assistant: Always batch changes found in startup scan.

Batch detection is heuristic, so can sometimes fail. I observed one such
failure while starting up in a repository with 87000 files. After the first
several batches of ~5000 files, it fell out of batch mode, and never
re-entered it, and so made many more commits of a few files at a time
than necessary.

So, let's always use batch mode when in the startup scan. This avoids the
heuristic there, at least.

There is clearly also room to improve the heuristic. Possibly 10 files is
too high a bar to be found during a commit, on a system that can commit
quickly.

Assistant/Threads/Committer.hs

@@ -52,7 +52,7 @@ commitThread = namedThread "Committer" $ do
 			=<< annexDelayAdd <$> Annex.getGitConfig
 	waitChangeTime $ \(changes, time) -> do
 		readychanges <- handleAdds havelsof delayadd changes
-		if shouldCommit time (length readychanges) readychanges
+		if shouldCommit False time (length readychanges) readychanges
 			then do
 				debug
 					[ "committing"
@@ -94,7 +94,8 @@ waitChangeTime a = waitchanges 0
 		let len = length changes
 		-- See if now's a good time to commit.
 		now <- liftIO getCurrentTime
-		case (lastcommitsize >= maxCommitSize, shouldCommit now len changes, possiblyrename changes) of
+		scanning <- not . scanComplete <$> getDaemonStatus
+		case (lastcommitsize >= maxCommitSize, shouldCommit scanning now len changes, possiblyrename changes) of
 			(True, True, _)
 				| len > maxCommitSize -> 
 					waitchanges =<< a (changes, now)
@@ -199,8 +200,9 @@ maxCommitSize = 5000
  - Current strategy: If there have been 10 changes within the past second,
  - a batch activity is taking place, so wait for later.
  -}
-shouldCommit :: UTCTime -> Int -> [Change] -> Bool
-shouldCommit now len changes
+shouldCommit :: Bool -> UTCTime -> Int -> [Change] -> Bool
+shouldCommit scanning now len changes
+	| scanning = len >= maxCommitSize
 	| len == 0 = False
 	| len >= maxCommitSize = True
 	| length recentchanges < 10 = True

Assistant/Threads/Watcher.hs

@@ -144,6 +144,11 @@ startupScan scanner = do
 		
 		modifyDaemonStatus_ $ \s -> s { scanComplete = True }
 
+		-- Ensure that the Committer sees any changes
+		-- that it did not process, and acts on them now that
+		-- the scan is complete.
+		refillChanges =<< getAnyChanges
+
 		return (True, r)
 
 {- Hardcoded ignores, passed to the DirWatcher so it can avoid looking