargantext.Core.Viz.Graph.Tools.IGraph (spinglass)
 import Gargantext.Core.Viz.Graph.Types
@@ -27,6 +26,21 @@ import Test.Hspec
 myCooc :: HashMap (NgramsTerm, NgramsTerm) Int
 myCooc = HashMap.fromList [((NgramsTerm {unNgramsTerm = "gev au"},NgramsTerm {unNgramsTerm = "sqrt"}),12),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "data"}),8),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "transverse momentum"}),6),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "gev au"}),7),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "rhic"}),13),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "sqrt"}),27),((NgramsTerm {unNgramsTerm = "pi ^"},NgramsTerm {unNgramsTerm = "s"}),8),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "p"}),27),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "s"}),10),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "relativistic heavy ion collider"}),5),((NgramsTerm {unNgramsTerm = "eta"},NgramsTerm {unNgramsTerm = "gev"}),9),((NgramsTerm {unNgramsTerm = "phi"},NgramsTerm {unNgramsTerm = "transverse momentum"}),3),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "hadrons"}),4),((NgramsTerm {unNgramsTerm = "data"},NgramsTerm {unNgramsTerm = "gev"}),9),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "gev/c"}),3),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "nn"}),80),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "particle"}),3),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "p collisions"}),6),((NgramsTerm {unNgramsTerm = "nn"},NgramsTerm {unNgramsTerm = "sqrt"}),88),((NgramsTerm {unNgramsTerm = "centrality dependence"},NgramsTerm {unNgramsTerm = "gev/c"}),5),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "gev au"}),5),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "p_t"}),5),((NgramsTerm {unNgramsTerm = "relativistic heavy ion collider"},NgramsTerm {unNgramsTerm = "sqrt"}),10),((NgramsTerm {unNgramsTerm = "rhic"},NgramsTerm {unNgramsTerm = "s_nn"}),12),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "p"}),21),((NgramsTerm {unNgramsTerm = "data"},NgramsTerm {unNgramsTerm = "sqrt"}),6),((NgramsTerm {unNgramsTerm = "au-au collisions"},NgramsTerm {unNgramsTerm = "gev"}),12),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "relativistic heavy ion collider"}),8),((NgramsTerm {unNgramsTerm = "centrality dependence"},NgramsTerm {unNgramsTerm = "rhic"}),3),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "eta"}),4),((NgramsTerm {unNgramsTerm = "eta"},NgramsTerm {unNgramsTerm = "sqrt"}),9),((NgramsTerm {unNgramsTerm = "nn"},NgramsTerm {unNgramsTerm = "particle"}),8),((NgramsTerm {unNgramsTerm = "au-au collisions"},NgramsTerm {unNgramsTerm = "sqrt"}),10),((NgramsTerm {unNgramsTerm = "gev/c"},NgramsTerm {unNgramsTerm = "s_nn"}),12),((NgramsTerm {unNgramsTerm = "data"},NgramsTerm {unNgramsTerm = "particle"}),4),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "phenix experiment"}),4),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "nn"}),65),((NgramsTerm {unNgramsTerm = "mid-rapidity"},NgramsTerm {unNgramsTerm = "number"}),3),((NgramsTerm {unNgramsTerm = "p_t"},NgramsTerm {unNgramsTerm = "s_nn"}),11),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "not found"}),7),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "number"}),4),((NgramsTerm {unNgramsTerm = "nn"},NgramsTerm {unNgramsTerm = "pi ^"}),7),((NgramsTerm {unNgramsTerm = "hadrons"},NgramsTerm {unNgramsTerm = "spectra"}),3),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "s"}),9),((NgramsTerm {unNgramsTerm = "second part"},NgramsTerm {unNgramsTerm = "thesis"}),4),((NgramsTerm {unNgramsTerm = "eta"},NgramsTerm {unNgramsTerm = "pi ^"}),5),((NgramsTerm {unNgramsTerm = "midrapidity"},NgramsTerm {unNgramsTerm = "p collisions"}),3),((NgramsTerm {unNgramsTerm = "phenix experiment"},NgramsTerm {unNgramsTerm = "s_nn"}),13),((NgramsTerm {unNgramsTerm = "number"},NgramsTerm {unNgramsTerm = "s_nn"}),5),((NgramsTerm {unNgramsTerm = "nuclear modification factors"},NgramsTerm {unNgramsTerm = "p collisions"}),3),((NgramsTerm {unNgramsTerm = "centrality dependence"},NgramsTerm {unNgramsTerm = "number"}),4),((NgramsTerm {unNgramsTerm = "centrality dependence"},NgramsTerm {unNgramsTerm = "s"}),8),((NgramsTerm {unNgramsTerm = "mid-rapidity"},NgramsTerm {unNgramsTerm = "p"}),6),((NgramsTerm {unNgramsTerm = "lambda"},NgramsTerm {unNgramsTerm = "rhic"}),4),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "pi ^"}),13),((NgramsTerm {unNgramsTerm = "lambda"},NgramsTerm {unNgramsTerm = "p"}),3),((NgramsTerm {unNgramsTerm = "gev au"},NgramsTerm {unNgramsTerm = "pi ^"}),3),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "nn"}),10),((NgramsTerm {unNgramsTerm = "gev/c"},NgramsTerm {unNgramsTerm = "mid-rapidity"}),7),((NgramsTerm {unNgramsTerm = "d"},NgramsTerm {unNgramsTerm = "p_t"}),3),((NgramsTerm {unNgramsTerm = "au 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"data"},NgramsTerm {unNgramsTerm = "s"}),5),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "lambda"}),5),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "s"}),22),((NgramsTerm {unNgramsTerm = "au-au collisions"},NgramsTerm {unNgramsTerm = "not found"}),8),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "phenix experiment"}),13),((NgramsTerm {unNgramsTerm = "gev au"},NgramsTerm {unNgramsTerm = "s"}),8),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "mid-rapidity"}),15),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "energy"}),8),((NgramsTerm {unNgramsTerm = "mid-rapidity"},NgramsTerm {unNgramsTerm = "ratio"}),3),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "particle"}),6),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "function"}),13),((NgramsTerm {unNgramsTerm = "energy"},NgramsTerm {unNgramsTerm = "particle"}),4),((NgramsTerm {unNgramsTerm = "measurements"},NgramsTerm {unNgramsTerm = "pi ^"}),8),((NgramsTerm {unNgramsTerm = "gev/c"},NgramsTerm {unNgramsTerm = "yields"}),5),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "pi ^"}),5),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "spectra"}),7),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "mid-rapidity"}),13),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "lambda"}),5),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "gev"}),14),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "centralities"}),5),((NgramsTerm {unNgramsTerm = "rhic"},NgramsTerm {unNgramsTerm = "yields"}),4),((NgramsTerm {unNgramsTerm = "number"},NgramsTerm {unNgramsTerm = "p collisions"}),3),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "sqrt"}),12),((NgramsTerm {unNgramsTerm = "mid-rapidity"},NgramsTerm {unNgramsTerm = "phi"}),3),((NgramsTerm {unNgramsTerm = "spectra"},NgramsTerm {unNgramsTerm = "sqrt"}),10),((NgramsTerm {unNgramsTerm = "pi ^"},NgramsTerm {unNgramsTerm = "suppression"}),3),((NgramsTerm {unNgramsTerm = "not found"},NgramsTerm {unNgramsTerm = "p collisions"}),6),((NgramsTerm {unNgramsTerm = "energy"},NgramsTerm {unNgramsTerm = "sqrt"}),10),((NgramsTerm {unNgramsTerm = "energy"},NgramsTerm {unNgramsTerm = "gev"}),9),((NgramsTerm {unNgramsTerm = "central collisions"},NgramsTerm {unNgramsTerm = "gev/c"}),4),((NgramsTerm {unNgramsTerm = "hadrons"},NgramsTerm {unNgramsTerm = "number"}),3),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "spectra"}),9),((NgramsTerm {unNgramsTerm = "central au"},NgramsTerm {unNgramsTerm = "suppression"}),4),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "gev/c"}),18),((NgramsTerm {unNgramsTerm = "phi"},NgramsTerm {unNgramsTerm = "rhic"}),3),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "phenix experiment"}),9),((NgramsTerm {unNgramsTerm = "elliptic flow"},NgramsTerm {unNgramsTerm = "measurements"}),3),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "s"}),5),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "gev au"}),12),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "elliptic flow"}),10),((NgramsTerm {unNgramsTerm = "p"},NgramsTerm {unNgramsTerm = "suppression"}),5),((NgramsTerm {unNgramsTerm = "gev/c"},NgramsTerm {unNgramsTerm = "measurements"}),11),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "p collisions"}),11),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "eta"}),4),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "transverse momentum"}),14),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "hadrons"}),11),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "number"}),3),((NgramsTerm {unNgramsTerm = "energy"},NgramsTerm {unNgramsTerm = "s"}),7),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "data"}),6),((NgramsTerm {unNgramsTerm = "measurements"},NgramsTerm {unNgramsTerm = "relativistic heavy ion collider"}),7),((NgramsTerm {unNgramsTerm = "au collisions"},NgramsTerm {unNgramsTerm = "nn"}),67),((NgramsTerm {unNgramsTerm = "ratio"},NgramsTerm {unNgramsTerm = "rhic"}),4),((NgramsTerm {unNgramsTerm = "sqrt"},NgramsTerm {unNgramsTerm = "transverse momentum"}),13),((NgramsTerm {unNgramsTerm = "hadrons"},NgramsTerm {unNgramsTerm = "sqrt"}),11),((NgramsTerm {unNgramsTerm = "p collisions"},NgramsTerm {unNgramsTerm = "sqrt"}),16),((NgramsTerm {unNgramsTerm = "function"},NgramsTerm {unNgramsTerm = "p_t"}),6),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "p"}),10),((NgramsTerm {unNgramsTerm = "measurements"},NgramsTerm {unNgramsTerm = "p"}),14),((NgramsTerm {unNgramsTerm = "centralities"},NgramsTerm {unNgramsTerm = "rhic"}),6),((NgramsTerm {unNgramsTerm = "gev"},NgramsTerm {unNgramsTerm = "p collisions"}),15),((NgramsTerm {unNgramsTerm = "measurements"},NgramsTerm {unNgramsTerm = "rhic"}),15),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "transverse momentum"}),7),((NgramsTerm {unNgramsTerm = "au"},NgramsTerm {unNgramsTerm = "hadrons"}),8),((NgramsTerm {unNgramsTerm = "nn"},NgramsTerm {unNgramsTerm = "suppression"}),6)]
+-- | The terms are composed of 4 food items: 2 "bases" and 2 "fillings".
+-- The corpus is composed of 4 recipes, one for each pairing of a base and a filling.
+recipeCooc :: HashMap (NgramsTerm, NgramsTerm) Int
+recipeCooc = HashMap.fromList
+  [ ((NgramsTerm {unNgramsTerm = "feuille"}, NgramsTerm {unNgramsTerm = "pate"   }), 0)
+  , ((NgramsTerm {unNgramsTerm = "boeuf"  }, NgramsTerm {unNgramsTerm = "tomate" }), 0)
+  , ((NgramsTerm {unNgramsTerm = "boeuf"  }, NgramsTerm {unNgramsTerm = "pate"   }), 1)
+  , ((NgramsTerm {unNgramsTerm = "tomate" }, NgramsTerm {unNgramsTerm = "tomate" }), 2)
+  , ((NgramsTerm {unNgramsTerm = "pate"   }, NgramsTerm {unNgramsTerm = "tomate" }), 1)
+  , ((NgramsTerm {unNgramsTerm = "boeuf"  }, NgramsTerm {unNgramsTerm = "feuille"}), 1)
+  , ((NgramsTerm {unNgramsTerm = "pate"   }, NgramsTerm {unNgramsTerm = "pate"   }), 2)
+  , ((NgramsTerm {unNgramsTerm = "boeuf"  }, NgramsTerm {unNgramsTerm = "boeuf"  }), 2)
+  , ((NgramsTerm {unNgramsTerm = "feuille"}, NgramsTerm {unNgramsTerm = "feuille"}), 2)
+  , ((NgramsTerm {unNgramsTerm = "feuille"}, NgramsTerm {unNgramsTerm = "tomate" }), 1)
+  ]
 test :: Spec
@@ -34,8 +48,12 @@ test = do
  describe "Cross" $ do
    let
      (distanceMap,_,_) = doSimilarityMap Conditional 0 Weak myCooc
-    it "Partition test" $ do
+      (recipeDistances,_,_) = doSimilarityMap Distributional 0 Strong recipeCooc
+    it "Conditional Partition Test" $ do
      partitions <- spinglass 1 distanceMap
      let
        result = List.length partitions > 1
      shouldBe True result
+    it "Distributional Partition Test" $ do
+      partitions <- spinglass 1 recipeDistances
+      List.length partitions `shouldBe` 2
--- a/test/Test/Graph/Distance.hs
+++ b/test/Test/Graph/Distance.hs
@@ -15,14 +15,61 @@ commentary with @some markup@.
 module Test.Graph.Distance where
-{-
+import Data.HashMap.Strict qualified as HM
-import Gargantext.Core.Methods.Matrix.Accelerate.Utils (cross', matrix)
+import Data.Map qualified as Map
+import Gargantext.API.Ngrams.Types (NgramsTerm(..))
+import Gargantext.Core.Methods.Similarities (Similarity(..))
+import Gargantext.Core.Viz.Graph.Tools (doSimilarityMap)
+import Gargantext.Core.Viz.Graph.Types (Strength(..))
 import Gargantext.Prelude
+import Test.Hspec (Spec, describe, it, shouldBe)
-test :: IO ()
+-- | The terms are composed of 4 food items: 2 "bases" ("feuille" and "pate")
-test = hspec $ do
+-- and 2 "fillings" ("tomate" and "boeuf").
-  describe "Cross" $ do
+-- The corpus is composed of 4 recipes (one context = one recipe),
-    let result = cross' $ matrix 3 ([1,1..] :: [Double])
+-- one for each possible pairing of a base and a filling.
-    it "compare" $ do
+recipeCooc :: HM.HashMap (NgramsTerm, NgramsTerm) Int
-      shouldBe result (matrix 3 ([2,2..] :: [Double]))
+recipeCooc = HM.fromList
-}
+  [ ((NgramsTerm "feuille", NgramsTerm "pate"   ), 0)
+  , ((NgramsTerm "boeuf"  , NgramsTerm "tomate" ), 0)
+  , ((NgramsTerm "boeuf"  , NgramsTerm "pate"   ), 1)
+  , ((NgramsTerm "tomate" , NgramsTerm "tomate" ), 2)
+  , ((NgramsTerm "pate"   , NgramsTerm "tomate" ), 1)
+  , ((NgramsTerm "boeuf"  , NgramsTerm "feuille"), 1)
+  , ((NgramsTerm "pate"   , NgramsTerm "pate"   ), 2)
+  , ((NgramsTerm "boeuf"  , NgramsTerm "boeuf"  ), 2)
+  , ((NgramsTerm "feuille", NgramsTerm "feuille"), 2)
+  , ((NgramsTerm "feuille", NgramsTerm "tomate" ), 1)
+  ]
+test :: Spec
+test = do
+  describe "Recipe O2 Weight Map" $ do
+    let (recipeWeights, _coocs, dictionary) =
+          doSimilarityMap Distributional 0 Strong recipeCooc
+    it "has the right edges" $ do
+      -- Distributional weight map of the `recipeCooc` virtual corpus
+      let weights = do -- Maybe monad
+            -- Lookup nodes
+            feuilleID <- Map.lookup (NgramsTerm "feuille") dictionary
+            pateID    <- Map.lookup (NgramsTerm "pate"   ) dictionary
+            boeufID   <- Map.lookup (NgramsTerm "boeuf"  ) dictionary
+            tomateID  <- Map.lookup (NgramsTerm "tomate" ) dictionary
+            -- Lookup edge weights, if any
+            let feuillePate   = Map.lookup (feuilleID, pateID) recipeWeights
+            let boeufTomate   = Map.lookup (boeufID, tomateID) recipeWeights
+            let feuilleTomate = Map.lookup (feuilleID, tomateID) recipeWeights
+            let feuilleBoeuf  = Map.lookup (feuilleID, boeufID) recipeWeights
+            let pateTomate    = Map.lookup (pateID, tomateID) recipeWeights
+            let pateBoeuf     = Map.lookup (pateID, boeufID) recipeWeights
+            return [ feuillePate, boeufTomate, feuilleTomate
+                   , feuilleBoeuf, pateTomate, pateBoeuf ]
+      -- We check that there are edges exactly where we expect there to be:
+      (fmap . fmap) positiveWeight weights `shouldBe`
+        Just [True, True, False, False, False, False]
+-- | Checks whether `Map.lookup` outputs something, and that that something is
+-- strictly positive, denoting the presence of an edge.
+positiveWeight :: (Num a, Ord a) => Maybe a -> Bool
+positiveWeight Nothing  = False
+positiveWeight (Just w) = w > 0
--- a/test/drivers/tasty/Main.hs
+++ b/test/drivers/tasty/Main.hs
@@ -20,7 +20,8 @@ import qualified Test.Core.Text.Corpus.Query     as CorpusQuery
 import qualified Test.Core.Text.Corpus.TSV       as TSVParser
 import qualified Test.Core.Utils                 as Utils
 import qualified Test.Core.Worker                as Worker
-import qualified Test.Graph.Clustering           as Graph
+import qualified Test.Graph.Clustering           as Clustering
+import qualified Test.Graph.Distance             as Distance
 import qualified Test.Ngrams.Lang.Occurrences    as Occurrences
 import qualified Test.Ngrams.NLP                 as NLP
 import qualified Test.Ngrams.Query               as NgramsQuery
@@ -48,7 +49,8 @@ protectStdoutBuffering action =
 main :: IO ()
 main = do
  utilSpec         <- testSpec "Utils" Utils.test
-  clusteringSpec   <- testSpec "Graph Clustering" Graph.test
+  clusteringSpec   <- testSpec "Graph Clustering" Clustering.test
+  distanceSpec   <- testSpec "Graph Distance" Distance.test
  dateSplitSpec    <- testSpec "Date split" PD.testDateSplit
  cryptoSpec       <- testSpec "Crypto" Crypto.test
  nlpSpec          <- testSpec "NLP" NLP.test
@@ -60,6 +62,7 @@ main = do
  protectStdoutBuffering $ defaultMain $ testGroup "Gargantext"
    [ utilSpec
    , clusteringSpec
+    , distanceSpec
    , dateSplitSpec
    , cryptoSpec
    , nlpSpec