{-| Module : Gargantext.Core.Text.Corpus.Parsers Description : All parsers of Gargantext in one file. Copyright : (c) CNRS, 2017 License : AGPL + CECILL v3 Maintainer : team@gargantext.org Stability : experimental Portability : POSIX Gargantext enables analyzing semi-structured text that should be parsed in order to be analyzed. The parsers suppose we know the format of the Text (TextFormat data type) according to which the right parser is chosen among the list of available parsers. This module mainly describe how to add a new parser to Gargantext, please follow the types. -} {-# LANGUAGE PackageImports #-} module Gargantext.Core.Text.Corpus.Parsers (FileFormat(..), clean, parseFile, cleanText, parseFormat) where import "zip" Codec.Archive.Zip (withArchive, getEntry, getEntries) import Control.Concurrent.Async as CCA (mapConcurrently) import Data.Attoparsec.ByteString (parseOnly, Parser) import Control.Monad (join) import Data.Either(Either(..)) import Data.Either.Extra (partitionEithers) import Data.List (concat, lookup) import Data.Ord() import Data.String (String()) import Data.String() import Data.Text (Text) import Data.Text.Encoding (decodeUtf8) import Data.Tuple.Extra (both, first, second) import System.FilePath (FilePath(), takeExtension) import qualified Data.ByteString as DB import qualified Data.ByteString.Char8 as DBC import qualified Data.ByteString.Lazy as DBL import qualified Data.Map as DM import qualified Data.Text as DT import qualified Prelude as Prelude import System.IO.Temp (emptySystemTempFile) import Gargantext.Core (Lang(..)) import Gargantext.Database.Admin.Types.Hyperdata (HyperdataDocument(..)) import Gargantext.Prelude import Gargantext.Core.Text.Corpus.Parsers.CSV (parseHal, parseHal', parseCsv, parseCsv') import Gargantext.Core.Text.Corpus.Parsers.RIS.Presse (presseEnrich) -- import Gargantext.Core.Text.Learn (detectLangDefault) import qualified Gargantext.Core.Text.Corpus.Parsers.Date as Date import qualified Gargantext.Core.Text.Corpus.Parsers.RIS as RIS import qualified Gargantext.Core.Text.Corpus.Parsers.WOS as WOS ------------------------------------------------------------------------ type ParseError = String --type Field = Text --type Document = DM.Map Field Text --type FilesParsed = DM.Map FilePath FileParsed --data FileParsed = FileParsed { _fileParsed_errors :: Maybe ParseError -- , _fileParsed_result :: [Document] -- } deriving (Show) -- | According to the format of Input file, -- different parser are available. data FileFormat = WOS | RIS | RisPresse | CsvGargV3 | CsvHal | ZIP deriving (Show) -- Implemented (ISI Format) -- | DOC -- Not Implemented / import Pandoc -- | ODT -- Not Implemented / import Pandoc -- | PDF -- Not Implemented / pdftotext and import Pandoc ? -- | XML -- Not Implemented / see : parseFormat :: FileFormat -> DB.ByteString -> IO (Either Prelude.String [HyperdataDocument]) parseFormat CsvGargV3 bs = pure $ parseCsv' $ DBL.fromStrict bs parseFormat CsvHal bs = pure $ parseHal' $ DBL.fromStrict bs parseFormat RisPresse bs = do docs <- mapM (toDoc RIS) <$> snd <$> enrichWith RisPresse $ partitionEithers $ [runParser' RisPresse bs] pure $ Right docs parseFormat WOS bs = do docs <- mapM (toDoc WOS) <$> snd <$> enrichWith WOS $ partitionEithers $ [runParser' WOS bs] pure $ Right docs parseFormat ZIP bs = do path <- emptySystemTempFile "parsed-zip" DB.writeFile path bs parsedZip <- withArchive path $ do DM.keys <$> getEntries pure $ Left $ "Not implemented for ZIP, parsedZip" <> show parsedZip parseFormat _ _ = undefined -- | Parse file into documents -- TODO manage errors here -- TODO: to debug maybe add the filepath in error message parseFile :: FileFormat -> FilePath -> IO (Either Prelude.String [HyperdataDocument]) parseFile CsvHal p = parseHal p parseFile CsvGargV3 p = parseCsv p parseFile RisPresse p = do docs <- join $ mapM (toDoc RIS) <$> snd <$> enrichWith RisPresse <$> readFileWith RIS p pure $ Right docs parseFile WOS p = do docs <- join $ mapM (toDoc WOS) <$> snd <$> enrichWith WOS <$> readFileWith WOS p pure $ Right docs parseFile ff p = do docs <- join $ mapM (toDoc ff) <$> snd <$> enrichWith ff <$> readFileWith ff p pure $ Right docs toDoc :: FileFormat -> [(Text, Text)] -> IO HyperdataDocument -- TODO use language for RIS toDoc ff d = do -- let abstract = lookup "abstract" d let lang = EN -- maybe EN identity (join $ detectLangDefault <$> (fmap (DT.take 50) abstract)) let dateToParse = DT.replace "-" " " <$> lookup "PY" d <> Just " " <> lookup "publication_date" d (utcTime, (pub_year, pub_month, pub_day)) <- Date.dateSplit lang dateToParse pure $ HyperdataDocument { _hd_bdd = Just $ DT.pack $ show ff , _hd_doi = lookup "doi" d , _hd_url = lookup "URL" d , _hd_uniqId = Nothing , _hd_uniqIdBdd = Nothing , _hd_page = Nothing , _hd_title = lookup "title" d , _hd_authors = Nothing , _hd_institutes = lookup "authors" d , _hd_source = lookup "source" d , _hd_abstract = lookup "abstract" d , _hd_publication_date = fmap (DT.pack . show) utcTime , _hd_publication_year = pub_year , _hd_publication_month = pub_month , _hd_publication_day = pub_day , _hd_publication_hour = Nothing , _hd_publication_minute = Nothing , _hd_publication_second = Nothing , _hd_language_iso2 = Just $ (DT.pack . show) lang } enrichWith :: FileFormat -> (a, [[[(DB.ByteString, DB.ByteString)]]]) -> (a, [[(Text, Text)]]) enrichWith RisPresse = enrichWith' presseEnrich enrichWith WOS = enrichWith' (map (first WOS.keys)) enrichWith _ = enrichWith' identity enrichWith' :: ([(DB.ByteString, DB.ByteString)] -> [(DB.ByteString, DB.ByteString)]) -> (a, [[[(DB.ByteString, DB.ByteString)]]]) -> (a, [[(Text, Text)]]) enrichWith' f = second (map both' . map f . concat) where both' = map (both decodeUtf8) readFileWith :: FileFormat -> FilePath -> IO ([ParseError], [[[(DB.ByteString, DB.ByteString)]]]) readFileWith format path = do files <- case takeExtension path of ".zip" -> openZip path _ -> pure <$> clean <$> DB.readFile path partitionEithers <$> mapConcurrently (runParser format) files -- | withParser: -- According to the format of the text, choose the right parser. -- TODO withParser :: FileFormat -> Parser [Document] withParser :: FileFormat -> Parser [[(DB.ByteString, DB.ByteString)]] withParser WOS = WOS.parser withParser RIS = RIS.parser --withParser ODT = odtParser --withParser XML = xmlParser withParser _ = panic "[ERROR] Parser not implemented yet" runParser :: FileFormat -> DB.ByteString -> IO (Either String [[(DB.ByteString, DB.ByteString)]]) runParser format text = pure $ runParser' format text runParser' :: FileFormat -> DB.ByteString -> (Either String [[(DB.ByteString, DB.ByteString)]]) runParser' format text = parseOnly (withParser format) text openZip :: FilePath -> IO [DB.ByteString] openZip fp = do entries <- withArchive fp (DM.keys <$> getEntries) bs <- mapConcurrently (\s -> withArchive fp (getEntry s)) entries pure bs cleanText :: Text -> Text cleanText = cs . clean . cs clean :: DB.ByteString -> DB.ByteString clean txt = DBC.map clean' txt where clean' '’' = '\'' clean' '\r' = ' ' clean' '\t' = ' ' clean' ';' = '.' clean' c = c