{-| Module : Gargantext.Core.Viz.Phylo.SynchronicClustering Description : Module dedicated to the adaptative synchronic clustering of a Phylo. Copyright : (c) CNRS, 2017-Present License : AGPL + CECILL v3 Maintainer : team@gargantext.org Stability : experimental Portability : POSIX -} module Gargantext.Core.Viz.Phylo.SynchronicClustering where import Gargantext.Prelude import Gargantext.Core.Viz.AdaptativePhylo import Gargantext.Core.Viz.Phylo.PhyloTools import Gargantext.Core.Viz.Phylo.TemporalMatching (weightedLogJaccard', filterDiago, reduceDiagos) import Gargantext.Core.Viz.Phylo.PhyloExport (processDynamics) import Data.List ((++), null, intersect, nub, concat, sort, sortOn, all, groupBy) import Data.Map (Map, fromList, fromListWith, foldlWithKey, (!), insert, empty, restrictKeys, elems, mapWithKey, member) import Control.Lens hiding (Level) import Control.Parallel.Strategies (parList, rdeepseq, using) -- import Debug.Trace (trace) import qualified Data.Map as Map ------------------------- -- | New Level Maker | -- ------------------------- mergeGroups :: [Cooc] -> PhyloGroupId -> Map PhyloGroupId PhyloGroupId -> [PhyloGroup] -> PhyloGroup mergeGroups coocs id mapIds childs = let ngrams = (sort . nub . concat) $ map _phylo_groupNgrams childs in PhyloGroup (fst $ fst id) (snd $ fst id) (snd id) "" (sum $ map _phylo_groupSupport childs) ngrams (ngramsToCooc ngrams coocs) ((snd $ fst id),bId) (mergeMeta bId childs) [] (map (\g -> (getGroupId g, 1)) childs) (updatePointers $ concat $ map _phylo_groupPeriodParents childs) (updatePointers $ concat $ map _phylo_groupPeriodChilds childs) [] where -------------------- bId :: [Int] bId = mergeBranchIds $ map (\g -> snd $ g ^. phylo_groupBranchId) childs -------------------- updatePointers :: [Pointer] -> [Pointer] updatePointers pointers = map (\(pId,w) -> (mapIds ! pId,w)) pointers addPhyloLevel :: Level -> Phylo -> Phylo addPhyloLevel lvl phylo = over ( phylo_periods . traverse ) (\phyloPrd -> phyloPrd & phylo_periodLevels %~ (insert (phyloPrd ^. phylo_periodPeriod, lvl) (PhyloLevel (phyloPrd ^. phylo_periodPeriod) lvl empty))) phylo toNextLevel' :: Phylo -> [PhyloGroup] -> Phylo toNextLevel' phylo groups = let curLvl = getLastLevel phylo oldGroups = fromList $ map (\g -> (getGroupId g, getLevelParentId g)) groups newGroups = concat $ groupsToBranches $ fromList $ map (\g -> (getGroupId g, g)) $ foldlWithKey (\acc id groups' -> -- 4) create the parent group let parent = mergeGroups (elems $ restrictKeys (phylo ^. phylo_timeCooc) $ periodsToYears [(fst . fst) id]) id oldGroups groups' in acc ++ [parent]) [] -- 3) group the current groups by parentId $ fromListWith (++) $ map (\g -> (getLevelParentId g, [g])) groups newPeriods = fromListWith (++) $ map (\g -> (g ^. phylo_groupPeriod, [g])) newGroups in traceSynchronyEnd $ over ( phylo_periods . traverse . phylo_periodLevels . traverse -- 6) update each period at curLvl + 1 . filtered (\phyloLvl -> phyloLvl ^. phylo_levelLevel == (curLvl + 1))) -- 7) by adding the parents (\phyloLvl -> if member (phyloLvl ^. phylo_levelPeriod) newPeriods then phyloLvl & phylo_levelGroups .~ fromList (map (\g -> (getGroupId g, g)) $ newPeriods ! (phyloLvl ^. phylo_levelPeriod)) else phyloLvl) -- 2) add the curLvl + 1 phyloLevel to the phylo $ addPhyloLevel (curLvl + 1) -- 1) update the current groups (with level parent pointers) in the phylo $ updatePhyloGroups curLvl (fromList $ map (\g -> (getGroupId g, g)) groups) phylo -------------------- -- | Clustering | -- -------------------- toPairs :: SynchronyStrategy -> [PhyloGroup] -> [(PhyloGroup,PhyloGroup)] toPairs strategy groups = case strategy of MergeRegularGroups -> pairs $ filter (\g -> all (== 3) $ (g ^. phylo_groupMeta) ! "dynamics") groups MergeAllGroups -> pairs groups where pairs :: [PhyloGroup] -> [(PhyloGroup,PhyloGroup)] pairs gs = filter (\(g,g') -> (not . null) $ intersect (g ^. phylo_groupNgrams) (g' ^. phylo_groupNgrams)) (listToCombi' gs) toDiamonds :: [PhyloGroup] -> [[PhyloGroup]] toDiamonds groups = foldl' (\acc groups' -> acc ++ ( elems $ Map.filter (\v -> length v > 1) $ fromListWith (++) $ foldl' (\acc' g -> acc' ++ (map (\(id,_) -> (id,[g]) ) $ g ^. phylo_groupPeriodChilds)) [] groups')) [] $ elems $ Map.filter (\v -> length v > 1) $ fromListWith (++) $ foldl' (\acc g -> acc ++ (map (\(id,_) -> (id,[g]) ) $ g ^. phylo_groupPeriodParents) ) [] groups groupsToEdges :: Proximity -> Synchrony -> Double -> Map Int Double -> [PhyloGroup] -> [((PhyloGroup,PhyloGroup),Double)] groupsToEdges prox sync nbDocs diago groups = case sync of ByProximityThreshold thr sens _ strat -> filter (\(_,w) -> w >= thr) $ toEdges sens $ toPairs strat groups ByProximityDistribution sens strat -> let diamonds = sortOn snd $ toEdges sens $ concat $ map (\gs -> toPairs strat gs) $ toDiamonds groups in take (div (length diamonds) 2) diamonds where toEdges :: Double -> [(PhyloGroup,PhyloGroup)] -> [((PhyloGroup,PhyloGroup),Double)] toEdges sens edges = case prox of WeightedLogJaccard _ -> map (\(g,g') -> ((g,g'), weightedLogJaccard' sens nbDocs diago (g ^. phylo_groupNgrams) (g' ^. phylo_groupNgrams))) edges _ -> undefined toParentId :: PhyloGroup -> PhyloGroupId toParentId child = ((child ^. phylo_groupPeriod, child ^. phylo_groupLevel + 1), child ^. phylo_groupIndex) reduceGroups :: Proximity -> Synchrony -> Map Date Double -> Map Date Cooc -> [PhyloGroup] -> [PhyloGroup] reduceGroups prox sync docs diagos branch = -- 1) reduce a branch as a set of periods & groups let periods = fromListWith (++) $ map (\g -> (g ^. phylo_groupPeriod,[g])) branch in (concat . concat . elems) $ mapWithKey (\prd groups -> -- 2) for each period, transform the groups as a proximity graph filtered by a threshold let diago = reduceDiagos $ filterDiago diagos [prd] edges = groupsToEdges prox sync ((sum . elems) $ restrictKeys docs $ periodsToYears [prd]) diago groups in map (\comp -> -- 4) add to each groups their futur level parent group let parentId = toParentId (head' "parentId" comp) in map (\g -> g & phylo_groupLevelParents %~ (++ [(parentId,1)]) ) comp ) -- 3) reduce the graph a a set of related components $ toRelatedComponents groups edges) periods adjustClustering :: Synchrony -> [[PhyloGroup]] -> [[PhyloGroup]] adjustClustering sync branches = case sync of ByProximityThreshold _ _ scope _ -> case scope of SingleBranch -> branches SiblingBranches -> groupBy (\g g' -> (last' "adjustClustering" $ (g ^. phylo_groupMeta) ! "breaks") == (last' "adjustClustering" $ (g' ^. phylo_groupMeta) ! "breaks")) $ sortOn _phylo_groupBranchId $ concat branches AllBranches -> [concat branches] ByProximityDistribution _ _ -> branches synchronicClustering :: Phylo -> Phylo synchronicClustering phylo = let prox = phyloProximity $ getConfig phylo sync = phyloSynchrony $ getConfig phylo docs = phylo ^. phylo_timeDocs diagos = map coocToDiago $ phylo ^. phylo_timeCooc newBranches = map (\branch -> reduceGroups prox sync docs diagos branch) $ map processDynamics $ adjustClustering sync $ phyloToLastBranches $ traceSynchronyStart phylo newBranches' = newBranches `using` parList rdeepseq in toNextLevel' phylo $ concat newBranches' -- synchronicDistance :: Phylo -> Level -> String -- synchronicDistance phylo lvl = -- foldl' (\acc branch -> -- acc <> (foldl' (\acc' period -> -- acc' <> let prox = phyloProximity $ getConfig phylo -- sync = phyloSynchrony $ getConfig phylo -- docs = _phylo_timeDocs phylo -- prd = _phylo_groupPeriod $ head' "distance" period -- edges = groupsToEdges prox 0.1 (_bpt_sensibility sync) -- ((sum . elems) $ restrictKeys docs $ periodsToYears [_phylo_groupPeriod $ head' "distance" period]) period -- in foldl' (\mem (_,w) -> -- mem <> show (prd) -- <> "\t" -- <> show (w) -- <> "\n" -- ) "" edges -- ) "" $ elems $ groupByField _phylo_groupPeriod branch) -- ) "period\tdistance\n" $ elems $ groupByField _phylo_groupBranchId $ getGroupsFromLevel lvl phylo