This bug was turned up by the test suite, running fsck in direct mode.
A repository was cloned, was put into direct mode, was fscked, and fsck
incorrectly said that no copy existed of a file, that was actually present
in origin.
This turned out to occur because fsck first did a Annex.Branch.change,
recording that it did not locally have the file. That was recorded in the
journal. Since neither the git annex direct not the fsck had yet needed to
read any info from the branch, but had only made changes to it, the
origin/git-annex branch was not yet merged in. So the journal got a
location log entry written to it, but this did not include
the location log info for the origin. When fsck then did a
Annex.Branch.get, it trusted the journal was cosnsitent, and returned it,
again w/o merging from origin/git-annex. This latter behavior is the
actual bug.
Refer to commit e9bfa8eaed for the thinking
behind it being ok to make a change to a file on the branch, without
first merging the branch. That thinking still stands. However, it means
that files in the journal cannot be trusted to be consistent if the branch
has not been merged. So, to fix, just enure the branch gets merged, even
when reading from the journal.
In tests, this does not seem to cause any extra merging. Except, of course,
in the one case described above. But git annex add, etc, are able to make
changes w/o first merging the branch.
That's needed in files used to build the configure program.
For the other files, I'm keeping my __WINDOWS__ define, as I find that much easier to type.
I may search and replace it to use the mingw32_HOST_OS thing later.
Pass subcommand as a regular param, which allows passing git parameters
like -c before it. This was already done in the pipeing set of functions,
but not the command running set.
The only thing lost is ./ghci
Speed: make fast used to take 20 seconds here, when rebuilding from
touching Command/Unused.hs. With cabal, it's 29 seconds.
This resulted in a lot of user complains that git annex init had git
telling them they needed to run git config --global user.email .. which
didn't work because even HOME was not passed into git.
This cache prevented noticing changes made by another process.
The case I just ran into involved the assistant dropping a file, which
cached its presence info. Then the same file was downloaded again,
but the assistant didn't know its presence info had changed.
I don't see a way to keep this cache. Will instead rely on the OS level
file cache, for files in the journal. May need to add more higher-level
caching of info that it's ok to have a potentially stale copy of,
although much of git-annex already does so.
Setting GIT_INDEX_FILE clobbers the rest of the environment, making git
not read ~/.gitconfig, and blow up if GECOS didn't have a name for the
user.
I'm not entirely happy with getEnvironment being run every time now,
that's somewhat expensive. It may make sense to just set GIT_COMMITTER_*
and GIT_AUTHOR_*, but I worry that clobbering the rest could break PATH,
or GIT_PATH, or something else that might be used by a command run in here.
And caching the environment is not a good idea either; it can change..
I'm down to 9 places in the code that can produce unwaited for zombies.
Most of these are pretty innocuous, at least for now, are only
used in short-running commands, or commands that run a set of
actions and explicitly reap zombies after each one.
The one from Annex.Branch.files could be trouble later,
since both Command.Fsck and Command.Unused can trigger it,
and the assistant will be doing those eventally. Ditto the one in
Git.LsTree.lsTree, which Command.Unused uses.
The only ones currently affecting the assistant though, are
in Git.LsFiles. Several threads use several of those.
(And yeah, using pipes or ResourceT would be a less ad-hoc approach,
but I don't really feel like ripping my entire code base apart right
now to change a foundation monad. Maybe one of these days..)
Branch.get is not able to see changes that have been staged to the index
but not committed. This is a limitation of git cat-file --batch; when
reading from the index, as opposed to from a branch, it does not notice
changes made after the first time it reads the index.
So, had to revert the changes made in 1f73db3469
to make annex.alwayscommit=false stage changes.
Also, ensure that Branch.change and Branch.get always see changes
at all points during a commit, by not deleting journal files when
staging to the index. Delete them only after committing the branch.
Before, there was a race during commits where a different git-annex
could see out-of-date info from the branch while a commit was in progress.
That's also done when updating the branch to merge in remote branches.
In the case where the local git-annex branch has had changes pushed into it
that are not yet reflected in the index, and there are journalled changes
as well, a merge commit has to be done.
Commits used to be made to the git-annex branch whenever there were
journalled changes from a previous command, and the current command looked
up the value of a file. This no longer happens.
This means that transferkey, which is a oneshot command that stages
changes, can be run multiple times by the assistant, without each of them
committing the changes made by the command before. Which will be a lot
faster and use less space by batching up the commits.
Commits still happen if a remote git-annex branch has been changed and is
merged in.
Found a very cheap way to determine when a disconnected remote has
diverged, and has new content that needs to be transferred: Piggyback on
the git-annex branch update, which already checks for divergence.
However, this does not check if new content has appeared locally while
disconnected, that should be transferred to the remote.
Also, this does not handle cases where the two git repos are in sync,
but their content syncing has not caught up yet.
This code could have its efficiency improved:
* When multiple remotes are synced, if any one has diverged, they're
all queued for transfer scans.
* The transfer scanner could be told whether the remote has new content,
the local repo has new content, or both, and could optimise its scan
accordingly.
There's a race adding a new file to the annex: The file is moved to the
annex and replaced with a symlink, and then we git add the symlink. If
someone comes along in the meantime and replaces the symlink with
something else, such as a new large file, we add that instead. Which could
be bad..
This race is fixed by avoiding using git add, instead the symlink is
directly staged into the index.
It would be nice to make `git annex add` use this same technique.
I have not done so yet because it currently runs git update-index once per
file, which would slow does `git annex add`. A future enhancement would be
to extend the Git.Queue to include the ability to run update-index with
a list of Streamers.
A bit tricky to avoid printing it twice in a row when there are queued git
commands to run and journal to stage.
Added a generic way to run an action that may output multiple side
messages, with only the first displayed.
Now changes are staged into the branch's index, but not committed,
which avoids growing a large journal. And sync and merge always
explicitly commit, ensuring that even when they do nothing else,
they commit the staged changes.
Added a flag file to indicate that the branch's journal contains
uncommitted changes. (Could use git ls-files, but don't want to run
that every time.)
In the future, this ability to have uncommitted changes staged in the
journal might be used on remotes after a series of oneshot commands.
The list of files had to be retained until the end so it could be deleted.
Also, a list of update-index lines was generated and only then fed into it.
Now everything streams in constant space.
When hashing the files, the entire list of shas was read strictly.
That was entirely unnecessary, since there's a cleanup action run
after they're consumed.
This needs to run git log on the location log files to get at all past
versions of the file, which tends to be a bit slow.
It would be possible to make a version optimised for showing the location
logs for every key. That would only need to run git log once, so would be
faster, but it would need to process an enormous amount of data, so
would not speed up the individual file case.
In the future it would be nice to support log --format. log --json also
doesn't work right yet.
Could have just used hGetContentsStrict here, but that would require
storing all the shas in memory. Since this is called at the end of a
git-annex run, it may have created a *lot* of shas, so I avoid that memory
use and stream them out like before.
