Add --all option, and support it for fsck

Command/Fsck.hs

@@ -33,6 +33,7 @@ import qualified Option
 import Types.Key
 import Utility.HumanTime
 import Git.FilePath
+import GitAnnex.Options
 
 #ifndef __WINDOWS__
 import System.Posix.Process (getProcessID)
@@ -45,7 +46,7 @@ import System.Posix.Types (EpochTime)
 import System.Locale
 
 def :: [Command]
-def = [withOptions options $ command "fsck" paramPaths seek
+def = [withOptions fsckOptions $ command "fsck" paramPaths seek
 	SectionMaintenance "check for problems"]
 
 fromOption :: Option
@@ -61,9 +62,10 @@ incrementalScheduleOption :: Option
 incrementalScheduleOption = Option.field [] "incremental-schedule" paramTime
 	"schedule incremental fscking"
 
-options :: [Option]
+fsckOptions :: [Option]
-options = 
+fsckOptions = 
-	[ fromOption
+	[ allOption
+	, fromOption
 	, startIncrementalOption
 	, moreIncrementalOption
 	, incrementalScheduleOption
@@ -72,8 +74,9 @@ options =
 seek :: [CommandSeek]
 seek =
 	[ withField fromOption Remote.byNameWithUUID $ \from ->
-	  withIncremental $ \i -> withFilesInGit $ whenAnnexed $ start from i
+	  withIncremental $ \i ->
-	, withIncremental $ \i -> withBarePresentKeys $ startBare i
+	  withAll (startAll i) $
+	  withFilesInGit $ whenAnnexed $ start from i
 	]
 
 withIncremental :: (Incremental -> CommandSeek) -> CommandSeek
@@ -170,26 +173,15 @@ performRemote key file backend numcopies remote =
 			)
 	dummymeter _ = noop
 
-{- To fsck a bare repository, fsck each key in the location log. -}
+startAll :: Incremental -> Key -> CommandStart
-withBarePresentKeys :: (Key -> CommandStart) -> CommandSeek
+startAll inc key = case Backend.maybeLookupBackendName (Types.Key.keyBackendName key) of
-withBarePresentKeys a params = isBareRepo >>= go
-  where
-	go False = return []
-	go True = do
-		unless (null params) $
-			error "fsck should be run without parameters in a bare repository"
-		map a <$> loggedKeys
-
-startBare :: Incremental -> Key -> CommandStart
-startBare inc key = case Backend.maybeLookupBackendName (Types.Key.keyBackendName key) of
 	Nothing -> stop
-	Just backend -> runFsck inc (key2file key) key $ performBare key backend
+	Just backend -> runFsck inc (key2file key) key $ performAll key backend
 
-{- Note that numcopies cannot be checked in a bare repository, because
+{- Note that numcopies cannot be checked in --all mode, since we do not
- - getting the numcopies value requires a working copy with .gitattributes
+ - have associated filenames to look up in the .gitattributes file. -}
- - files. -}
+performAll :: Key -> Backend -> Annex Bool
-performBare :: Key -> Backend -> Annex Bool
+performAll key backend = check
-performBare key backend = check
 	[ verifyLocationLog key (key2file key)
 	, checkKeySize key
 	, checkBackend backend key Nothing

GitAnnex/Options.hs

@@ -58,3 +58,7 @@ options = Option.common ++
 	setgitconfig v = Annex.changeGitRepo =<< inRepo (Git.Config.store v)
 
 	trustArg t = ReqArg (Remote.forceTrust t) paramRemote
+
+allOption :: Option
+allOption = Option ['A'] ["all"] (NoArg (Annex.setFlag "all"))
+	"operate on all versions of all files"

Seek.hs

@@ -4,7 +4,7 @@
  - the values a user passes to a command, and prepare actions operating
  - on them.
  -
- - Copyright 2010-2012 Joey Hess <joey@kitenet.net>
+ - Copyright 2010-2013 Joey Hess <joey@kitenet.net>
  -
  - Licensed under the GNU GPL version 3 or higher.
  -}
@@ -24,6 +24,7 @@ import qualified Git.LsFiles as LsFiles
 import qualified Limit
 import qualified Option
 import Config
+import Logs.Location
 
 seekHelper :: ([FilePath] -> Git.Repo -> IO ([FilePath], IO Bool)) -> [FilePath] -> Annex [FilePath]
 seekHelper a params = do
@@ -121,6 +122,23 @@ withNothing :: CommandStart -> CommandSeek
 withNothing a [] = return [a]
 withNothing _ _ = error "This command takes no parameters."
 
+{- If --all is specified, runs an action on all logged keys.
+ - Otherwise, fall back to a regular CommandSeek action on
+ - whatever params were passed. -}
+withAll :: (Key -> CommandStart) -> CommandSeek -> CommandSeek
+withAll allop fallbackop params = go =<< (Annex.getFlag "all" <||> isbare)
+  where
+	go False = fallbackop params
+	go True = do
+		whenM (Annex.getState Annex.auto) $
+			ifM isbare
+				( error "Cannot use --auto in a bare repository."
+				, error "Cannot use --auto with --all."
+				)
+		unless (null params) $
+			error "Cannot mix --all with file names."
+		map allop <$> loggedKeys
+	isbare = fromRepo Git.repoIsLocalBare
 
 prepFiltered :: (FilePath -> CommandStart) -> Annex [FilePath] -> Annex [CommandStart]
 prepFiltered a fs = do

debian/changelog

@@ -1,5 +1,10 @@
 git-annex (4.20130628) UNRELEASED; urgency=low
 
+  * --all: New switch that makes git-annex operate on all data stored
+    in the git annex, including old versions of files. Supported by
+    fsck, get, drop, move, copy, migrate.
+  * get, drop, move, copy, migrate: Can now be run in a bare repository,
+    like fsck already could. --all is enabled automatically in this case.
   * webapp: Fix ssh setup with nonstandard port, broken in last release.
 
  -- Joey Hess <joeyh@debian.org>  Tue, 02 Jul 2013 15:40:55 -0400

doc/git-annex.mdwn

@@ -602,6 +602,18 @@ subdirectories).
   will only do so when needed to help satisfy the setting of annex.numcopies,
   and preferred content configuration.
 
+* --all
+
+  Operate on all data that has been stored in the git annex,
+  including old versions of files. This is the default behavior when
+  running git-annex in a bare repository; in a non-bare repository the
+  normal behavior is to only operate on specified files in the working
+  tree.
+
+  Note that using --all makes .gitattributes annex.numcopies settings
+  not be honored. Other numcopies settings are still taken into account.
+  --all cannot be combined with --auto.
+
 * --quiet
 
   Avoid the default verbose display of what is done; only show errors