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haskell-gargantext
haskell-gargantext
Commit 1bff83b6 authored by Alfredo Di Napoli's avatar Alfredo Di Napoli
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Fuzzy comparison for phylo2dot2json

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          test-data/phylo/187481.json
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          test-data/phylo/small-phylo.golden.json
          View file @ 1bff83b6
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ylo_groupSources":[],"_phylo_groupSupport":4,"_phylo_groupWeight":4}]],"_phylo_scalePeriod":[24202,24204],"_phylo_scalePeriodStr":["2017-01-01","2017-01-03"],"_phylo_scaleScale":1}]]}],[[24203,24205],{"_phylo_periodPeriod":[24203,24205],"_phylo_periodPeriodStr":["",""],"_phylo_periodScales":[[[[24203,24205],1],{"_phylo_scaleGroups":[],"_phylo_scalePeriod":[24203,24205],"_phylo_scalePeriodStr":["",""],"_phylo_scaleScale":1}]]}],[[24204,24206],{"_phylo_periodPeriod":[24204,24206],"_phylo_periodPeriodStr":["",""],"_phylo_periodScales":[[[[24204,24206],1],{"_phylo_scaleGroups":[],"_phylo_scalePeriod":[24204,24206],"_phylo_scalePeriodStr":["",""],"_phylo_scaleScale":1}]]}],[[24205,24207],{"_phylo_periodPeriod":[24205,24207],"_phylo_periodPeriodStr":["",""],"_phylo_periodScales":[[[[24205,24207],1],{"_phylo_scaleGroups":[],"_phylo_scalePeriod":[24205,24207],"_phylo_scalePeriodStr":["",""],"_phylo_scaleScale":1}]]}],[[24206,24208],{"_phylo_periodPeriod":[24206,24208],"_phylo_periodPeriodStr":["2017-05-01","2017-05-25"],"_phylo_periodScales":[[[[24206,24208],1],{"_phylo_scaleGroups":[[[[[24206,24208],1],0],{"_phylo_groupAncestors":[],"_phylo_groupBranchId":[1,[0]],"_phylo_groupCooc":[[[7,7],3],[[7,8],3],[[7,11],3],[[7,24],3],[[8,8],4],[[8,11],3],[[8,24],4],[[11,11],3],[[11,24],3],[[24,24],4]],"_phylo_groupDensity":1.25,"_phylo_groupIndex":0,"_phylo_groupLabel":"","_phylo_groupMeta":{"breaks":[0],"seaLevels":[0]},"_phylo_groupNgrams":[7,8,11,24],"_phylo_groupPeriod":[24206,24208],"_phylo_groupPeriod'":["2017-05-01","2017-05-25"],"_phylo_groupPeriodChilds":[],"_phylo_groupPeriodMemoryChilds":[],"_phylo_groupPeriodMemoryParents":[],"_phylo_groupPeriodParents":[],"_phylo_groupRootsCount":{"1":1,"10":1,"11":3,"15":1,"24":4,"26":1,"32":1,"34":1,"36":1,"37":3,"38":1,"39":2,"4":1,"40":1,"41":1,"42":1,"44":1,"48":1,"49":3,"50":1,"51":1,"52":1,"53":3,"54":1,"55":1,"56":1,"57":2,"58":1,"59":1,"60":1,"61":2,"62":1,"63":1,"64":1,"65":1,"66":1,"7":3,"8":4},"_phylo_groupScale":1,"_phylo_groupScaleChilds":[],"_phylo_groupScaleParents":[],"_phylo_groupSources":[],"_phylo_groupSupport":3,"_phylo_groupWeight":3}],[[[[24206,24208],1],1],{"_phylo_groupAncestors":[],"_phylo_groupBranchId":[1,[0]],"_phylo_groupCooc":[[[8,8],4],[[8,24],4],[[8,37],3],[[8,53],3],[[24,24],4],[[24,37],3],[[24,53],3],[[37,37],3],[[37,53],3],[[53,53],3]],"_phylo_groupDensity":1.25,"_phylo_groupIndex":1,"_phylo_groupLabel":"","_phylo_groupMeta":{"breaks":[0],"seaLevels":[0]},"_phylo_groupNgrams":[8,24,37,53],"_phylo_groupPeriod":[24206,24208],"_phylo_groupPeriod'":["2017-05-01","2017-05-25"],"_phylo_groupPeriodChilds":[],"_phylo_groupPeriodMemoryChilds":[],"_phylo_groupPeriodMemoryParents":[],"_phylo_groupPeriodParents":[],"_phylo_groupRootsCount":{"1":1,"10":1,"11":3,"15":1,"24":4,"26":1,"32":1,"34":1,"36":1,"37":3,"38":1,"39":2,"4":1,"40":1,"41":1,"42":1,"44":1,"48":1,"49":3,"50":1,"51":1,"52":1,"53":3,"54":1,"55":1,"56":1,"57":2,"58":1,"59":1,"60":1,"61":2,"62":1,"63":1,"64":1,"65":1,"66":1,"7":3,"8":4},"_phylo_groupScale":1,"_phylo_groupScaleChilds":[],"_phylo_groupScaleParents":[],"_phylo_groupSources":[],"_phylo_groupSupport":3,"_phylo_groupWeight":3}],[[[[24206,24208],1],2],{"_phylo_groupAncestors":[],"_phylo_groupBranchId":[1,[0]],"_phylo_groupCooc":[[[8,8],4],[[8,24],4],[[8,49],3],[[24,24],4],[[24,49],3],[[49,49],3]],"_phylo_groupDensity":0.8333333333333334,"_phylo_groupIndex":2,"_phylo_groupLabel":"","_phylo_groupMeta":{"breaks":[0],"seaLevels":[0]},"_phylo_groupNgrams":[8,24,49],"_phylo_groupPeriod":[24206,24208],"_phylo_groupPeriod'":["2017-05-01","2017-05-25"],"_phylo_groupPeriodChilds":[],"_phylo_groupPeriodMemoryChilds":[],"_phylo_groupPeriodMemoryParents":[],"_phylo_groupPeriodParents":[],"_phylo_groupRootsCount":{"1":1,"10":1,"11":3,"15":1,"24":4,"26":1,"32":1,"34":1,"36":1,"37":3,"38":1,"39":2,"4":1,"40":1,"41":1,"42":1,"44":1,"48":1,"49":3,"50":1,"51":1,"52":1,"53":3,"54":1,"55":1,"56":1,"57":2,"58":1,"59":1,"60":1,"61":2,"62":1,"63":1,"64":1,"65":1,"66":1,"7":3,"8":4},"_phylo_groupScale":1,"_phylo_groupScaleChilds":[],"_phylo_groupScaleParents":[],"_phylo_groupSources":[],"_phylo_groupSupport":3,"_phylo_groupWeight":3}]],"_phylo_scalePeriod":[24206,24208],"_phylo_scalePeriodStr":["2017-05-01","2017-05-25"],"_phylo_scaleScale":1}]]}]],"_phylo_quality":0,"_phylo_seaLadder":[0.1,0.2,0.30000000000000004,0.4,0.5,0.6,0.7,0.7999999999999999,0.8999999999999999,0.9999999999999999],"_phylo_sources":{"_sources":[]}}
          \ No newline at end of file
          test/Test/Offline/Phylo.hs
          View file @ 1bff83b6
          ......@@ -7,33 +7,26 @@ module Test.Offline.Phylo (tests) where
          import Common
          import Data.Aeson as JSON
          import Data.Aeson.Encode.Pretty qualified as JSON
          import Data.Aeson.Types qualified as JSON
          import Data.ByteString.Lazy qualified as BL
          import Data.GraphViz.Attributes.Complete qualified as Graphviz
          import Data.Text.Encoding qualified as TE
          import Data.Text.Lazy as TL
          import Data.TreeDiff
          import Data.Vector qualified as V
          import Gargantext.Core.Text.List.Formats.CSV
          import Gargantext.Core.Types.Phylo
          import Gargantext.Core.Viz.Phylo
          import Gargantext.Core.Viz.Phylo.API
          import Gargantext.Core.Viz.Phylo.API.Tools (readPhylo, writePhylo, phylo2dot2json)
          import Gargantext.Core.Viz.Phylo hiding (EdgeType(..))
          import Gargantext.Core.Viz.Phylo.API.Tools (readPhylo, phylo2dot2json)
          import Gargantext.Core.Viz.Phylo.Example qualified as Cleopatre
          import Gargantext.Core.Viz.Phylo.PhyloExport
          import Gargantext.Core.Viz.Phylo.PhyloMaker (toPhylo, toPhyloWithoutLink)
          import Gargantext.Core.Viz.Phylo.PhyloTools
          import Paths_gargantext
          import Prelude
          import Test.QuickCheck
          import Test.QuickCheck.Monadic
          import Test.Tasty
          import Test.Tasty.HUnit
          import Test.Tasty.QuickCheck
          phyloConfig :: PhyloConfig
          phyloConfig = PhyloConfig {
          phyloTestConfig :: PhyloConfig
          phyloTestConfig = PhyloConfig {
          corpusPath = "corpus.csv"
          , listPath = "list.csv"
          , outputPath = "data/"
          ......@@ -70,7 +63,6 @@ tests = testGroup "Phylo" [
          testCase "is deterministic" testPhylo2dot2json
          ]
          , testGroup "toPhylo" [
          --testProperty "returns expected data" testSmallPhyloExpectedOutput
          testCase "is deterministic" testToPhyloDeterminism
          ]
          , testGroup "relatedComponents" [
          ......@@ -82,7 +74,7 @@ testCleopatreWithoutLinkExpectedOutput :: Assertion
          testCleopatreWithoutLinkExpectedOutput = do
          let actual = toPhyloWithoutLink Cleopatre.docs Cleopatre.config
          expected <- readPhylo =<< getDataFileName "test-data/phylo/cleopatre.golden.json"
          assertBool (show $ ansiWlEditExpr $ ediff' expected actual) (expected == actual)
          assertBool (show $ ansiWlEditExprCompact $ ediff expected actual) (expected == actual)
          testSmallPhyloWithoutLinkExpectedOutput :: Assertion
          testSmallPhyloWithoutLinkExpectedOutput = do
          ......@@ -97,31 +89,106 @@ testSmallPhyloWithoutLinkExpectedOutput = do
          (corpusPath config)
          [Year 3 1 5,Month 3 1 5,Week 4 2 5]
          mapList
          actual <- phylo2dot2json (toPhyloWithoutLink corpus config)
          expected_e <- JSON.eitherDecodeFileStrict' =<< getDataFileName "test-data/phylo/small-phylo.golden.json"
          case expected_e of
          Left err -> fail err
          Right (expected :: JSON.Value) -> do
          assertBool (show $ ansiWlEditExpr $ ediff' expected actual) (expected == actual)
          let actual = setConfig phyloTestConfig $ toPhyloWithoutLink corpus config
          expected <- setConfig phyloTestConfig <$> (readPhylo =<< getDataFileName "test-data/phylo/small-phylo.golden.json")
          assertBool (show $ ansiWlEditExpr $ ediff expected actual) (expected == actual)
          testPhylo2dot2json :: Assertion
          testPhylo2dot2json = do
          expected_e <- JSON.eitherDecodeFileStrict' =<< getDataFileName "test-data/phylo/phylo2dot2json.golden.json"
          case expected_e of
          Left err -> fail err
          Right (jsonBlob :: JSON.Value) -> do
          actualBlob <- phylo2dot2json Cleopatre.phyloCleopatre
          let prettyConfig = JSON.defConfig { JSON.confCompare = compare }
          let actualJSON = TE.decodeUtf8 (BL.toStrict $ JSON.encodePretty' prettyConfig $ jsonBlob)
          let expectedJSON = TE.decodeUtf8 (BL.toStrict $ JSON.encodePretty' prettyConfig $ actualBlob)
          assertBool ("JSON mismatch!" <> show (ansiWlEditExpr $ ediff' expectedJSON actualJSON)) (expectedJSON == actualJSON)
          testSmallPhyloExpectedOutput :: Property
          testSmallPhyloExpectedOutput = monadicIO $ do
          issue290PhyloSmall <- run $ setConfig phyloConfig <$> (readPhylo =<< getDataFileName "bench-data/phylo/issue-290-small.json")
          let actual = toPhylo issue290PhyloSmall
          expected <- run $ readPhylo =<< getDataFileName "test-data/phylo/issue-290-small.golden.json"
          pure $ counterexample (show $ ansiWlEditExpr $ ediff' expected actual) (expected === actual)
          Right (expected :: GraphData) -> do
          actual_e <- JSON.parseEither JSON.parseJSON <$> phylo2dot2json Cleopatre.phyloCleopatre
          case actual_e of
          Left err -> fail err
          Right (actual :: GraphData) -> do
          assertBool ("Phylo mismatch!" <> show (ansiWlEditExpr $ ediff expected actual)) (expected `compareGraphDataFuzzy` actual)
          compareGraphDataFuzzy :: GraphData -> GraphData -> Bool
          compareGraphDataFuzzy gd1 gd2 =
          and [ _gd__subgraph_cnt gd1 == _gd__subgraph_cnt gd2
          , _gd_directed gd1 == _gd_directed gd2
          , and $ Prelude.map (uncurry compareEdgeDataFuzzy) $ Prelude.zip (_gd_edges gd1) (_gd_edges gd2)
          , and $ Prelude.map (uncurry compareObjectDataFuzzy) $ Prelude.zip (_gd_objects gd1) (_gd_objects gd2)
          , _gd_strict gd1 == _gd_strict gd2
          , _gd_data gd1 `compareGraphDataDataFuzzy` _gd_data gd2
          ]
          where
          gdd1 `compareEdgeDataFuzzy` ggd2 = case (gdd1, ggd2) of
          (GroupToAncestor gvId1 ecd1 gad1, GroupToAncestor gvId2 ecd2 gad2)
          -> and [ gvId1 == gvId2, ecd1 `compareEdgeCommonDataFuzzy` ecd2, gad1 == gad2 ]
          (GroupToAncestor{}, _)
          -> False
          (GroupToGroup gvId1 ecd1 gd1', GroupToGroup gvId2 ecd2 gd2')
          -> and [ gvId1 == gvId2, ecd1 `compareEdgeCommonDataFuzzy` ecd2, gd1' == gd2' ]
          (GroupToGroup{}, _)
          -> False
          (BranchToGroup gvId1 ecd1 bgd1, BranchToGroup gvId2 ecd2 bgd2)
          -> and [ gvId1 == gvId2, ecd1 `compareEdgeCommonDataFuzzy` ecd2, bgd1 == bgd2 ]
          (BranchToGroup{}, _)
          -> False
          (PeriodToPeriod gvId1 ecd1, PeriodToPeriod gvId2 ecd2)
          -> and [ gvId1 == gvId2, ecd1 `compareEdgeCommonDataFuzzy` ecd2 ]
          (PeriodToPeriod{}, _)
          -> False
          gdd1 `compareObjectDataFuzzy` ggd2 = case (gdd1, ggd2) of
          (GroupToNode gvId1 ncd1 gnd1, GroupToNode gvId2 ncd2 gnd2)
          -> and [ gvId1 == gvId2, ncd1 `compareNodeCommonDataFuzzy` ncd2, gnd1 == gnd2 ]
          (GroupToNode{}, _)
          -> False
          (BranchToNode gvId1 ncd1 bnd1, BranchToNode gvId2 ncd2 bnd2)
          -> and [ gvId1 == gvId2, ncd1 `compareNodeCommonDataFuzzy` ncd2, bnd1 == bnd2 ]
          (BranchToNode{}, _)
          -> False
          (PeriodToNode gvId1 ncd1 pnd1, PeriodToNode gvId2 ncd2 pnd2)
          -> and [ gvId1 == gvId2, ncd1 `compareNodeCommonDataFuzzy` ncd2, pnd1 == pnd2 ]
          (PeriodToNode{}, _)
          -> False
          (Layer gvId1 gdd1' ld1, Layer gvId2 gdd2 ld2)
          -> and [ gvId1 == gvId2, gdd1' `compareGraphDataDataFuzzy` gdd2, ld1 == ld2 ]
          (Layer{}, _)
          -> False
          gdd1 `compareNodeCommonDataFuzzy` ggd2 =
          -- Excluded fields: pos, width, height.
          and [ _nd_label gdd1 == _nd_label ggd2
          , _nd_name gdd1 == _nd_name ggd2
          , _nd_nodeType gdd1 == _nd_nodeType ggd2
          , _nd_shape gdd1 == _nd_shape ggd2
          ]
          gdd1 `compareEdgeCommonDataFuzzy` gdd2 =
          -- Excluded fields: pos, width.
          and [ _ed_color gdd1 == _ed_color gdd2
          , _ed_head gdd1 == _ed_head gdd2
          , _ed_tail gdd1 == _ed_tail gdd2
          ]
          gdd1 `compareGraphDataDataFuzzy` ggd2 =
          -- Excluded fields: bb, lp, lheight, lwidth.
          and [ _gdd_color gdd1 == _gdd_color ggd2
          , _gdd_fontsize gdd1 == _gdd_fontsize ggd2
          , _gdd_label gdd1 == _gdd_label ggd2
          , _gdd_labelloc gdd1 == _gdd_labelloc ggd2
          , _gdd_name gdd1 == _gdd_name ggd2
          , _gdd_nodesep gdd1 == _gdd_nodesep ggd2
          , _gdd_overlap gdd1 == _gdd_overlap ggd2
          , _gdd_phyloBranches gdd1 == _gdd_phyloBranches ggd2
          , _gdd_phyloDocs gdd1 == _gdd_phyloDocs ggd2
          , _gdd_phyloFoundations gdd1 == _gdd_phyloFoundations ggd2
          , _gdd_phyloGroups gdd1 == _gdd_phyloGroups ggd2
          , _gdd_phyloPeriods gdd1 == _gdd_phyloPeriods ggd2
          , _gdd_phyloSources gdd1 == _gdd_phyloSources ggd2
          , _gdd_phyloTerms gdd1 == _gdd_phyloTerms ggd2
          , _gdd_phyloTimeScale gdd1 == _gdd_phyloTimeScale ggd2
          , _gdd_rank gdd1 == _gdd_rank ggd2
          , _gdd_ranksep gdd1 == _gdd_ranksep ggd2
          , _gdd_ratio gdd1 == _gdd_ratio ggd2
          , _gdd_splines gdd1 == _gdd_splines ggd2
          , _gdd_style gdd1 == _gdd_style ggd2
          ]
          test_ngramsToLabel_01 :: Assertion
          test_ngramsToLabel_01 =
          ......@@ -149,30 +216,17 @@ testRelComp_Connected = do
          testToPhyloDeterminism :: Assertion
          testToPhyloDeterminism = do
          -- Acquire the config from the golden file.
          expected_e <- JSON.eitherDecodeFileStrict' =<< getDataFileName "test-data/phylo/187481.json"
          case expected_e of
          Left err -> fail err
          Right (pd :: PhyloData) -> do
          let goldenCfg = pd_config pd
          corpusPath' <- getDataFileName "test-data/phylo/GarganText_DocsList-nodeId-187481.csv"
          listPath' <- getDataFileName "test-data/phylo/GarganText_NgramsList-187482.csv"
          let config = goldenCfg { corpusPath = corpusPath'
          , listPath = listPath'
          , listParser = V3
          }
          mapList <- csvMapTermList (listPath config)
          corpus <- fileToDocsDefault (corpusParser config)
          (corpusPath config)
          [Year 3 1 5,Month 3 1 5,Week 4 2 5]
          mapList
          let actualPhylo = toPhylo $ toPhyloWithoutLink corpus config
          actual_e <- JSON.parseEither JSON.parseJSON <$> phylo2dot2json actualPhylo
          case actual_e of
          Left err -> fail err
          Right (expected :: GraphData) -> do
          assertBool ("Phylo mismatch! " <> show (ansiWlEditExpr $ ediff' expected (pd_data pd))) (expected == pd_data pd)
          let prettyConfig = JSON.defConfig { JSON.confCompare = compare }
          let actualJSON = TE.decodeUtf8 (BL.toStrict $ JSON.encodePretty' prettyConfig $ pd_data pd)
          let expectedJSON = TE.decodeUtf8 (BL.toStrict $ JSON.encodePretty' prettyConfig $ expected)
          assertBool ("JSON mismatch!" <> show (ansiWlEditExpr $ ediff' expectedJSON actualJSON)) (expectedJSON == actualJSON)
          corpusPath' <- getDataFileName "test-data/phylo/GarganText_DocsList-nodeId-187481.csv"
          listPath' <- getDataFileName "test-data/phylo/GarganText_NgramsList-187482.csv"
          let config = phyloTestConfig { corpusPath = corpusPath'
          , listPath = listPath'
          , listParser = V3
          }
          mapList <- csvMapTermList (listPath config)
          corpus <- fileToDocsDefault (corpusParser config)
          (corpusPath config)
          [Year 3 1 5,Month 3 1 5,Week 4 2 5]
          mapList
          let actual = setConfig phyloTestConfig $ toPhylo $ toPhyloWithoutLink corpus config
          expected <- setConfig phyloTestConfig <$> (readPhylo =<< getDataFileName "test-data/phylo/187481.json")
          assertBool ("Phylo mismatch! " <> show (ansiWlEditExprCompact $ ediff expected actual)) (expected == actual)
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