src/Gargantext/Core/Text/Metrics.hs

   1 {-|
   2 Module      : Gargantext.Core.Text.Metrics
   3 Description : All parsers of Gargantext in one file.
   4 Copyright   : (c) CNRS, 2017 - present
   5 License     : AGPL + CECILL v3
   6 Maintainer  : team@gargantext.org
   7 Stability   : experimental
   8 Portability : POSIX
   9
  10 Mainly reexport functions in @Data.Text.Metrics@
  11
  12 -}
  13
  14 {-# LANGUAGE TemplateHaskell   #-}
  15
  16 module Gargantext.Core.Text.Metrics
  17   where
  18
  19 --import Data.Array.Accelerate ((:.)(..), Z(..))
  20 --import Math.KMeans (kmeans, euclidSq, elements)
  21 import Control.Lens (makeLenses)
  22 import Data.Map (Map)
  23 import Data.Monoid (Monoid, mempty)
  24 import Data.HashMap.Strict (HashMap)
  25 import Data.Semigroup (Semigroup)
  26 import Gargantext.Core.Methods.Distances.Accelerate.SpeGen
  27 import Gargantext.Core.Statistics (pcaReduceTo, Dimension(..))
  28 import Gargantext.Core.Viz.Graph.Index
  29 import Gargantext.Prelude
  30 import qualified Data.Array.Accelerate as DAA
  31 import qualified Data.Array.Accelerate.Interpreter as DAA
  32 import qualified Data.Map  as Map
  33 import qualified Data.Vector as V
  34 import qualified Data.Vector.Storable as Vec
  35 import qualified Data.HashMap.Strict as HashMap
  36
  37
  38 type MapListSize = Int
  39 type InclusionSize = Int
  40
  41 scored :: Ord t => HashMap (t,t) Int -> V.Vector (Scored t)
  42 scored = map2scored . (pcaReduceTo (Dimension 2)) . scored2map . Map.fromList . HashMap.toList
  43   where
  44     scored2map :: Ord t => Map (t,t) Int -> Map t (Vec.Vector Double)
  45     scored2map m = Map.fromList $ map (\(Scored t i s) -> (t, Vec.fromList [i,s])) $ scored' m
  46
  47     map2scored :: Ord t => Map t (Vec.Vector Double) -> V.Vector (Scored t)
  48     map2scored = V.map (\(t, ds) -> Scored t (Vec.head ds) (Vec.last ds)) . V.fromList . Map.toList
  49
  50 -- TODO change type with (x,y)
  51 data Scored ts = Scored
  52   { _scored_terms  :: !ts
  53   , _scored_genInc :: !GenericityInclusion
  54   , _scored_speExc :: !SpecificityExclusion
  55   } deriving (Show, Eq, Ord)
  56
  57 instance Monoid a => Monoid (Scored a) where
  58   mempty = Scored mempty mempty mempty
  59
  60 instance Semigroup a => Semigroup (Scored a) where
  61   (<>) (Scored a  b  c )
  62        (Scored _a' b' c')
  63       = Scored (a {-<> a'-})
  64                (b <> b')
  65                (c <> c')
  66
  67 localMetrics' :: Ord t => Map (t,t) Int -> Map t (Vec.Vector Double)
  68 localMetrics' m = Map.fromList $ zipWith (\(_,t) (inc,spe) -> (t, Vec.fromList [inc,spe]))
  69                                          (Map.toList fi)
  70                                           scores
  71   where
  72     (ti, fi) = createIndices m
  73     (is, ss) = incExcSpeGen $ cooc2mat Triangle ti m
  74     scores   = DAA.toList
  75              $ DAA.run
  76              $ DAA.zip (DAA.use is) (DAA.use ss)
  77
  78 -- TODO Code to be removed below
  79 -- TODO in the textflow we end up needing these indices , it might be
  80 -- better to compute them earlier and pass them around.
  81 scored' :: Ord t => Map (t,t) Int -> [Scored t]
  82 scored' m = zipWith (\(_,t) (inc,spe) -> Scored t inc spe) (Map.toList fi) scores
  83   where
  84     (ti, fi) = createIndices m
  85     (is, ss) = incExcSpeGen $ cooc2mat Triangle ti m
  86     scores   = DAA.toList
  87              $ DAA.run
  88              $ DAA.zip (DAA.use is) (DAA.use ss)
  89
  90
  91 normalizeGlobal :: [Scored a] -> [Scored a]
  92 normalizeGlobal ss = map (\(Scored t s1 s2)
  93                      -> Scored t ((s1 - s1min) / s1max)
  94                                  ((s2 - s2min) / s2max)) ss
  95   where
  96     ss1 = map _scored_genInc ss
  97     ss2 = map _scored_speExc ss
  98
  99     s1min = minimum ss1
 100     s1max = maximum ss1
 101
 102     s2min = minimum ss2
 103     s2max = maximum ss2
 104
 105
 106
 107 normalizeLocal :: Scored a -> Scored a
 108 normalizeLocal (Scored t s1 s2) = Scored t (log' 5 s1) (log' 2 s2)
 109   where
 110     log' n' x = 1 + (if x <= 0 then 0 else log $ (10^(n'::Int)) * x)
 111
 112
 113
 114 -- | Type Instances
 115 makeLenses 'Scored