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haskell-gargantext
haskell-gargantext
Commit 69fa22f7 authored by Alfredo Di Napoli's avatar Alfredo Di Napoli
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Add Phylo golden tests

parent e1418b58
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Showing with 7500 additions and 11 deletions
gargantext.cabal
View file @ 69fa22f7
...@@ -26,6 +26,8 @@ data-files: ...@@ -26,6 +26,8 @@ data-files:
ekg-assets/chart_line_add.png ekg-assets/chart_line_add.png
ekg-assets/cross.png ekg-assets/cross.png
test-data/ngrams/GarganText_NgramsTerms-QuantumComputing.json test-data/ngrams/GarganText_NgramsTerms-QuantumComputing.json
test-data/phylo/bpa_phylo_test.json
test-data/phylo/open_science.json
library library
exposed-modules: exposed-modules:
......
package.yaml
View file @ 69fa22f7
...@@ -45,6 +45,8 @@ data-files: ...@@ -45,6 +45,8 @@ data-files:
- ekg-assets/chart_line_add.png - ekg-assets/chart_line_add.png
- ekg-assets/cross.png - ekg-assets/cross.png
- test-data/ngrams/GarganText_NgramsTerms-QuantumComputing.json - test-data/ngrams/GarganText_NgramsTerms-QuantumComputing.json
- test-data/phylo/bpa_phylo_test.json
- test-data/phylo/open_science.json
library: library:
source-dirs: src source-dirs: src
ghc-options: ghc-options:
......
src-test/Offline/JSON.hs
View file @ 69fa22f7
...@@ -16,8 +16,11 @@ import Test.Tasty ...@@ -16,8 +16,11 @@ import Test.Tasty
import Test.Tasty.HUnit import Test.Tasty.HUnit
import Test.Tasty.QuickCheck import Test.Tasty.QuickCheck
import Text.RawString.QQ import Text.RawString.QQ
import qualified Data.ByteString as B
import qualified Data.ByteString.Lazy.Char8 as C8 import qualified Data.ByteString.Lazy.Char8 as C8
import Paths_gargantext
jsonRoundtrip :: (Show a, FromJSON a, ToJSON a, Eq a) => a -> Property jsonRoundtrip :: (Show a, FromJSON a, ToJSON a, Eq a) => a -> Property
jsonRoundtrip a = jsonRoundtrip a =
counterexample ("Parsed JSON: " <> C8.unpack (encode a)) $ eitherDecode (encode a) === Right a counterexample ("Parsed JSON: " <> C8.unpack (encode a)) $ eitherDecode (encode a) === Right a
...@@ -33,6 +36,9 @@ tests = testGroup "JSON" [ ...@@ -33,6 +36,9 @@ tests = testGroup "JSON" [
, testProperty "GraphDataData" (jsonRoundtrip @GraphDataData) , testProperty "GraphDataData" (jsonRoundtrip @GraphDataData)
, testProperty "ObjectData" (jsonRoundtrip @ObjectData) , testProperty "ObjectData" (jsonRoundtrip @ObjectData)
, testProperty "PhyloData" (jsonRoundtrip @PhyloData) , testProperty "PhyloData" (jsonRoundtrip @PhyloData)
, testProperty "LayerData" (jsonRoundtrip @LayerData)
, testCase "can parse bpa_phylo_test.json" testParseBpaPhylo
, testCase "can parse open_science.json" testOpenSciencePhylo
] ]
] ]
...@@ -46,3 +52,19 @@ testWithQueryFrontend = do ...@@ -46,3 +52,19 @@ testWithQueryFrontend = do
-- instances, this test would fail, and we will be notified. -- instances, this test would fail, and we will be notified.
cannedWithQueryPayload :: String cannedWithQueryPayload :: String
cannedWithQueryPayload = [r| {"query":"Haskell","node_id":138,"lang":"EN","flowListWith":{"type":"MyListsFirst"},"datafield":"External Arxiv","databases":"Arxiv"} |] cannedWithQueryPayload = [r| {"query":"Haskell","node_id":138,"lang":"EN","flowListWith":{"type":"MyListsFirst"},"datafield":"External Arxiv","databases":"Arxiv"} |]
testParseBpaPhylo :: Assertion
testParseBpaPhylo = do
pth <- getDataFileName "test-data/phylo/bpa_phylo_test.json"
jsonBlob <- B.readFile pth
case eitherDecodeStrict' @GraphData jsonBlob of
Left err -> error err
Right _ -> pure ()
testOpenSciencePhylo :: Assertion
testOpenSciencePhylo = do
pth <- getDataFileName "test-data/phylo/open_science.json"
jsonBlob <- B.readFile pth
case eitherDecodeStrict' @PhyloData jsonBlob of
Left err -> error err
Right _ -> pure ()
src/Gargantext/Core/Types/Phylo.hs
View file @ 69fa22f7
...@@ -33,6 +33,7 @@ import Control.Applicative ((<|>)) ...@@ -33,6 +33,7 @@ import Control.Applicative ((<|>))
import Data.Aeson import Data.Aeson
import Data.Aeson.Types import Data.Aeson.Types
import Data.Aeson.TH (deriveJSON) import Data.Aeson.TH (deriveJSON)
import Data.Maybe
import Data.Monoid import Data.Monoid
import Data.Swagger import Data.Swagger
import Data.Text (Text) import Data.Text (Text)
...@@ -395,7 +396,7 @@ instance ToJSON LayerData where ...@@ -395,7 +396,7 @@ instance ToJSON LayerData where
instance FromJSON LayerData where instance FromJSON LayerData where
parseJSON = withObject "LayerData" $ \o -> do parseJSON = withObject "LayerData" $ \o -> do
_ld_nodes <- o .: "nodes" _ld_nodes <- fromMaybe mempty <$> (o .:? "nodes")
pure $ LayerData{..} pure $ LayerData{..}
data NodeCommonData = data NodeCommonData =
...@@ -447,6 +448,7 @@ data EdgeData ...@@ -447,6 +448,7 @@ data EdgeData
= GroupToAncestor !GvId !EdgeCommonData !GroupToAncestorData = GroupToAncestor !GvId !EdgeCommonData !GroupToAncestorData
| GroupToGroup !GvId !EdgeCommonData !GroupToGroupData | GroupToGroup !GvId !EdgeCommonData !GroupToGroupData
| BranchToGroup !GvId !EdgeCommonData !BranchToGroupData | BranchToGroup !GvId !EdgeCommonData !BranchToGroupData
| PeriodToPeriod !GvId !EdgeCommonData
deriving (Show, Eq, Generic) deriving (Show, Eq, Generic)
data GroupToAncestorData data GroupToAncestorData
...@@ -516,13 +518,15 @@ instance FromJSON GvId where ...@@ -516,13 +518,15 @@ instance FromJSON GvId where
instance ToJSON EdgeData where instance ToJSON EdgeData where
toJSON = \case toJSON = \case
GroupToAncestor gvid commonData edgeTypeData GroupToAncestor gvid commonData edgeTypeData
-> mkEdge "ancestorLink" gvid commonData edgeTypeData -> mkEdge (Just "ancestorLink") gvid commonData edgeTypeData
GroupToGroup gvid commonData edgeTypeData GroupToGroup gvid commonData edgeTypeData
-> mkEdge "link" gvid commonData edgeTypeData -> mkEdge (Just "link") gvid commonData edgeTypeData
BranchToGroup gvid commonData edgeTypeData BranchToGroup gvid commonData edgeTypeData
-> mkEdge "branchLink" gvid commonData edgeTypeData -> mkEdge (Just "branchLink") gvid commonData edgeTypeData
PeriodToPeriod gvid commonData
-> mkEdge Nothing gvid commonData (Object mempty)
mkEdge :: ToJSON a => Text -> GvId -> EdgeCommonData -> a -> Value mkEdge :: ToJSON a => Maybe Text -> GvId -> EdgeCommonData -> a -> Value
mkEdge edgeType gvid commonData edgeTypeData = mkEdge edgeType gvid commonData edgeTypeData =
let commonDataJSON = toJSON commonData let commonDataJSON = toJSON commonData
edgeTypeDataJSON = toJSON edgeTypeData edgeTypeDataJSON = toJSON edgeTypeData
...@@ -537,18 +541,19 @@ mkEdge edgeType gvid commonData edgeTypeData = ...@@ -537,18 +541,19 @@ mkEdge edgeType gvid commonData edgeTypeData =
instance FromJSON EdgeData where instance FromJSON EdgeData where
parseJSON = withObject "EdgeData" $ \o -> do parseJSON = withObject "EdgeData" $ \o -> do
edgeType <- o .: "edgeType" edgeType <- o .:? "edgeType"
gvid <- o .: "_gvid" gvid <- o .: "_gvid"
_ed_color <- o .: "color" _ed_color <- o .: "color"
_ed_head <- o .: "head" _ed_head <- o .: "head"
_ed_pos <- o .: "pos" _ed_pos <- o .: "pos"
_ed_tail <- o .: "tail" _ed_tail <- o .: "tail"
_ed_width <- o .: "width" _ed_width <- o .: "width"
case (edgeType :: Text) of case (edgeType :: Maybe Text) of
"ancestorLink" -> GroupToAncestor <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o) Just "ancestorLink" -> GroupToAncestor <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o)
"link" -> GroupToGroup <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o) Just "link" -> GroupToGroup <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o)
"branchLink" -> BranchToGroup <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o) Just "branchLink" -> BranchToGroup <$> pure gvid <*> pure EdgeCommonData{..} <*> parseJSON (Object o)
_ -> fail $ "EdgeData: unrecognised edgeType for Phylo graph: " <> T.unpack edgeType Just unknownEdgeType -> fail $ "EdgeData: unrecognised edgeType for Phylo graph: " <> T.unpack unknownEdgeType
Nothing -> pure $ PeriodToPeriod gvid EdgeCommonData{..}
instance ToJSON EdgeCommonData where instance ToJSON EdgeCommonData where
toJSON EdgeCommonData{..} = object toJSON EdgeCommonData{..} = object
......
test-data/phylo/bpa_phylo_test.json 0 → 100644
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test-data/phylo/open_science.json 0 → 100644
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{
"pd_data": {
"phyloSources": "[]",
"directed": true,
"phyloTimeScale": "year",
"color": "white",
"strict": false,
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"objects": [
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Branches peaks",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 0,
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20002002",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 1,
"nodes": [
23
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20012003",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 2,
"nodes": [
24
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20022004",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 3,
"nodes": [
25
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20032005",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 4,
"nodes": [
26
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20042006",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 5,
"nodes": [
27
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20052007",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 6,
"nodes": [
28
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20062008",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 7,
"nodes": [
29
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20072009",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 8,
"nodes": [
30
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20082010",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 9,
"nodes": [
31
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20092011",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 10,
"nodes": [
32
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20102012",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 11,
"nodes": [
33
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20112013",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 12,
"nodes": [
34
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20122014",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 13,
"nodes": [
35
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20132015",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 14,
"nodes": [
36
],
"label": "Phylo Name",
"rank": "same",
"lp": "142,2918.5",
"style": "filled",
"phyloQuality": "0.2253686608796909",
"bb": "0,0,284,2939",
"overlap": "scale",
"splines": "spline",
"nodesep": "1",
"phyloDocs": "313.0",
"phyloPeriods": "22",
"ranksep": "1",
"phyloBranches": "0",
"phyloSeaRiseStart": "0.1",
"phyloSeaRiseSteps": "0.1"
},
{
"phyloSources": "[]",
"phyloTimeScale": "year",
"color": "white",
"lheight": "0.46",
"fontsize": "30",
"phyloGroups": "0",
"labelloc": "t",
"ratio": "fill",
"phyloTerms": "0",
"name": "Period20142016",
"lwidth": "2.51",
"PhyloScale": "0.2",
"phyloFoundations": "346",
"_gvid": 15,
"nodes": [
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