work around strange auto-init bug

git-annex get when run as the first git-annex command in a new repo did not
populate unlocked files. (Reversion in version 8.20210621)

I am not entirely happy with this, because I don't understand how
428c91606b caused the problem in the first
place, and I don't fully understand how skipping calling scanAnnexedFiles
during autoinit avoids the problem.

Kept the explicit call to scanAnnexedFiles during git-annex init,
so that when reconcileStaged is expensive, it can be made to run then,
rather than at some later point when the information is needed.

Sponsored-by: Brock Spratlen on Patreon

Annex/Init.hs

@@ -96,8 +96,8 @@ genDescription Nothing = do
 		Right username -> [username, at, hostname, ":", reldir]
 		Left _ -> [hostname, ":", reldir]
 
-initialize :: Maybe String -> Maybe RepoVersion -> Annex ()
-initialize mdescription mversion = checkInitializeAllowed $ do
+initialize :: Bool -> Maybe String -> Maybe RepoVersion -> Annex ()
+initialize autoinit mdescription mversion = checkInitializeAllowed $ do
 	{- Has to come before any commits are made as the shared
 	 - clone heuristic expects no local objects. -}
 	sharedclone <- checkSharedClone
@@ -107,7 +107,7 @@ initialize mdescription mversion = checkInitializeAllowed $ do
 	ensureCommit $ Annex.Branch.create
 
 	prepUUID
-	initialize' mversion
+	initialize' autoinit mversion
 	
 	initSharedClone sharedclone
 	
@@ -119,8 +119,8 @@ initialize mdescription mversion = checkInitializeAllowed $ do
 
 -- Everything except for uuid setup, shared clone setup, and initial
 -- description.
-initialize' :: Maybe RepoVersion -> Annex ()
-initialize' mversion = checkInitializeAllowed $ do
+initialize' :: Bool -> Maybe RepoVersion -> Annex ()
+initialize' autoinit mversion = checkInitializeAllowed $ do
 	checkLockSupport
 	checkFifoSupport
 	checkCrippledFileSystem
@@ -135,9 +135,11 @@ initialize' mversion = checkInitializeAllowed $ do
 		then configureSmudgeFilter
 		else deconfigureSmudgeFilter
 	unlessM isBareRepo $ do
-		scanAnnexedFiles
 		hookWrite postCheckoutHook
 		hookWrite postMergeHook
+		unless autoinit $
+			scanAnnexedFiles
+
 	AdjustedBranch.checkAdjustedClone >>= \case
 		AdjustedBranch.InAdjustedClone -> return ()
 		AdjustedBranch.NotInAdjustedClone ->
@@ -198,7 +200,7 @@ ensureInitialized = getInitializedVersion >>= maybe needsinit checkUpgrade
   where
 	needsinit = ifM autoInitializeAllowed
 		( do
-			initialize Nothing Nothing
+			initialize True Nothing Nothing
 			autoEnableSpecialRemotes
 		, giveup "First run: git-annex init"
 		)
@@ -232,7 +234,7 @@ autoInitialize = getInitializedVersion >>= maybe needsinit checkUpgrade
   where
 	needsinit =
 		whenM (initializeAllowed <&&> autoInitializeAllowed) $ do
-			initialize Nothing Nothing
+			initialize True Nothing Nothing
 			autoEnableSpecialRemotes
 
 {- Checks if a repository is initialized. Does not check version for ugrade. -}

Annex/WorkTree.hs

@@ -58,10 +58,10 @@ ifAnnexed file yes no = maybe no yes =<< lookupKey file
  - Normally the keys database is updated incrementally when it's being
  - opened, and changes are noticed. Calling this explicitly allows
  - running the update at an earlier point.
+ -
+ - All that needs to be done is to open the database,
+ - that will result in Database.Keys.reconcileStaged
+ - running, and doing the work.
  -}
 scanAnnexedFiles :: Annex ()
-scanAnnexedFiles =
-	-- All that needs to be done is to open the database,
-	-- that will result in Database.Keys.reconcileStaged
-	-- running, and doing the work.
-	Database.Keys.runWriter (const noop)
+scanAnnexedFiles = Database.Keys.runWriter (const noop)

Assistant/MakeRepo.hs

@@ -85,7 +85,7 @@ initRepo False _ dir desc mgroup = inDir dir $ do
 
 initRepo' :: Maybe String -> Maybe StandardGroup -> Annex ()
 initRepo' desc mgroup = unlessM isInitialized $ do
-	initialize desc Nothing
+	initialize False desc Nothing
 	u <- getUUID
 	maybe noop (defaultStandardGroup u) mgroup
 	{- Ensure branch gets committed right away so it is

CHANGELOG

@@ -23,6 +23,9 @@ git-annex (8.20210715) UNRELEASED; urgency=medium
     in a repository that was upgraded from v7.
   * fsck: Detect and correct stale or missing inode caches.
   * Fix a rounding bug in display of data sizes.
+  * git-annex get when run as the first git-annex command in a new repo
+    did not populate unlocked files.
+    (Reversion in version 8.20210621)
 
  -- Joey Hess <id@joeyh.name>  Wed, 14 Jul 2021 14:26:36 -0400
 

Command/ConfigList.hs

@@ -47,7 +47,7 @@ findOrGenUUID = do
 		else ifM (Annex.Branch.hasSibling <||> (isJust <$> Fields.getField Fields.autoInit))
 			( do
 				liftIO checkNotReadOnly
-				initialize Nothing Nothing
+				initialize True Nothing Nothing
 				getUUID
 			, return NoUUID
 			)

Command/Init.hs

@@ -70,7 +70,7 @@ perform os = do
 			Just v | v /= wantversion ->
 				giveup $ "This repository is already a initialized with version " ++ show (fromRepoVersion v) ++ ", not changing to requested version."
 			_ -> noop
-	initialize
+	initialize False
 		(if null (initDesc os) then Nothing else Just (initDesc os))
 		(initVersion os)
 	Annex.SpecialRemote.autoEnable

Command/Reinit.hs

@@ -35,6 +35,6 @@ perform s = do
 		then return $ toUUID s
 		else Remote.nameToUUID s
 	storeUUID u
-	initialize' Nothing
+	initialize' False Nothing
 	Annex.SpecialRemote.autoEnable
 	next $ return True

Command/Upgrade.hs

@@ -45,6 +45,6 @@ start (UpgradeOptions { autoOnly = True }) =
 start _ =
 	starting "upgrade" (ActionItemOther Nothing) (SeekInput []) $ do
 		whenM (isNothing <$> getVersion) $ do
-			initialize Nothing Nothing
+			initialize False Nothing Nothing
 		r <- upgrade False latestVersion
 		next $ return r

doc/bugs/initial_get_of_unlocked_file_fails_to_populate_pointer.mdwn

@@ -6,4 +6,12 @@ If any other git-annex command is run before the get, it avoids the
 problem. So the problem has to do with autoinit followed by reading
 associated files from the keys db.
 
-Besected to [[!commit 428c91606b434512d1986622e751c795edf4df44]] --[[Joey]] 
+Bisected to [[!commit 428c91606b434512d1986622e751c795edf4df44]] --[[Joey]] 
+
+It seems that reconcileStaged is populating the
+associated files, but later when they're queried, the query returns an
+empty list. So something to do with database write caching.
+
+Somehow, not having init call `scanAnnexedFiles` makes this bug go away.
+
+> [[fixed|done]] --[[Joey]]