{- git-annex command - - Copyright 2010-2018 Joey Hess - - Licensed under the GNU AGPL version 3 or higher. -} {-# LANGUAGE CPP #-} module Command.Fsck where import Command import qualified Annex import qualified Remote import qualified Types.Backend import qualified Backend import Annex.Content import qualified Annex.Content.Direct as Direct import Annex.Direct import Annex.Perms import Annex.Link import Logs.Location import Logs.Trust import Logs.Activity import Utility.TimeStamp import Logs.PreferredContent import Annex.NumCopies import Annex.UUID import Annex.ReplaceFile import Utility.DataUnits import Config import Utility.HumanTime import Utility.CopyFile import Git.FilePath import Utility.PID import qualified Database.Keys import qualified Database.Fsck as FsckDb import Types.CleanupActions import Types.Key import Types.ActionItem import Data.Time.Clock.POSIX import System.Posix.Types (EpochTime) import qualified Data.Set as S import qualified Data.Map as M cmd :: Command cmd = withGlobalOptions [jobsOption, jsonOptions, annexedMatchingOptions] $ command "fsck" SectionMaintenance "find and fix problems" paramPaths (seek <$$> optParser) data FsckOptions = FsckOptions { fsckFiles :: CmdParams , fsckFromOption :: Maybe (DeferredParse Remote) , incrementalOpt :: Maybe IncrementalOpt , keyOptions :: Maybe KeyOptions } data IncrementalOpt = StartIncrementalO | MoreIncrementalO | ScheduleIncrementalO Duration optParser :: CmdParamsDesc -> Parser FsckOptions optParser desc = FsckOptions <$> cmdParams desc <*> optional (parseRemoteOption <$> strOption ( long "from" <> short 'f' <> metavar paramRemote <> help "check remote" <> completeRemotes )) <*> optional parseincremental <*> optional parseKeyOptions where parseincremental = flag' StartIncrementalO ( long "incremental" <> short 'S' <> help "start an incremental fsck" ) <|> flag' MoreIncrementalO ( long "more" <> short 'm' <> help "continue an incremental fsck" ) <|> (ScheduleIncrementalO <$> option (str >>= parseDuration) ( long "incremental-schedule" <> metavar paramTime <> help "schedule incremental fscking" )) seek :: FsckOptions -> CommandSeek seek o = allowConcurrentOutput $ do from <- maybe (pure Nothing) (Just <$$> getParsed) (fsckFromOption o) u <- maybe getUUID (pure . Remote.uuid) from checkDeadRepo u i <- prepIncremental u (incrementalOpt o) withKeyOptions (keyOptions o) False (\kai -> commandAction . startKey from i kai =<< getNumCopies) (withFilesInGit $ commandAction . (whenAnnexed (start from i))) =<< workTreeItems (fsckFiles o) cleanupIncremental i void $ tryIO $ recordActivity Fsck u checkDeadRepo :: UUID -> Annex () checkDeadRepo u = whenM ((==) DeadTrusted <$> lookupTrust u) $ earlyWarning "Warning: Fscking a repository that is currently marked as dead." start :: Maybe Remote -> Incremental -> FilePath -> Key -> CommandStart start from inc file key = Backend.getBackend file key >>= \case Nothing -> stop Just backend -> do numcopies <- getFileNumCopies file case from of Nothing -> go $ perform key file backend numcopies Just r -> go $ performRemote key afile backend numcopies r where go = runFsck inc (mkActionItem afile) key afile = AssociatedFile (Just file) perform :: Key -> FilePath -> Backend -> NumCopies -> Annex Bool perform key file backend numcopies = do keystatus <- getKeyFileStatus key file check -- order matters [ fixLink key file , verifyLocationLog key keystatus ai , verifyRequiredContent key ai , verifyAssociatedFiles key keystatus file , verifyWorkTree key file , checkKeySize key keystatus ai , checkBackend backend key keystatus afile , checkKeyUpgrade backend key ai afile , checkKeyNumCopies key afile numcopies ] where afile = AssociatedFile (Just file) ai = ActionItemAssociatedFile afile {- To fsck a remote, the content is retrieved to a tmp file, - and checked locally. -} performRemote :: Key -> AssociatedFile -> Backend -> NumCopies -> Remote -> Annex Bool performRemote key afile backend numcopies remote = dispatch =<< Remote.hasKey remote key where dispatch (Left err) = do showNote err return False dispatch (Right True) = withtmp $ \tmpfile -> getfile tmpfile >>= \case Nothing -> go True Nothing Just True -> go True (Just tmpfile) Just False -> do warning "failed to download file from remote" void $ go True Nothing return False dispatch (Right False) = go False Nothing go present localcopy = check [ verifyLocationLogRemote key ai remote present , verifyRequiredContent key ai , withLocalCopy localcopy $ checkKeySizeRemote key remote ai , withLocalCopy localcopy $ checkBackendRemote backend key remote ai , checkKeyNumCopies key afile numcopies ] ai = ActionItemAssociatedFile afile withtmp a = do pid <- liftIO getPID t <- fromRepo gitAnnexTmpObjectDir createAnnexDirectory t let tmp = t "fsck" ++ show pid ++ "." ++ keyFile key let cleanup = liftIO $ catchIO (removeFile tmp) (const noop) cleanup cleanup `after` a tmp getfile tmp = ifM (checkDiskSpace (Just (takeDirectory tmp)) key 0 True) ( ifM (Remote.retrieveKeyFileCheap remote key afile tmp) ( return (Just True) , ifM (Annex.getState Annex.fast) ( return Nothing , Just . fst <$> Remote.retrieveKeyFile remote key (AssociatedFile Nothing) tmp dummymeter ) ) , return (Just False) ) dummymeter _ = noop startKey :: Maybe Remote -> Incremental -> (Key, ActionItem) -> NumCopies -> CommandStart startKey from inc (key, ai) numcopies = case Backend.maybeLookupBackendVariety (keyVariety key) of Nothing -> stop Just backend -> runFsck inc ai key $ case from of Nothing -> performKey key backend numcopies Just r -> performRemote key (AssociatedFile Nothing) backend numcopies r performKey :: Key -> Backend -> NumCopies -> Annex Bool performKey key backend numcopies = do keystatus <- getKeyStatus key check [ verifyLocationLog key keystatus (mkActionItem key) , checkKeySize key keystatus (mkActionItem key) , checkBackend backend key keystatus (AssociatedFile Nothing) , checkKeyNumCopies key (AssociatedFile Nothing) numcopies ] check :: [Annex Bool] -> Annex Bool check cs = and <$> sequence cs {- Checks that symlinks points correctly to the annexed content. -} fixLink :: Key -> FilePath -> Annex Bool fixLink key file = do want <- calcRepo $ gitAnnexLink file key have <- getAnnexLinkTarget file maybe noop (go want) have return True where go want have | want /= fromInternalGitPath (fromRawFilePath have) = do showNote "fixing link" liftIO $ createDirectoryIfMissing True (parentDir file) liftIO $ removeFile file addAnnexLink want file | otherwise = noop {- Checks that the location log reflects the current status of the key, - in this repository only. -} verifyLocationLog :: Key -> KeyStatus -> ActionItem -> Annex Bool verifyLocationLog key keystatus ai = do direct <- isDirect obj <- calcRepo $ gitAnnexLocation key present <- if not direct && isKeyUnlocked keystatus then liftIO (doesFileExist obj) else inAnnex key u <- getUUID {- Since we're checking that a key's object file is present, throw - in a permission fixup here too. -} when (present && not direct) $ do void $ tryIO $ if isKeyUnlocked keystatus then thawContent obj else freezeContent obj unlessM (isContentWritePermOk obj) $ warning $ "** Unable to set correct write mode for " ++ obj ++ " ; perhaps you don't own that file" whenM (liftIO $ doesDirectoryExist $ parentDir obj) $ freezeContentDir obj {- Warn when annex.securehashesonly is set and content using an - insecure hash is present. This should only be able to happen - if the repository already contained the content before the - config was set. -} when (present && not (cryptographicallySecure (keyVariety key))) $ whenM (annexSecureHashesOnly <$> Annex.getGitConfig) $ warning $ "** Despite annex.securehashesonly being set, " ++ obj ++ " has content present in the annex using an insecure " ++ decodeBS (formatKeyVariety (keyVariety key)) ++ " key" {- In direct mode, modified files will show up as not present, - but that is expected and not something to do anything about. -} if direct && not present then return True else verifyLocationLog' key ai present u (logChange key u) verifyLocationLogRemote :: Key -> ActionItem -> Remote -> Bool -> Annex Bool verifyLocationLogRemote key ai remote present = verifyLocationLog' key ai present (Remote.uuid remote) (Remote.logStatus remote key) verifyLocationLog' :: Key -> ActionItem -> Bool -> UUID -> (LogStatus -> Annex ()) -> Annex Bool verifyLocationLog' key ai present u updatestatus = do uuids <- loggedLocations key case (present, u `elem` uuids) of (True, False) -> do fix InfoPresent -- There is no data loss, so do not fail. return True (False, True) -> do fix InfoMissing warning $ "** Based on the location log, " ++ actionItemDesc ai key ++ "\n** was expected to be present, " ++ "but its content is missing." return False (False, False) -> do -- When the location log for the key is not present, -- create it, so that the key will be known. when (null uuids) $ whenM (not <$> isKnownKey key) $ updatestatus InfoMissing return True (True, True) -> return True where fix s = do showNote "fixing location log" updatestatus s {- Verifies that all repos that are required to contain the content do, - checking against the location log. -} verifyRequiredContent :: Key -> ActionItem -> Annex Bool verifyRequiredContent key ai@(ActionItemAssociatedFile afile) = do requiredlocs <- S.fromList . M.keys <$> requiredContentMap if S.null requiredlocs then return True else do presentlocs <- S.fromList <$> loggedLocations key missinglocs <- filterM (\u -> isRequiredContent (Just u) S.empty (Just key) afile False) (S.toList $ S.difference requiredlocs presentlocs) if null missinglocs then return True else do missingrequired <- Remote.prettyPrintUUIDs "missingrequired" missinglocs warning $ "** Required content " ++ actionItemDesc ai key ++ " is missing from these repositories:\n" ++ missingrequired return False verifyRequiredContent _ _ = return True {- Verifies the associated file records. -} verifyAssociatedFiles :: Key -> KeyStatus -> FilePath -> Annex Bool verifyAssociatedFiles key keystatus file = do ifM isDirect (godirect, goindirect) return True where godirect = do fs <- Direct.addAssociatedFile key file forM_ fs $ \f -> unlessM (liftIO $ doesFileExist f) $ void $ Direct.removeAssociatedFile key f goindirect = case keystatus of KeyUnlocked -> do f <- inRepo $ toTopFilePath file afs <- Database.Keys.getAssociatedFiles key unless (getTopFilePath f `elem` map getTopFilePath afs) $ Database.Keys.addAssociatedFile key f _ -> return () verifyWorkTree :: Key -> FilePath -> Annex Bool verifyWorkTree key file = do ifM isDirect ( godirect, goindirect ) return True where {- Ensures that files whose content is available are in direct mode. -} godirect = whenM (isJust <$> isAnnexLink file) $ do v <- toDirectGen key file case v of Nothing -> noop Just a -> do showNote "fixing direct mode" a {- Make sure that a pointer file is replaced with its content, - when the content is available. -} goindirect = do mk <- liftIO $ isPointerFile file case mk of Just k | k == key -> whenM (inAnnex key) $ do showNote "fixing worktree content" replaceFile file $ \tmp -> do mode <- liftIO $ catchMaybeIO $ fileMode <$> getFileStatus file ifM (annexThin <$> Annex.getGitConfig) ( void $ linkFromAnnex key tmp mode , do obj <- calcRepo $ gitAnnexLocation key void $ checkedCopyFile key obj tmp mode thawContent tmp ) Database.Keys.storeInodeCaches key [file] _ -> return () {- The size of the data for a key is checked against the size encoded in - the key's metadata, if available. - - Not checked when a file is unlocked, or in direct mode. -} checkKeySize :: Key -> KeyStatus -> ActionItem -> Annex Bool checkKeySize _ KeyUnlocked _ = return True checkKeySize key _ ai = do file <- calcRepo $ gitAnnexLocation key ifM (liftIO $ doesFileExist file) ( checkKeySizeOr badContent key file ai , return True ) withLocalCopy :: Maybe FilePath -> (FilePath -> Annex Bool) -> Annex Bool withLocalCopy Nothing _ = return True withLocalCopy (Just localcopy) f = f localcopy checkKeySizeRemote :: Key -> Remote -> ActionItem -> FilePath -> Annex Bool checkKeySizeRemote key remote ai localcopy = checkKeySizeOr (badContentRemote remote localcopy) key localcopy ai checkKeySizeOr :: (Key -> Annex String) -> Key -> FilePath -> ActionItem -> Annex Bool checkKeySizeOr bad key file ai = case keySize key of Nothing -> return True Just size -> do size' <- liftIO $ getFileSize file comparesizes size size' where comparesizes a b = do let same = a == b unless same $ badsize a b return same badsize a b = do msg <- bad key warning $ concat [ actionItemDesc ai key , ": Bad file size (" , compareSizes storageUnits True a b , "); " , msg ] {- Check for keys that are upgradable. - - Warns and suggests the user migrate, but does not migrate itself, - because migration can cause more disk space to be used, and makes - worktree changes that need to be committed. -} checkKeyUpgrade :: Backend -> Key -> ActionItem -> AssociatedFile -> Annex Bool checkKeyUpgrade backend key ai (AssociatedFile (Just file)) = case Types.Backend.canUpgradeKey backend of Just a | a key -> do warning $ concat [ actionItemDesc ai key , ": Can be upgraded to an improved key format. " , "You can do so by running: git annex migrate --backend=" , decodeBS (formatKeyVariety (keyVariety key)) ++ " " , file ] return True _ -> return True checkKeyUpgrade _ _ _ (AssociatedFile Nothing) = -- Don't suggest migrating without a filename, because -- while possible to do, there is no actual benefit from -- doing that in this situation. return True {- Runs the backend specific check on a key's content object. - - When a file is unlocked, it may be a hard link to the object, - thus when the user modifies the file, the object will be modified and - not pass the check, and we don't want to find an error in this case. - So, skip the check if the key is unlocked and modified. - - In direct mode this is not done if the file has clearly been modified, - because modification of direct mode files is allowed. It's still done - if the file does not appear modified, to catch disk corruption, etc. -} checkBackend :: Backend -> Key -> KeyStatus -> AssociatedFile -> Annex Bool checkBackend backend key keystatus afile = go =<< isDirect where go False = do content <- calcRepo $ gitAnnexLocation key ifM (pure (isKeyUnlocked keystatus) <&&> (not <$> isUnmodified key content)) ( nocheck , checkBackendOr badContent backend key content (mkActionItem afile) ) go True = case afile of AssociatedFile Nothing -> nocheck AssociatedFile (Just f) -> checkdirect f checkdirect file = ifM (Direct.goodContent key file) ( checkBackendOr' (badContentDirect file) backend key file (mkActionItem afile) (Direct.goodContent key file) , nocheck ) nocheck = return True checkBackendRemote :: Backend -> Key -> Remote -> ActionItem -> FilePath -> Annex Bool checkBackendRemote backend key remote ai localcopy = checkBackendOr (badContentRemote remote localcopy) backend key localcopy ai checkBackendOr :: (Key -> Annex String) -> Backend -> Key -> FilePath -> ActionItem -> Annex Bool checkBackendOr bad backend key file ai = checkBackendOr' bad backend key file ai (return True) -- The postcheck action is run after the content is verified, -- in order to detect situations where the file is changed while being -- verified (particularly in direct mode). checkBackendOr' :: (Key -> Annex String) -> Backend -> Key -> FilePath -> ActionItem -> Annex Bool -> Annex Bool checkBackendOr' bad backend key file ai postcheck = case Types.Backend.verifyKeyContent backend of Nothing -> return True Just verifier -> do ok <- verifier key file ifM postcheck ( do unless ok $ do msg <- bad key warning $ concat [ actionItemDesc ai key , ": Bad file content; " , msg ] return ok , return True ) checkKeyNumCopies :: Key -> AssociatedFile -> NumCopies -> Annex Bool checkKeyNumCopies key afile numcopies = do let (desc, hasafile) = case afile of AssociatedFile Nothing -> (serializeKey key, False) AssociatedFile (Just af) -> (af, True) locs <- loggedLocations key (untrustedlocations, otherlocations) <- trustPartition UnTrusted locs (deadlocations, safelocations) <- trustPartition DeadTrusted otherlocations let present = NumCopies (length safelocations) if present < numcopies then ifM (pure (not hasafile) <&&> checkDead key) ( do showLongNote $ "This key is dead, skipping." return True , do untrusted <- Remote.prettyPrintUUIDs "untrusted" untrustedlocations dead <- Remote.prettyPrintUUIDs "dead" deadlocations warning $ missingNote desc present numcopies untrusted dead when (fromNumCopies present == 0 && not hasafile) $ showLongNote "(Avoid this check by running: git annex dead --key )" return False ) else return True missingNote :: String -> NumCopies -> NumCopies -> String -> String -> String missingNote file (NumCopies 0) _ [] dead = "** No known copies exist of " ++ file ++ honorDead dead missingNote file (NumCopies 0) _ untrusted dead = "Only these untrusted locations may have copies of " ++ file ++ "\n" ++ untrusted ++ "Back it up to trusted locations with git-annex copy." ++ honorDead dead missingNote file present needed [] _ = "Only " ++ show (fromNumCopies present) ++ " of " ++ show (fromNumCopies needed) ++ " trustworthy copies exist of " ++ file ++ "\nBack it up with git-annex copy." missingNote file present needed untrusted dead = missingNote file present needed [] dead ++ "\nThe following untrusted locations may also have copies: " ++ "\n" ++ untrusted honorDead :: String -> String honorDead dead | null dead = "" | otherwise = "\nThese dead repositories used to have copies\n" ++ dead {- Bad content is moved aside. -} badContent :: Key -> Annex String badContent key = do dest <- moveBad key return $ "moved to " ++ dest {- Bad content is left where it is, but we touch the file, so it'll be - committed to a new key. -} badContentDirect :: FilePath -> Key -> Annex String badContentDirect file key = do void $ liftIO $ catchMaybeIO $ touchFile file logStatus key InfoMissing return "left in place for you to examine" {- Bad content is dropped from the remote. We have downloaded a copy - from the remote to a temp file already (in some cases, it's just a - symlink to a file in the remote). To avoid any further data loss, - that temp file is moved to the bad content directory unless - the local annex has a copy of the content. -} badContentRemote :: Remote -> FilePath -> Key -> Annex String badContentRemote remote localcopy key = do bad <- fromRepo gitAnnexBadDir let destbad = bad keyFile key movedbad <- ifM (inAnnex key <||> liftIO (doesFileExist destbad)) ( return False , do createAnnexDirectory (parentDir destbad) liftIO $ catchDefaultIO False $ ifM (isSymbolicLink <$> getSymbolicLinkStatus localcopy) ( copyFileExternal CopyTimeStamps localcopy destbad , do moveFile localcopy destbad return True ) ) dropped <- Remote.removeKey remote key when dropped $ Remote.logStatus remote key InfoMissing return $ case (movedbad, dropped) of (True, True) -> "moved from " ++ Remote.name remote ++ " to " ++ destbad (False, True) -> "dropped from " ++ Remote.name remote (_, False) -> "failed to drop from" ++ Remote.name remote runFsck :: Incremental -> ActionItem -> Key -> Annex Bool -> CommandStart runFsck inc ai key a = ifM (needFsck inc key) ( do showStartKey "fsck" key ai next $ do ok <- a when ok $ recordFsckTime inc key next $ return ok , stop ) {- Check if a key needs to be fscked, with support for incremental fscks. -} needFsck :: Incremental -> Key -> Annex Bool needFsck (ScheduleIncremental _ _ i) k = needFsck i k needFsck (ContIncremental h) key = liftIO $ not <$> FsckDb.inDb h key needFsck _ _ = return True recordFsckTime :: Incremental -> Key -> Annex () recordFsckTime inc key = withFsckDb inc $ \h -> liftIO $ FsckDb.addDb h key {- Records the start time of an incremental fsck. - - To guard against time stamp damange (for example, if an annex directory - is copied without -a), the fsckstate file contains a time that should - be identical to its modification time. - (This is not possible to do on Windows, and so the timestamp in - the file will only be equal or greater than the modification time.) -} recordStartTime :: UUID -> Annex () recordStartTime u = do f <- fromRepo (gitAnnexFsckState u) createAnnexDirectory $ parentDir f liftIO $ nukeFile f liftIO $ withFile f WriteMode $ \h -> do #ifndef mingw32_HOST_OS t <- modificationTime <$> getFileStatus f #else t <- getPOSIXTime #endif hPutStr h $ showTime $ realToFrac t setAnnexFilePerm f where showTime :: POSIXTime -> String showTime = show resetStartTime :: UUID -> Annex () resetStartTime u = liftIO . nukeFile =<< fromRepo (gitAnnexFsckState u) {- Gets the incremental fsck start time. -} getStartTime :: UUID -> Annex (Maybe EpochTime) getStartTime u = do f <- fromRepo (gitAnnexFsckState u) liftIO $ catchDefaultIO Nothing $ do timestamp <- modificationTime <$> getFileStatus f let fromstatus = Just (realToFrac timestamp) fromfile <- parsePOSIXTime <$> readFile f return $ if matchingtimestamp fromfile fromstatus then Just timestamp else Nothing where matchingtimestamp fromfile fromstatus = #ifndef mingw32_HOST_OS fromfile == fromstatus #else fromfile >= fromstatus #endif data Incremental = NonIncremental | ScheduleIncremental Duration UUID Incremental | StartIncremental FsckDb.FsckHandle | ContIncremental FsckDb.FsckHandle prepIncremental :: UUID -> Maybe IncrementalOpt -> Annex Incremental prepIncremental _ Nothing = pure NonIncremental prepIncremental u (Just StartIncrementalO) = do recordStartTime u ifM (FsckDb.newPass u) ( StartIncremental <$> openFsckDb u , giveup "Cannot start a new --incremental fsck pass; another fsck process is already running." ) prepIncremental u (Just MoreIncrementalO) = ContIncremental <$> openFsckDb u prepIncremental u (Just (ScheduleIncrementalO delta)) = do started <- getStartTime u i <- prepIncremental u $ Just $ case started of Nothing -> StartIncrementalO Just _ -> MoreIncrementalO return (ScheduleIncremental delta u i) cleanupIncremental :: Incremental -> Annex () cleanupIncremental (ScheduleIncremental delta u i) = do v <- getStartTime u case v of Nothing -> noop Just started -> do now <- liftIO getPOSIXTime when (now - realToFrac started >= durationToPOSIXTime delta) $ resetStartTime u cleanupIncremental i cleanupIncremental _ = return () openFsckDb :: UUID -> Annex FsckDb.FsckHandle openFsckDb u = do h <- FsckDb.openDb u Annex.addCleanup FsckCleanup $ FsckDb.closeDb h return h withFsckDb :: Incremental -> (FsckDb.FsckHandle -> Annex ()) -> Annex () withFsckDb (ContIncremental h) a = a h withFsckDb (StartIncremental h) a = a h withFsckDb NonIncremental _ = noop withFsckDb (ScheduleIncremental _ _ i) a = withFsckDb i a data KeyStatus = KeyLocked | KeyUnlocked | KeyMissing isKeyUnlocked :: KeyStatus -> Bool isKeyUnlocked KeyUnlocked = True isKeyUnlocked KeyLocked = False isKeyUnlocked KeyMissing = False getKeyStatus :: Key -> Annex KeyStatus getKeyStatus key = ifM isDirect ( return KeyUnlocked , catchDefaultIO KeyMissing $ do unlocked <- not . null <$> Database.Keys.getAssociatedFiles key return $ if unlocked then KeyUnlocked else KeyLocked ) getKeyFileStatus :: Key -> FilePath -> Annex KeyStatus getKeyFileStatus key file = do s <- getKeyStatus key case s of KeyLocked -> catchDefaultIO KeyLocked $ ifM (isJust <$> isAnnexLink file) ( return KeyLocked , return KeyUnlocked ) _ -> return s