* New annex.hardlink setting. Closes: #758593
* init: Automatically detect when a repository was cloned with --shared,
and set annex.hardlink=true, as well as marking the repository as
untrusted.
Had to reorganize Logs.Trust a bit to avoid a cycle between it and
Annex.Init.
It seems that all other uses of <div .col-sm-9> occur outside of
<div .content-box>. This one occurred inside it, when xmpp pairing.
This was introduced in the bootstrap 3 conversion.
This avoids cp -a overriding the default mode acls that the user might have
set in a git repository.
With GNU cp, this behavior change should not be a breaking change, because
git-anex also uses rsync sometimes in the same situation, and has only ever
preserved timestamps when using rsync.
Systems without GNU cp will no longer use cp -a, but instead just cp.
So, timestamps will no longer be preserved. Preserving timestamps when
copying between repos is not guaranteed anyway.
Closes: #729757
Old behavior was to take the first fuzzy match. Now, it checks the globa
git config, and runs the normal fuzzy handling, including failing to run a
semi-random command by default.
This does mean that eg, copying multiple files to a local remote will
become slightly slower, since it now restarts git-cat-file after each copy.
Should not be significant slowdown.
The reason git-cat-file is run on the remote at all is to update its
location log. In order to add an item to it, it needs to get the current
content of the log. Finding a way to avoid needing to do that would be a
good path to avoiding this slowdown if it does become a problem somehow.
This commit was sponsored by Evan Deaubl.
(With the exception of daemon pid locking.)
This fixes at part of #758630. I reproduced the assistant locking eg, a
removable drive's annex journal lock file and forking a long-running
git-cat-file process that inherited that lock.
This did not affect Windows.
Considered doing a portable Utility.LockFile layer, but git-annex uses
posix locks in several special ways that have no direct Windows equivilant,
and it seems like it would mostly be a complication.
This commit was sponsored by Protonet.
Note that this means getopt parsing is done even when not in a git
repository, even though currently cmdnorepo is not passed the results of
it. I'd like to move to cmdnorepo not doing its own ad-hoc option parsing,
so this is really a good thing. (But as long as eg, getOptionFlag needs an
Annex monad, it cannot be used in cmdnorepo handling.)
There is a potential for problems if any cmdnorepo branch of a command
handles options that are not in its regular getopt, but that would be a bug
anyway.
The hoary old HTTP library was only used when checking if an url exists,
when curl was not available. It had many problems, including not supporting
https at all.
Now, this is done using http-conduit for all urls that it supports. Falls
back to curl for any url that http-conduit doesn't like (probably ftp etc,
but could also be an url that its parser chokes on for whatever reason).
This adds a new dependency on http-conduit, but webdav support already
indirectly depended on that, and the s3-aws branch also uses it.
This opens up the possibility of using http-conduit for large file
downloads, but for now I've left it using wget/curl.
This commit was sponsored by Paul Tötterman.
Since encryption=shared, the encryption key is stored in the git repo, so
there is no point at all in encrypting the creds, also stored in the git
repo with that key. So `initremote` doesn't. The creds are simply stored
base-64 encoded.
However, it then tried to always decrypt creds when encryption was used..
replaceFileOr was broken and ran the rollback action always.
Luckily, for replaceFile, the rollback action was safe to run, since it
just nuked a temp file that had already been moved into place.
However, when `git annex direct` used replaeFileOr, its rollback printed a
scary message:
/home/joey/tmp/rrrr/.git/annex/misctmp/tmp32268: rename: does not exist (No such file or directory)
There was actually no bad result though.
This speeds up the webdav special remote somewhat, since it often now
groups actions together in a single http connection when eg, storing a
file.
Legacy chunks are still supported, but have not been sped up.
This depends on a as-yet unreleased version of DAV.
This commit was sponsored by Thomas Hochstein.
Reusing http connection when operating on chunks is not done yet,
I had to submit some patches to DAV to support that. However, this is no
slower than old-style chunking was.
Note that it's a fileRetriever and a fileStorer, despite DAV using
bytestrings that would allow streaming. As a result, upload/download of
encrypted files is made a bit more expensive, since it spools them to temp
files. This was needed to get the progress meters to work.
There are probably ways to avoid that.. But it turns out that the current
DAV interface buffers the whole file content in memory, and I have
sent in a patch to DAV to improve its interfaces. Using the new interfaces,
it's certainly going to need to be a fileStorer, in order to read the file
size from the file (getting the size of a bytestring would destroy
laziness). It should be possible to use the new interface to make it be a
byteRetriever, so I'll change that when I get to it.
This commit was sponsored by Andreas Olsson.
When files are stored using rsync, they have their write bit removed;
so does the directory they're put in. The local repo code did not turn
these bits back on, so failed to remove.
bup already splits files and does rolling deltas, so there is no reason to
use chunking here.
The new API made it easier to add progress support for storeKey, so that's
done. Unfortunately, bup-split still outputs its own progress with -q,
so a little ugly, but not too bad.
Made dropping remove the branch for an object, for two reasons:
1. The new API calls removeKey to roll back a storeKey when the content
changed unexpectedly.
2. So that testremote will be happy.
Also, fixed a bug that caused a crash when removing the branch for an
object in rollback.
This only performs some basic tests so far; no testing of chunking or
resuming. Also, the existing encryption type of the remote is used; it
would be good later to derive an encrypted and a non-encrypted version of
the remote and test them both.
This commit was sponsored by Joseph Liu.
For example, I had a copy to a remote that was failing for an unknown
reason. This let me see the exception was createDirectory: permission
denied; the underlying problem being a permissions issue.
Leverage the new chunked remotes to automatically resume downloads.
Sort of like rsync, although of course not as efficient since this
needs to start at a chunk boundry.
But, unlike rsync, this method will work for S3, WebDAV, external
special remotes, etc, etc. Only directory special remotes so far,
but many more soon!
This implementation will also properly handle starting a download
from one remote, interrupting, and resuming from another one, and so on.
(Resuming interrupted chunked uploads is similarly doable, although
slightly more expensive.)
This commit was sponsored by Thomas Djärv.
The repair code assumed that if fsck found no broken objects, after
removing bad objects and possibly pulling replacements from remote, all was
well.. but this is not really true. Removing bad objects could leave some
branches broken. fsck doesn't report any missing objects in this case,
and its messages about broken branches are ignored by the fsck output
parser.
To deal with this, added a separate scan of all refs to find broken ones
and remove them when --forced. This will also let anyone who ran into this
bug run repair again to fix up the incomplete repair done before.
This commit was sponsored by Aaron Whitehouse.
Based on the example from the tip, but modified to cd into the repo before
running git-annex, since konqueror does not. Also, at least on my system,
the directory is ~/.kde, not ~/.kde4. (konqueror 4.12.4)
This commit was sponsored by Jürgen Peters.
This is a security/usability tradeoff. To avoid exposing the gpg key ids
who can decrypt the repository, users can unset
gcrypt-publish-participants.
The gcrypt-publish-participants option is available in my fork of
git-remote-gcrypt.
This commit was sponsored by Christopher Kernahan.
Catch an exception when ensureInitialized is run in a non-initted
repository. In this case, just read the git config, so that the Git.Repo
object is not LocalUnknown, which is what is used to represent remotes
on eg, drives that are not connected.
The assistant already got this right, and like with the assistant, this
causes an implicit git-annex init of the local remote on the second sync,
once the git-annex branch has been pushed to it.
See this comment for more analysis:
http://git-annex.branchable.com/todo/Recovering_from_a_bad_sync/#comment-64e469a2c1969829ee149cbb41b1c138
This commit was sponsored by jscit.
I think this is a git behavior change, but have not checked to be sure.
Conflict cruft used to look like $foo~HEAD, but now just $foo is left
behind as conflict cruft.
With test case.
Running `git annex direct` would cause loss of data, because the object
was moved to a temp file, which it then tried to replace the work tree file
with, and on failure, the temp file got deleted. Now it's instead moved
back into the annex object location.
Minor because normally only 1 FD is leaked per git-annex run. However,
the test suite leaks a few hundred FDs, and this broke it on the Debian
autobuilders, which seem to have a tigher than usual ulimit.
The leak was introduced by the lazy getDirectoryContents' that was
introduced in e6330988dd in order to scale to
millions of journal files -- if the lazy list was never fully consumed, the
directory handle did not get closed.
Instead, pull in openDirectory/readDirectory/closeDirectory code that I
already developed and submitted in a patch to the haskell directory library
earlier. Using this in journalDirty avoids the place that the lazy list
caused a problem. And using it in stageJournal eliminates the need for
getDirectoryContents'.
The getJournalFiles* functions are switched back to using the regular
strict getDirectoryContents. I'm not sure if those always consume the whole
list, so this avoids any leak. And the things that call those are things
like git annex unused, which also look at every file committed to the
git-annex branch, so would need more work to scale to insane numbers of
files anyway.
When one side is an annexed symlink, and the other side is a non-annexed symlink.
In this case, git-merge does not replace the annexed symlink in the work
tree with the non-annexed symlink, which is different from it's handling of
conflicts between annexed symlinks and regular files or directories.
So, while git-annex generated the correct merge commit, the work tree
didn't get updated to reflect it.
See comments on bug for additional analysis.
Did not add this to the test suite yet; just unloaded a truckload of firewood
and am feeling lazy.
This commit was sponsored by Adam Spiers.
Eg after git-annex add has run on 2 million files in one go.
Slightly unhappy with the neeed to use a temp file here, but I cannot see
any other alternative (see comments on the bug report).
This commit was sponsored by Hamish Coleman.
Support users who have set commit.gpgsign, by disabling gpg signatures for
git-annex branch commits and commits made by the assistant.
The thinking here is that a user sets commit.gpgsign intending the commits
that they manually initiate to be gpg signed. But not commits made in the
background, whether by a deamon or implicitly to the git-annex branch.
gpg signing those would be at best a waste of CPU and at worst would fail,
or flood the user with gpg passphrase prompts, or put their signature on
changes they did not directly do.
See Debian bug #753720.
Also makes all commits done by git-annex go through a few central control
points, to make such changes easier in future.
Also disables commit.gpgsign in the test suite.
This commit was sponsored by Antoine Boegli.
When annex.genmetadata is set, metadata from the feed is added to files
that are imported from it.
Reused the same feedtitle and itemtitle, feedauthor, itemauthor, etc names
that are used in --template.
Also added title and author, which are the item title/author if available,
falling back to the feed title/author. These are more likely to be common
metadata fields.
(There is a small bit of dupication here, but once git gets
around to packing the object, it will compress it away.)
The itempubdate field is not included in the metadata as a string; instead
it is used to generate year and month fields, same as is done when adding
files with annex.genmetadata set.
This commit was sponsored by Amitai Schlair, who cooincidentially
is responsible for ikiwiki generating nice feed metadata!
I had thought that this was already done, but apparently not. There may
have been a reversion around version 5.20140606. Anna's laptop had its
desktop menu file etc having that version despite having upgraded git-annex
to a newer version. However, I could not find any commits that removed a
call to ensureInstalled.
The bug caused the size of the queue to be miscalculted; it was doubled
each time an item was added. Commands run after approx 140 items rather
than the intended 10240!
Yes, this means that git annex webapp on windows execs git-annex, which
execs itself to set env, and the execs itself again to redirect logs.
This is disgusting. This is Windows(TM).
Using the crazy but apparently best approach of a VB Script that runs
git-annex, in a hidden DOS window.
Note that currently the git-annex messages are not directed to daemon.log.
Would probably need another layer of script. Also problimatic since the
repository may not exist yet.
When in direct mode, update the master branch after committing to the
annex/direct/master branch. Also, update the synced/master branch.
This fixes a topology A->B where both A and B are in direct mode and
running the assistant, and a change is made to B. Before this fix, A pulled
the changes from B, but since they were only on the annex/direct/master
branch, it did not merge them.
Note that I considered making the assistant merge the
remotes/B/annex/direct/master, but decided to keep it simple and only merge
the sync branches as before.
Rather than calculating the TSDelta once, and caching it, this now
reads the inode sential file's InodeCache file once, and then each time a
new InodeCache is generated, looks at the sentinal file to get the current
delta.
This way, if the time zone changes while git-annex is running, it will
adapt.
This adds some inneffiency, but only on Windows, and only 1 stat per new
file added. The worst innefficiency is that `git annex status` and
`git annex sync` will now (on Windows) stat the inode sentinal file once per
file in the repo.
It would be more efficient to use getCurrentTimeZone, rather than needing
to stat the sentinal file. This should be easy to do, once the time
package gets my bugfix patch.
This commit was sponsored by Jürgen Lüters.
Deal with FAT's low resolution timestamps, which in combination with
Linux's caching of higher res timestamps while a FAT is mounted, caused
direct mode repositories on FAT to seem to have modified files after they
were unmounted and remounted.
This commit was sponsored by Fabrice Rossi.
This version of wai changed the type of Middleware, so I cannot seem
to liftIO inside it. So, got rid of a lot of not really needed
complexity to use System.Log.Logger's logging stuff, and just use
the standard wai stdout logger when debug logging is enabled.
Format may change some, and it logs http to stdout instead of stderr
now. Doesn't matter for the webapp since both go to the same log anyway.
It was possible for a interrupted sync or merge in direct mode to
leave the work tree out of sync with the last recorded commit.
This would result in the next commit seeing files missing from the work
tree, and committing their removal.
Now, a direct mode merge happens not only in a throwaway work tree, but using
a temporary index file, and without any commits or index changes
being made until the real work tree has been updated. If the merge is
interrupted, the work tree may have some updated files, but worst case a
commit will redundantly commit changes that come from the merge.
This commit was sponsored by Tony Cantor.
This avoids a collision if different ssh ports are used on the same host
for some reason.
Note that it's ok to change the format of the mangled hostname; unmangling
only extracts the hostname from it, and once ssh is configured for a
mangled hostname, that config is not changed.
This avoids a potential slowdown when using lots of views.
I think that it makes sense for unused to ignore (local) view branches,
since these are by definition supposed to be views of an existing branch,
so looking at the branch should be sufficient (and if the view is out of
date and has files that have since been deleted from the branch, the user's
intent is not to preserve those from unused reaping).
Avoid stomping on existing group and preferred content settings
when enabling or combining with an already existing remote.
Two level fix. First, use defaultStandardGroup rather than
setStandardGroup, so if there is an existing configuration in the git-annex
branch, it's not overwritten.
To handle pre-existing ssh remotes (including gcrypt), a second level is
needed, because before syncing with the remote, it's configuration won't be
available locally. (And syncing could take a long time.) So, in this case,
keep track of whether the remote is being created or enabled, and only set
configs when creating it.
This commit was sponsored by Anders Lannerback.
This does mean that if the webapp is asked to add a git repository on
a removable drive that already exists, but is not yet a git-annex
repository, it will avoid putting it in any group. That unlikely edge case
is ok; the next step is the edit repository screen, which will show it's
not in any group and the user can pick one.
There was a tricky bit here, when it does combine, the edit form is shown,
and so the info needs to be committed to the new repository, but then
pulled into the current one. And caches need to be invalidated for it
to be visible in the edit form.
Allow any encoding to be used, as with filenames (but utf8 is the sane
choice). Affects metadata and repository descriptions, and preferred
content expressions.
The question of what's the right encoding for the git-annex branch is a
vexing one. utf-8 would be a nice choice, but this leaves the possibility
of bad data getting into a git-annex branch somehow, and this resulting in
git-annex crashing with encoding errors, which is a failure mode I want to
avoid.
(Also, preferred content expressions can refer to filenames, and filenames
can have any encoding, so limiting to utf-8 would not be ideal.)
The union merge code already took care to not assume any encoding for a
file. Except it assumes that any \n is a literal newline, and not part of
some encoding of a character that happens to contain a newline. (At least
utf-8 avoids using newline for anything except liternal newlines.)
Adapted the git-annex branch code to use this same approach.
Note that there is a potential interop problem with Windows, since
FileSystemEncoding doesn't work there, and instead things are always
decoded as utf-8. If someone uses non-utf8 encoding for data on the
git-annex branch, this can lead to an encoding error on windows. However,
this commit doesn't actually make that any worse, because the union merge
code would similarly fail with an encoding error on windows in that
situation.
This commit was sponsored by Kyle Meyer.
This is the capstone in making the webapp remember ssh remotes
so they can be easily enabled in other clones of the repository.
Currently, the user will need to enter a password to enable the ssh remote,
but everything else is filled in automatically.
This commit was sponsored by Peter Lloyd.
The repository must have been added using initremote.
Turned out to be much much simpler than expected, because I was able to
reuse the existing code for enabling rsync and gcrypt remotes, which
was already sufficiently general that it will also work for ssh remotes.
Total win!
This commit was sponsored by an unknown bitcoin contributor.
Note that TransferInfo does not always contain the Remote, although
any transfer added to the TransferQueue does have a Remote in its
TransferInfo. The transferkeys command still accepts a UUID, which is
useful to handle upgrades, where an old assistant version runs the new
transferkeys.
This commit was sponsored by Kalle Svensson.
Unless busybox doesn't support readlink -f, then it just uses readlink and
symlinking won't work. Also, OSX has no readlink -f so not done there.
Thanks, jlebar.
Broken by 958312885f, in November!
I missed this because there's no strong type checking across the AJAX call. :(
Need to switch to Fay to avoid such bugs..
When setting up a remote on a ssh server, prompt for a password inside the
webapp, rather than relying on ssh's own password prompting in the terminal
the webapp was started from, or ssh-askpass.
Avoids double prompting for the ssh password (and triple-prompting on
windows for rsync.net), since the entered password is cached for 10 minutes
and this cached password is reused when setting up the repository, after
the initial probe.
When the user has an existing ssh key set up, they can choose to use it,
rather than entering a password. The webapp used to probe for this case
automatically, so this is a little harder, but it's an advanced user thing.
Note that this commit is known to break enabling existing rsync
repositories. It hs not been tested with gcrypt repositories. It's not been
successfully tested yet on Windows.
This commit was sponsored by Ralph Mayer.
* webapp: Support using git-annex on a remote server, which was installed
from the standalone tarball or OSX app, and so does not have
git-annex in PATH (and may also not have git or rsync in PATH).
* standalone tarball, OSX app: Install a ~/.ssh/git-annex-wrapper, which
can be used to run git-annex, git, rsync, etc.
To do so, I slightly changed the behavior of unannex. Now in fast mode, it
only makes a hard link when the annexed file's link count is 1. This avoids
unannexing 2 files with the same content in fast mode from hard linking
them together. (One will end up hard linked to the annex, which the docs
warn about.)
With that change, uninit can simply always run unannex in fast mode. Since
.git/annex/objects is being blown away anyway, there's no worry in this
case about a hard link pointing into it causing an annexed object to be
modified.
For sync, saves 1 ssh connection per remote. For remotedaemon, the same
ssh connection that is already open to run git-annex-shell notifychanges
is reused to pull from the remote.
Only potential problem is that this also enables connection caching
when the assistant syncs with a ssh remote. Including the sync it does
when a network connection has just come up. In that case, cached ssh
connections are likely to be stale, and so using them would hang.
Until I'm sure such problems have been dealt with, this commit needs to
stay on the remotecontrol branch, and not be merged to master.
This commit was sponsored by Alexandre Dupas.
Code was still buggy, it turns out (though the recursion checker caught
it). In the case of (Schedule (Monthly Nothing) AnyTime), where the last
run was on yyyy-12-31, it looped forever.
Also, the handling of (Schedule (Yearly Nothing) AnyTime) was wacky where
the last run was yyyy-12-31. It would suggest a window starting on the 3rd
for the next run (because 31 mod 28 is 3).
I think that originally I was wanted to avoid running on 01-01 if it had
just run on 12-31. But the code didn't accomplish this, and it's not
necessary anyway. This is supposed to calculate the next window meeting the
schedule, and for (Schedule (Monthly Nothing), the window starts at 01-01
and runs through 01-31. If that causes two back-to-back runs, well the next
one will not be until 02-01 at the earliest.
Also, back-to-back runs can be avoided, if desired, by using Divisible 2.
a ssh remote, and pulls.
XMPP is no longer needed in this configuration!
Requires the remote server have git-annex-shell with notifychanges support.
(untested)
This commit was sponsored by Geog Wechslberger.
This will be used by the remote-daemon to quickly tell when changes have
been pushed from some other repository into a ssh remote.
Adjusted the remote-daemon protocol to communicate changed shas, rather
than git branch refs. This way, it can easily check if a sha is new.
This commit was sponsored by Carlos Trijueque Albarran.
This includes checking when dropping files that any required content
configuration is satisfied. However, it does not yet include an active
check on the required content; the location log is trusted when checking
the required content expression.
Version 5.20140227 broke creation of glacier repositories, not including
the datacenter and vault in their configuration. This bug is fixed, but
glacier repositories set up with the broken version of git-annex need to
have the datacenter and vault set in order to be usable. This can be done
using git annex enableremote to add the missing settings. For details, see
http://git-annex.branchable.com/bugs/problems_with_glacier/
Motivation: Hook scripts for nautilus or other file managers
need to provide the user with feedback that a file is being downloaded.
This commit was sponsored by THM Schoemaker.
Note that this is a nearly entirely free feature. The data was already
stored in the metadata log in an easily accessible way, and already was
parsed to a time when parsing the log. The generation of the metadata
fields may even be done lazily, although probably not entirely (the map
has to be evaulated to when queried).
For example "standard or (include=otherdir/*)" or even "not standard"
Note that the implementation avoids any potential for loops (if a
standard preferred content expression itself mentioned standard).
This commit was sponsored by Jochen Bartl.
Old ssh did not check the hostname passed to -O stop, so I had used "any".
But now ssh does check it! I think this happened as part of the client-side
hostname canonicalization changes in 6.5p1, but have not verified that
introduced the problem.
The symptom was that it would try to dns lookup "any", which often caused a
bit of a delay at shutdown. And the old ssh connection kept running, so
it would do it over and over again.
Fixed by using localhost, which hopefully reliably resolves to some address
that ssh will accept.. Also nukeFile the socket after ssh has been asked to
shutdown, just in case.
From 1.7 gb to 900 mb on 300 thousand unique reported shas.
When shas are not unique, this streams much better than before, so won't
buffer the full list before putting them into the Set and throwing away
dups. And when fsck output includes ignorable lines, especially
dangling object lines, they won't be buffered in memory at all.
unused: In direct mode, files that are deleted from the work tree are no longer incorrectly detected as unused.
Direct mode `git annex info` slows down a bit due to more stringent
checking, but not by a lot.
Benchmarking this with 1000 small files being copied, the time reduced from
15.98s to 14.64s -- an 8% improvement in the non-data-transfer overhead of
git-annex copy.
git-annex-shell does not need a pty, so this speeds things up.
Also, it may avoid weird misconfigured systems that try to run screen or
tmux on every ssh login from doing so.
This is a new feature, it was not handled before, since it's a bit of an
edge case. However, it can be handled exactly the same as a file/dir
conflict, just leave the non-annexed item alone.
While implementing this, the core resolveMerge' function got a lot simpler
and clearer. Note especially that where before there was an asymetric call to
stagefromdirectmergedir, now graftin is called symmetrically in both cases.
And, in order to add that `graftin us`, the current branch needed to be
known (if there is no current branch, there cannot be a merge conflict).
This led to some cleanups of how autoMergeFrom behaved when there is no
current branch.
This commit was sponsored by Philippe Gauthier.
Added test cases for both ways this can happen, with a conflict involving a
file, or a directory.
Cleaned up resolveMerge to not touch the work tree in direct mode, which
turned out to be the only way to handle things.. And makes it much nicer.
Still need to run test suite on windows.
Using the extract(1) program to do the heavy lifting.
Decided to make git-annex run pre-commit-annex when committing. Since
git-annex pre-commit also runs it, it'll be run when git commit is run too,
via the pre-commit hook. This basically gives back the pre-commit hook
that git-annex took away. The implementation avoids repeatedly looking
for the hook script when the assistant is running and committing
repeatedly; only checks if the hook is available once.
To make the script simpler, made git-annex metadata -s field?=value
only set a field when it's not already got a value.
This commit was sponsored by bak.
Note that negated globs are not supported. Would have complicated the code
to add them, without changing the data type serialization in a
non-backwards-compatable way.
This commit was sponsored by Denver Gingerich.
Trying to start in such a repo will, obviously, fail.
Note that assistant --autostart will try to start in such a repo, and fail,
but does start successfully in the other autostart repos.
This allows eg, putting .git/annex/tmp on a ram disk, if the disk IO
of temp object files is too annoying (and if you don't want to keep
partially transferred objects across reboots).
.git/annex/misctmp must be on the same filesystem as the git work tree,
since files are moved to there in a way that will not work cross-device,
as well as symlinked into there.
I first wanted to put the tmp objects in .git/annex/objects/tmp, but
that would pose transition problems on upgrade when partially transferred
objects existed.
git annex info does not currently show the size of .git/annex/misctemp,
since it should stay small. It would also be ok to make something clean it
out, periodically.
Performance impact: When adding a large tree of new files, this needs
to do some git cat-file queries to check if any of the files already
existed and might need a metadata copy. I tried a benchmark in a copy
of my sound repository (so there was already a significant git tree
to check against.
Adding 10000 small files, with a cold cache:
before: 1m48.539s
after: 1m52.791s
So, impact is 0.0004 seconds per file added. Which seems acceptable, so did
not add some kind of configuration to enable/disable this.
This commit was sponsored by Lisa Feilen.
When constructing views, metadata is available about the location of the
file in the view's reference branch. Allows incorporating parts of the
directory hierarchy in a view.
For example `git annex view tag=* podcasts/=*` makes a view in the form
tag/showname.
Performance impact: I benchmarked git annex view tag=* in the conference
proceedings repo to take 6.459s before this change, and 6.544s after.
FWIW, I considered making the syntax for this be podcasts/*, which might
be easier for the user to learn. However, I think it's not as good:
* The user has to then juggle two different syntaxes, and podcasts/* will
be expanded by the shell so they also need to quote it, while podcasts/=*
is unlikely to be expanded by the shell.
* It would allow for things like podcasts/*/* and *.mp3 which do not
map well into views.
This commit was sponsored by Aurélien Pinceaux.
This breakage seems to have been caused way back in a1eded86,
but I am pretty sure rsync.net support has not been entirely
broken since last April. AFAICS, the generated .ssh/config
has not changed since then -- it has never included a Username setting
line. So, I am puzzled at when this reversion was introduced.
Note that the breakage only affected checkpresent and remove. Upload and
download use the ssh connection caching, which includes a -l username.
While writing this documentation, I realized that there needed to be a way
to stay in a view like tag=* while adding a filter like tag=work that
applies to the same field.
So, there are really two ways a view can be refined. It can have a new
"field=explicitvalue" filter added to it, which does not change the
"shape" of the view, but narrows the files it shows.
Or, it can have a new view added, which adds another level of
subdirectories.
So, added a vfilter command, which takes explicit values to add to the
filter, and rejects changes that would change the shape of the view.
And, made vadd only accept changes that change the shape of the view.
And, changed the View data type slightly; now components that can match
multiple metadata values can be visible, or not visible.
This commit was sponsored by Stelian Iancu.
So the user can now switch to a view and then move files around within it
to manage metadata. For example, moving a file into a new directory
when in the tags=* view adds a tag to it.
Implementation is fairly efficient. One diff-index, which is no more
expensive than the first stage of a git commit, followed by possibly
some cat-file --batch traffic to find the key (when deleting a file).
Very similar to what's done in direct mode when committing. And like
direct mode when updating the WC after a merge, it has to buffer the
diff-tree values in order to make 2 passes over them.
When not in a view, pre-commit now does one extra git symbolic-ref,
which is tiny overhead.
This commit was sponsored by Andrew Eskridge.
(And a vpop command, which is still a bit buggy.)
Still need to do vadd and vrm, though this also adds their documentation.
Currently not very happy with the view log data serialization. I had to
lose the TDFA regexps temporarily, so I can have Read/Show instances of
View. I expect the view log format will change in some incompatable way
later, probably adding last known refs for the parent branch to View
or something like that.
Anyway, it basically works, although it's a bit slow looking up the
metadata. The actual git branch construction is about as fast as it can be
using the current git plumbing.
This commit was sponsored by Peter Hogg.
Note that on Windows a remote with a path like /home/foo/bar
is interpreted by git as being some screwy relative path (relative to what
exactly seems ill-defined -- it seemed relative to C:\Program Files\Git\ in
my tests!) So no attempt has been made to handle such a path sanely, just not
to crash when encountering it.
Note that "C:\\foo" </> "/home/foo/bar" yields /home/foo/bar even though
that is not absolute! I don't know what to make of all this,
except that I will be very happy when this crock of **** vanishes from
the face of the earth.
Seems I punted on this while porting before. This hack relies on DOS not
using / in filenames, it's effectively an alternate path separatr in at
least current versions of windows..
Fix bug in automatic merge conflict resolution code when used
on a filesystem not supporting symlinks, which resulted in it losing
track of the symlink bit of annexed files.
This was the underlying bug that was causing another test to fail,
which got worked around in 1c997fd08c.
I've chosen to keep 2 separate test cases since the old test case only
detected the problem accidentially.
Test suite passes on FAT & in windows, as well as on proper unix systems.
This commit was sponsored by Ellis Whitehead.
On windows, the sync of the second cloned repo to origin failed, because
synced/master was a non-fast-forward. This may be a bug of its own, but
it's not the issue that this test was intended to test, so disconnect
the repos from origin before syncing.
On Windows, a file that is not writable cannot be deleted even if in a
directory with write perms. So git object files were not getting deleted
when removing a git repository.
Need to include the uuid of the local repo in the list of belived locations
of a key after getting it, in order for the drop from remote to include it
in the numcopies calculation.
* sync --content: Honor annex-ignore configuration.
* sync: Don't try to sync with xmpp remotes, which are only currently
supported when using the assistant.
Seems that locking of annexed objects when they're being dropped was broken
in direct mode:
* When taking the lock before dropping, it created the .git/annex/objects
file, as an empty file. It seems that the dropping code deleted that,
but that is not right, and for all I know could in some situation cause
a corrupted object to leak out.
* When the lock was checked, it actually tried to open each direct mode
file, and checked if it was locked. Not the same lock used above, and
could also fail if some consumer of the file locked it.
Fixed this, and added windows support by switching direct mode to lock a
.lck file.
Make sanity checker run git annex unused daily, and queue up transfers
of unused files to any remotes that will have them. The transfer retrying
code works for us here, so eg when a backup disk remote is plugged in,
any transfers to it are done. Once the unused files reach a remote,
they'll be removed locally as unwanted.
If the setup does not cause unused files to go to a remote, they'll pile
up, and the sanity checker detects this using some heuristics that are
pretty good -- 1000 unused files, or 10% of disk used by unused files,
or more disk wasted by unused files than is left free. Once it detects
this, it pops up an alert in the webapp, with a button to take action.
TODO: Webapp UI to configure this, and also the ability to launch an
immediate cleanup of all unused files.
This commit was sponsored by Simon Michael.
Checking .gitattributes adds a full minute to a git annex find looking for
files that don't have enough copies. 2:25 increasts to 3:27. I feel this is
too much of a slowdown to justify making it the default. So, exposed two
versions of the preferred content expression, a slow one and a fast but
approximate one.
I'm using the approximate one in the default preferred content expressions
to avoid slowing down the assistant.
* Add numcopiesneeded preferred content expression.
* Client, transfer, incremental backup, and archive repositories
now want to get content that does not yet have enough copies.
This means the asssistant will make copies of files that don't yet
meet the configured numcopies, even to places that would not normally want
the file.
For example, if numcopies is 4, and there are 2 client repos and
2 transfer repos, and 2 removable backup drives, the file will be sent
to both transfer repos in order to make 4 copies. Once a removable drive
get a copy of the file, it will be dropped from one transfer repo or the
other (but not both).
Another example, numcopies is 3 and there is a client that has a backup
removable drive and two small archive repos. Normally once one of the small
archives has a file, it will not be put into the other one. But, to satisfy
numcopies, the assistant will duplicate it into the other small archive
too, if the backup repo is not available to receive the file.
I notice that these examples are fairly unlikely setups .. the old behavior
was not too bad, but it's nice to finally have it really correct.
.. Almost. I have skipped checking the annex.numcopies .gitattributes
out of fear it will be too slow.
This commit was sponsored by Florian Schlegel.
* numcopies: New command, sets global numcopies value that is seen by all
clones of a repository.
* The annex.numcopies git config setting is deprecated. Once the numcopies
command is used to set the global number of copies, any annex.numcopies
git configs will be ignored.
* assistant: Make the prefs page set the global numcopies.
This global numcopies setting is needed to let preferred content
expressions operate on numcopies.
It's also convenient, because typically if you want git-annex to preserve N
copies of files in a repo, you want it to do that no matter which repo it's
running in. Making it global avoids needing to warn the user about gotchas
involving inconsistent annex.numcopies settings.
(See changes to doc/numcopies.mdwn.)
Added a new variety of git-annex branch log file, that holds only 1 value.
Will probably be useful for other stuff later.
This commit was sponsored by Nicolas Pouillard.
Similar to the assistant, this honors any configured preferred content
expressions.
I am not entirely happpy with the implementation. It would be nicer if
the seek function returned a list of actions which included the individual
file gets and copies and drops, rather than the current list of calls to
syncContent. This would allow getting rid of the somewhat reundant display
of "sync file [ok|failed]" after the get/put display.
But, do that, withFilesInGit would need to somehow be able to construct
such a mixed action list. And it would be less efficient than the current
implementation, which is able to reuse several values between eg get and
drop.
Note that currently this does not try to satisfy numcopies when
getting/putting files (numcopies are of course checked when dropping
files!) This makes it like the assistant, and unlike get --auto
and copy --auto, which do duplicate files when numcopies is not yet
satisfied. I don't know if this is the right decision; it only seemed to
make sense to have this parallel the assistant as far as possible to start
with, since I know the assistant works.
This commit was sponsored by Øyvind Andersen Holm.
Known problems:
1. Tries to tahoe start when daemon is already running.
2. If multiple tahoe remotes are set up on the same computer,
they will have the same node.url configured by default,
and this confuses tahoe commands.
This commit was sponsored by LeastAuthority.com
So that remotes that use a persistent network connection are restarted.
A remote might keep open a long duration network connection, and could
fail to deal well with losing the connection. This is particularly a
concern now that we have external special reotes. An external
special remote that is implemented naively might open the connection only
when PREPARE is sent, and if it loses connection, throw errors on each
request that is made.
(Note that the ssh connection caching should not have this problem; if the
long-duration ssh process loses connection, the named pipe is disconnected
and the next ssh attempt will reconnect. Also, XMPP already deals with
disconnection robustly in its own way.)
There's no way for git-annex to know if a lost network connection actually
affects a given remote, which might have a transfer in process. It does not
make sense to force kill the transferkeys process every time the NetWatcher
detects a change. (Especially because the NetWatcher sometimes polls 1
change per hour.)
In any case, the NetWatcher only detects connection to a network, not
disconnection. So if a transfer is in progress over the network, and the
network goes down, that will need to time out on its own.
An alternate approch that was considered is to use a separate transferkeys
process for each remote, and detect when a request fails, and assume that
means that process is in a failing state and restart it. The problem with
that approach is that if a resource is not available and a remote fails
every time, it degrades to starting a new transferkeys process for every
file transfer, which is too expensive.
Instead, this commit only handles the network reconnection case, and restarts
transferkeys only once the network has reconnected and another transfer needs
to be made. So, a transferkeys process will be reused for 1 hour, or until the
next network connection.
----
The NotificationBroadcaster was rewritten to use TMVars rather than MSampleVars,
to allow checking without blocking if a notification has been received.
----
This commit was sponsored by Tobias Brunner.
Noticed that it was possible for add to move a file to .git/annex/objects
and not make the link if the disk was full. This happened because the
location log update failed, and so addLink never got a chance to run.
Running addLink first fixes it; on error it will unwind by moving the file
back to where it was originally.
This adds a http HEAD before the download is done. That was already the
case when the assistant was running, and it seems worth it to avoid filling
up the whole disk, like happened to my server today.
This allows a remote to store a piece of arbitrary state associated with a
key. This is needed to support Tahoe, where the file-cap is calculated from
the data stored in it, and used to retrieve a key later. Glacier also would
be much improved by using this.
GETSTATE and SETSTATE are added to the external special remote protocol.
Note that the state is left as-is even when a key is removed from a remote.
It's up to the remote to decide when it wants to clear the state.
The remote state log, $KEY.log.rmt, is a UUID-based log. However,
rather than using the old UUID-based log format, I created a new variant
of that format. The new varient is more space efficient (since it lacks the
"timestamp=" hack, and easier to parse (and the parser doesn't mess with
whitespace in the value), and avoids compatability cruft in the old one.
This seemed worth cleaning up for these new files, since there could be a
lot of them, while before UUID-based logs were only used for a few log
files at the top of the git-annex branch. The transition code has also
been updated to handle these new UUID-based logs.
This commit was sponsored by Daniel Hofer.
This was unexpectedly difficult because of a depdenency cycle. To parse a
preferred content expression involves several things that need to operate
on the list of remotes. Which needs Remote.External. The only way to avoid
this cycle (I tried breaking it at several points) was to skip parsing the
expression in SETWANTED.
That's sorta ok, because git-annex already has to deal with unparsable
preferred content expressions being stored, in order to handle eg,
upgrades. But I'm still not very happy that I cannot check it.
I feel this is a strong indication that I need to beware of further
bloating the special remote protocol interface.
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.
Fixes a test case I received where a corrupted repo was repaired, but the
git-annex branch was not. The root of the problem was that the
MissingObject returned by the repair code was not necessarily a complete
set of all objects that might have been deleted during the repair.
So, stop trying to return that at all, and instead make the index file
checking code explicitly verify that each object the index uses is present.
Previous test did not notice if there is a dangling symlink.
Also, if a directory exists with the same name as the imported file, that
cannot work, so don't let --force have an effect.
Note that the hash backends were made to stop printing a (checksum..)
message as part of this, since it showed up without a file when deciding
whether to act on a file. Should have probably removed that message a while
ago anyway, I suppose.
The assistant's commit code also always avoids git commit, for simplicity.
Indirect mode sync still does a git commit -a to catch unstaged changes.
Note that this means that direct mode sync no longer runs the pre-commit
hook or any other hooks git commit might call. The git annex pre-commit
hook action for direct mode is however explicitly run. (The assistant
already ran git commit with hooks disabled, so no change there.)
Not yet wired up to restart the assistant on upgrade; that needs careful
sanity checking to wait until the upgrade is done before restarting.
Used the DirWatcher here, so it gets events for any changes to the
directory containing the program file. (But not subdirs.) This is necessary
in order to detect when the file is renamed as part of the upgrade, which
an inotify on a single file would not detect. (Also, I have DirWatcher code,
but not FileWatcher code.)
Note that upgrades that remove or rename a whole directory tree containing
the executable will *not* trigger this code. So eg, deleting and replacing
the whole standalone tarball dir tree won't work -- but untarring it
over top will. So should dpkg package upgrades.
Added programPath, using a new GHC feature to find the full path to the
executable. The fallback code for old GHC or unsupported OS is less good;
its worst failure mode would be either failing to find the program, and so
not checking for upgrades, or finding a git-annex that's in PATH, but is
not the one running.
This commit was sponsored by John Roepke.
In 0.9, -v shows version, rather than controlling verbosity.
Still need to port to 0.9, this just avoids massively confusing addurl when
quvi prints its version and exits successfully, on urls that it cannot be
used with.
Because that allowed writing to symlinks of files that are not present,
which followed the link and put bad content in an object location.
fsck: Fix up .git/annex/object directory permissions.
This commit was sponsored by an anonymous bitcoin donor.
Complicated by such repositories potentially being repos that should have
an annex.uuid, but it failed to be gotten, perhaps due to the past ssh repo
setup bugs. This is handled now by an Upgrade Repository button.
Adding the file moved it to the annex, and then tried to set the mode.
Error unwind then moved the file back, and so the watcher saw the file get
deleted and then added back, and so tried again..
Direct mode repositories can now have core.bare=true set, to prevent
accidentally running git commands that try to operate on the work tree,
and so do the wrong thing.
This is not yet the default, and it causes known problems for git-annex sync
due to receive.denyCurrentBranch not working in bare repositories.
This commit was sponsored by Richard Hartmann.
The -c option now not only modifies the git configuration seen by
git-annex, but it is passed along to every git command git-annex runs.
This was easy to plumb through because gitCommandLine is already used to
construct every git command line, to add --git-dir and --work-tree
I think both of these are all that's affected, but I went ahead and fixed
all the remotes that set their config to M.empty to instead store the
actual config. Who knows what will expect it to be actually present in
future, the Remote instance of getGpgEncParams came to..
I was able to reproduce something very like this bug by starting
pairing separately on both computers under poor network conditions (ie,
weak wifi on my front porch). Neither computer showed an alert for the
PairReq messages it was seeing (intermittently) from the other.
So, I've made a new PairReq message that has not been seen before
always make the alert pop up, even if the assistant thinks it is
in the middle of its own pairing process (or even another pairing
process with a different box on the LAN).
(This shouldn't cause a rogue PairAck to disrupt a pairing process part
way through.)
Copies files out of the annex. This avoids an unannex of one file breaking
other files that link to the same content. Also, it means that the content
remains in the annex using up space until cleaned up with "git annex
unused".
(The behavior of unannex --fast has not changed; it still hard
links to content in the annex. --fast was not made the default because it
is potentially unsafe; editing such a hard linked file can unexpectedly
change content stored in the annex.)
catKeyFileHEAD is still checked too, because when doing a git commit with
unlocked files, the file gets staged to the index, so is not typechanged
there.
(This is also why git annex add foo; git annex unlock foo; git commit -a
does not re-annex foo, because there is no indication left that it was
added.)
Note that this case is only fully automatically resolved in direct mode.
In indirect mode, git merge moves the file to file~HEAD, and replaces it
with the directory, and leaves the file in unmerged state, and sync doesn't
yet change that.
I have not actually tested with 1.8.5, which is not yet relesaed, but
git.git commit f7cd8c50b9ab83e084e8f52653ecc8d90665eef2 changes -z
to also apply to output, without regards to back-compat. (But with pretty
good reasons.)
New code should work with both versions, by fingerprinting for NULs and
newlines.
addurl: Improve message when adding url with wrong size to existing file.
Before the message suggested the url didn't exist.
Fixed handling of URL keys that have no recorded size. Before, if the key
has no size, the url also had to not declare any size, which was unlikely
and wrong, or it was taken to not exist. This probably would mostly affect
keys that were added to the annex with addurl --relaxed.
The control socket path passed to ssh needs to be 17 characters shorter
than the maximum unix domain socket length, because ssh appends stuff to it
to make a temporary filename. Closes: #725512
Also, take the shorter of the relative and the absolute paths to the
socket. Typically the relative path will be a lot shorter (unless
deep inside a subdirectory of the repository), and so using it will
avoid flirting with the maximum safe socket lenghts in more situations,
and so lead to less breakage if all my attempts at fixing this are
still buggy.
Extends the index.lock handling to other git lock files. I surveyed
all lock files used by git, and found more than I expected. All are
handled the same in git; it leaves them open while doing the operation,
possibly writing the new file content to the lock file, and then closes
them when done.
The gc.pid file is excluded because it won't affect the normal operation
of the assistant, and waiting for a gc to finish on startup wouldn't be
good.
All threads except the webapp thread wait on the new startup sanity checker
thread to complete, so they won't try to do things with git that fail
due to stale lock files. The webapp thread mostly avoids doing that kind of
thing itself. A few configurators might fail on lock files, but only if the
user is explicitly trying to run them. The webapp needs to start
immediately when the user has opened it, even if there are stale lock
files.
Arranging for the threads to wait on the startup sanity checker was a bit
of a bear. Have to get all the NotificationHandles set up before the
startup sanity checker runs, or they won't see its signal. Perhaps
the NotificationBroadcaster is not the best interface to have used for
this. Oh well, it works.
This commit was sponsored by Michael Jakl
FAT has a lot of characters it does not allow in filenames, like ? and *
It's probably the worst offender, but other filesystems also have
limitiations.
In 2011, I made keyFile escape : to handle FAT, but missed the other
characters. It also turns out that when I did that, I was also living
dangerously; any existing keys that contained a : had their object
location change. Oops.
So, adding new characters to escape to keyFile is out. Well, it would be
possible to make keyFile behave differently on a per-filesystem basis, but
this would be a real nightmare to get right. Consider that a rsync special
remote uses keyFile to determine the filenames to use, and we don't know
the underlying filesystem on the rsync server..
Instead, I have gone for a solution that is backwards compatable and
simple. Its only downside is that already generated URL and WORM keys
might not be able to be stored on FAT or some other filesystem that
dislikes a character used in the key. (In this case, the user can just
migrate the problem keys to a checksumming backend. If this became a big
problem, fsck could be made to detect these and suggest a migration.)
Going forward, new keys that are created will escape all characters that
are likely to cause problems. And if some filesystem comes along that's
even worse than FAT (seems unlikely, but here it is 2013, and people are
still using FAT!), additional characters can be added to the set that are
escaped without difficulty.
(Also, made WORM limit the part of the filename that is embedded in the key,
to deal with filesystem filename length limits. This could have already
been a problem, but is more likely now, since the escaping of the filename
can make it longer.)
This commit was sponsored by Ian Downes
SHA3 is still waiting for final standardization.
Although this is looking less likely given
https://www.cdt.org/blogs/joseph-lorenzo-hall/2409-nist-sha-3
In the meantime, cryptohash implements skein, and it's used by some of the
haskell ecosystem (for yesod sessions, IIRC), so this implementation is
likely to continue working. Also, I've talked with the cryprohash author
and he's a reasonable guy.
It makes sense to have an alternate high security hash, in case some
horrible attack is found against SHA2 tomorrow, or in case SHA3 comes out
and worst fears are realized.
I'd also like to support using skein for HMAC. But no hurry there and
a new version of cryptohash has much nicer HMAC code, so I will probably
wait until I can use that version.
gcrypt needs to be able to fast-forward the master branch. If a git
repository is set up with git init --shared --bare, it gets that set, and
pushing to it will then fail, even when it's up-to-date.
This happened because the transferrer process did not know about the new
remote. remoteFromUUID crashed, which crashed the transferrer. When it was
restarted, the new one knew about the new remote so all further files would
transfer, but the one file would temporarily not be, until transfers retried.
Fixed by making remoteFromUUID not crash, and try reloading the remote list
if it does not know about a remote.
Note that this means that remoteFromUUID does not only return Nothing anymore
when the UUID is the UUID of the local repository. So had to change some code
that dependend on that assumption.
Overridable with --user-agent option.
Not yet done for S3 or WebDAV due to limitations of libraries used --
nether allows a user-agent header to be specified.
This commit sponsored by Michael Zehrer.
This is motivated by a user report that the assistant was repeatedly
retrying transfers of files that had been deleted (in direct mode, so
removing the only copy).
Note that the glacier code retries failed transfers after a while to retry
downloads that have aged long enough to be available. This is ok; if we're
doing a full transfer scan we'll retry on every file that is still in the
git tree.
Also note that this makes the assistant less likely to get every file
referenced by old revs of the git tree. Not something the assistant tries
to ensure anyway, so I feel this is acceptable.
This is a massive win on OSX, which doesn't have a sha256sum normally.
Only use external hash commands when the file is > 1 mb,
since cryptohash is quite close to them in speed.
SHA is still used to calculate HMACs. I don't quite understand
cryptohash's API for those.
Used the following benchmark to arrive at the 1 mb number.
1 mb file:
benchmarking sha256/internal
mean: 13.86696 ms, lb 13.83010 ms, ub 13.93453 ms, ci 0.950
std dev: 249.3235 us, lb 162.0448 us, ub 458.1744 us, ci 0.950
found 5 outliers among 100 samples (5.0%)
4 (4.0%) high mild
1 (1.0%) high severe
variance introduced by outliers: 10.415%
variance is moderately inflated by outliers
benchmarking sha256/external
mean: 14.20670 ms, lb 14.17237 ms, ub 14.27004 ms, ci 0.950
std dev: 230.5448 us, lb 150.7310 us, ub 427.6068 us, ci 0.950
found 3 outliers among 100 samples (3.0%)
2 (2.0%) high mild
1 (1.0%) high severe
2 mb file:
benchmarking sha256/internal
mean: 26.44270 ms, lb 26.23701 ms, ub 26.63414 ms, ci 0.950
std dev: 1.012303 ms, lb 925.8921 us, ub 1.122267 ms, ci 0.950
variance introduced by outliers: 35.540%
variance is moderately inflated by outliers
benchmarking sha256/external
mean: 26.84521 ms, lb 26.77644 ms, ub 26.91433 ms, ci 0.950
std dev: 347.7867 us, lb 210.6283 us, ub 571.3351 us, ci 0.950
found 6 outliers among 100 samples (6.0%)
import Crypto.Hash
import Data.ByteString.Lazy as L
import Criterion.Main
import Common
testfile :: FilePath
testfile = "/run/shm/data" -- on ram disk
main = defaultMain
[ bgroup "sha256"
[ bench "internal" $ whnfIO internal
, bench "external" $ whnfIO external
]
]
sha256 :: L.ByteString -> Digest SHA256
sha256 = hashlazy
internal :: IO String
internal = show . sha256 <$> L.readFile testfile
external :: IO String
external = do
s <- readProcess "sha256sum" [testfile]
return $ fst $ separate (== ' ') s
Done using a mode witness, which ensures it's fixed everywhere.
Fixing catFileKey was a bear, because git cat-file does not provide a
nice way to query for the mode of a file and there is no other efficient
way to do it. Oh, for libgit2..
Note that I am looking at tree objects from HEAD, rather than the index.
Because I cat-file cannot show a tree object for the index.
So this fix is technically incomplete. The only cases where it matters
are:
1. A new large file has been directly staged in git, but not committed.
2. A file that was committed to HEAD as a symlink has been staged
directly in the index.
This could be fixed a lot better using libgit2.
To support this, a core.gcrypt-id is stored by git-annex inside the git
config of a local gcrypt repository, when setting it up.
That is compared with the remote's cached gcrypt-id. When different, a
drive has been changed. git-annex then looks up the remote config for
the uuid mapped from the core.gcrypt-id, and tweaks the configuration
appropriately. When there is no known config for the uuid, it will refuse to
use the remote.
Note that it would be possible to extend the display to show all
repositories. But there can be a lot of repositories that are not set up as
remotes, and it would significantly clutter the display to show them all.
Since we're not showing all repositories, it's not worth trying to show
numcopies count either.
I decided to embrace these limitations and call the command remotes.
Use rsync for gcrypt remotes that are not local to the disk.
(Note that I have punted on supporting http transport for now, it doesn't
seem likely to be very useful.)
This was mostly quite easy, it just uses the rsync special remote to handle
the transfers. The git repository url is converted to a RsyncOptions
structure, which required parsing it separately, since the rsync special
remote only supports rsync urls, which use a different format.
Note that annexed objects are now stored at the top of the gcrypt repo,
rather than inside annex/objects. This simplified the rsync suport,
since it doesn't have to arrange to create that directory. And git-annex
is not going to be run directly within gcrypt repos -- or if in some
strance scenario it was, it would make sense for it to not see the
encrypted objects.
This commit was sponsored by Sheila Miguez
Wrote nice pure transition calculator, and ugly code to stage its results
into the git-annex branch. Also had to split up several Log modules
that Annex.Branch needed to use, but that themselves used Annex.Branch.
The transition calculator is limited to looking at and changing one file at
a time. While this made the implementation relatively easy, it precludes
transitions that do stuff like deleting old url log files for keys that are
being removed because they are no longer present anywhere.
When quvi is installed, git-annex addurl automatically uses it to detect
when an page is a video, and downloads the video file.
web special remote: Also support using quvi, for getting files,
or checking if files exist in the web.
This commit was sponsored by Mark Hepburn. Thanks!
<RichiH> i richih@eudyptes (git)-[master] ~git/debconf-share/debconf13/photos/chrysn % rm /home/richih/work/git/debconf-share/.git/annex/tmp/SHA256E-s3044235--693b74fcb12db06b5e79a8b99d03e2418923866506ee62d24a4e9ae8c5236758.JPG
<RichiH> richih@eudyptes (git)-[master] ~git/debconf-share/debconf13/photos/chrysn % git annex get P8060008.JPG
<RichiH> get P8060008.JPG (from website...) --2013-08-21 21:42:45-- http://annex.debconf.org/debconf-share/.git//annex/objects/1a4/67d/SHA256E-s3044235--693b74fcb12db06b5e79a8b99d03e2418923866506ee62d24a4e9ae8c5236758.JPG/SHA256E-s3044235--693b74fcb12db06b5e79a8b99d03e2418923866506ee62d24a4e9ae8c5236758.JPG
<RichiH> Resolving annex.debconf.org (annex.debconf.org)... 5.153.231.227, 2001:41c8:1000:19::227:2
<RichiH> Connecting to annex.debconf.org (annex.debconf.org)|5.153.231.227|:80... connected.
<RichiH> HTTP request sent, awaiting response... 404 Not Found
<RichiH> 2013-08-21 21:42:45 ERROR 404: Not Found.
<RichiH> File `/home/richih/work/git/debconf-share/.git/annex/tmp/SHA256E-s3044235--693b74fcb12db06b5e79a8b99d03e2418923866506ee62d24a4e9ae8c5236758.JPG' already there; not retrieving.
<RichiH> Unable to access these remotes: website
<RichiH> Try making some of these repositories available:
<RichiH> 3e0356ac-0743-11e3-83a5-1be63124a102 -- website (annex.debconf.org)
<RichiH> a7495021-9f2d-474e-80c7-34d29d09fec6 -- chrysn@hephaistos:~/data/projects/debconf13/debconf-share
<RichiH> eb8990f7-84cd-4e6b-b486-a5e71efbd073 -- joeyh passport usb drive
<RichiH> f415f118-f428-4c68-be66-c91501da3a93 -- joeyh laptop
<RichiH> failed
<RichiH> git-annex: get: 1 failed
<RichiH> richih@eudyptes (git)-[master] ~git/debconf-share/debconf13/photos/chrysn %
I was not able to reproduce the failure, but I did reproduce that
wget -O http://404/ results in an empty file being written.
This is a simple approach for setting up a mirroring repository.
It will work with any type of remotes.
Mirror --from is more expensive than mirror --to in general.
OTOH, mirror --from will get the file from any remote that has it, not only
the named mirror remote. And if the named mirror remote is not the fastest
available remote with a file, that can speed things up.
It would be possible to make the assistant or watch command do a more
dynamic mirroring, that didn't need to scan every time.
Requires git 1.8.4 or newer. When it's installed, a background
git check-ignore process is run, and used to efficiently check ignores
whenever a new file is added.
Thanks to Adam Spiers, for getting the necessary support into git for this.
A complication is what to do about files that are gitignored but have
been checked into git anyway. git commands assume the ignore has been
overridden in this case, and not need any more overriding to commit a
changed version.
However, for the assistant to do the same, it would have to run git ls-files
to check if the ignored file is in git. This is somewhat expensive. Or it
could use the running git-cat-file process to query the file that way,
but that requires transferring the whole file content over a pipe, so it
can be quite expensive too, for files that are not git-annex
symlinks.
Now imagine if the user knows that a file or directory tree will be getting
frequent changes, and doesn't want the assistant to sync it, so gitignores
it. The assistant could overload the system with repeated ls-files checks!
So, I've decided that the assistant will not automatically commit changes
to files that are gitignored. This is a tradeoff. Hopefully it won't be a
problem to adjust .gitignore settings to not ignore files you want the
assistant to autocommit, or to manually git annex add files that are listed
in .gitignore.
(This could be revisited if git-annex gets access to an interface to check
the content of the index w/o forking a git command. This could be libgit2,
or perhaps a separate git cat-file --batch-check process, so it wouldn't
need to ship over the whole file content.)
This commit was sponsored by Francois Marier. Thanks!
This runs git-cat-file in non-batch mode for all files with spaces.
If a directory tree has a lot of them, and is in direct mode, even "git
annex add" when there are few new files will need a *lot* of forks!
The only reason buffering the whole file content to get the sha is not a
memory leak is that git-annex only ever uses this on symlinks.
This needs to be reverted as soon as a fix is available in git!
A git pathspec is a filename, except when it starts with ':', it's taken
to refer to a branch, etc. Rather than special case ':', any filename
starting with anything unusual is prefixed with "./"
This could have been a real mess to deal with, but luckily SafeCommand
is already extensively used and so we know at the type level the difference
between parameters that are files, and parameters that are command options.
Testing did show that Git.Queue was not using SafeCommand on
filenames fed to xargs. (Filenames starting with '-' worked before only
because -- was used to separate filenames from options when calling eg git
add.)
The test suite now passes with filenames starting with ':'. However, I did
not keep that change to it, because such filenames are probably not legal
on windows, and I have enough ugly windows ifdefs in there as it is.
This commit was sponsored by Otavio Salvador. Thanks!
This includes recovery from the ssh-agent problem that led to many reporting
http://git-annex.branchable.com/bugs/Internal_Server_Error:_Unknown_UUID/
(Including fixing up .ssh/config to set IdentitiesOnly.)
Remotes that have no known uuid are now displayed in the webapp as
"unfinished". There's a link to check their status, and if the remote
has been set annex-ignore, a retry button can be used to unset that and
try again to set up the remote.
As this bug has shown, the process of adding a ssh remote has some failure
modes that are not really ideal. It would certianly be better if, when
setting up a ssh remote it would detect if it's failed to get the UUID,
and handle that in the remote setup process, rather than waiting until
later and handling it this way.
However, that's hard to do, particularly for local pairing, since the
PairListener runs as a background thread. The best it could do is pop up an
alert if there's a problem. This solution is not much different.
Also, this solution handles cases where the user has gotten their repo into
a mess manually and let's the assistant help with cleaning it up.
This commit was sponsored by Chia Shee Liang. Thanks!
When setting up a dedicated ssh key to access the annex on a host,
set IdentitiesOnly to prevent the ssh-agent from forcing use of a different
ssh key.
That behavior could result in unncessary password prompts. I remember
getting a message or two from people who got deluged with password
prompts and I couldn't at the time see why.
Also, it would prevent git-annex-shell from being run on the remote host,
when git-annex was installed there by unpacking the standalone tarball,
since the authorized_keys line for the dedicated ssh key, which sets
up calling git-annex-shell when it's not in path, wouldn't be used.
This fixes
http://git-annex.branchable.com/bugs/Internal_Server_Error:_Unknown_UUID
but I've not closed that bug yet since I should still:
1. Investigate why the ssh remote got set up despite being so broken.
2. Make the webapp not handle the NoUUID state in such an ugly way.
3. Possibly add code to fix up systems that encountered the problem.
Although since it requires changes to .ssh/config this may be one for
the release notes.
Thanks to TJ for pointing me in the right direction to understand what
was happening here.
Started with a problem when running addurl on a really long url,
because the whole url is munged into the filename. Ended up doing
a fairly extensive review for places where filenames could get too large,
although it's hard to say I'm not missed any..
Backend.Url had a 128 character limit, which is fine when the limit is 255,
but not if it's a lot shorter on some systems. So check the pathconf()
limit. Note that this could result in fromUrl creating different keys
for the same url, if run on systems with different limits. I don't see
this is likely to cause any problems. That can already happen when using
addurl --fast, or if the content of an url changes.
Both Command.AddUrl and Backend.Url assumed that urls don't contain a
lot of multi-byte unicode, and would fail to truncate an url that did
properly.
A few places use a filename as the template to make a temp file.
While that's nice in that the temp file name can be easily related back to
the original filename, it could lead to `git annex add` failing to add a
filename that was at or close to the maximum length.
Note that in Command.Add.lockdown, the template is still derived from the
filename, just with enough space left to turn it into a temp file.
This is an important optimisation, because the assistant may lock down
a bunch of files all at once, and using the same template for all of them
would cause openTempFile to iterate through the same set of names,
looking for an unused temp file. I'm not very happy with the relatedTemplate
hack, but it avoids that slowdown.
Backend.WORM does not limit the filename stored in the key.
I have not tried to change that; so git annex add will fail on really long
filenames when using the WORM backend. It seems better to preserve the
invariant that a WORM key always contains the complete filename, since
the filename is the only unique material in the key, other than mtime and
size. Since nobody has complained about add failing (I think I saw it
once?) on WORM, probably it's ok, or nobody but me uses it.
There may be compatability problems if using git annex addurl --fast
or the WORM backend on a system with the 255 limit and then trying to use
that repo in a system with a smaller limit. I have not tried to deal with
those.
This commit was sponsored by Alexander Brem. Thanks!
This bug was introduced in 82a6db8fe8,
which improved handling of adding very large numbers of files by ensuring
that a minimum number of max size commits (5000 files each) were done.
I accidentially made it wait for another change to appear after such a max
size commit, even if a lot of queued changes were already accumulated.
That resulted in a stall when it got to the end. Now fixed to not wait
any longer than necessary to ensure the watcher has had time to wake back
up after the max size commit.
This commit was sponsored by Michael Linksvayer. Thanks!
This is a laziness problem. Despite the bang pattern on newfiles, the list
was not being fully evaluated before cleanup was called. Moving cleanup out
to after the list is actually used fixes this.
More evidence that I should be using ResourceT or pipes, if any was needed.
This affected both the hourly NetWatcherFallback thread and the syncing
when network connection is detected.
It was a reversion of sorts, introduced in
8861e270be, when annex-ignore was changed to
not control git syncing. I forgot to make it check annex-sync at that
point.
This was the last place in git-annex that could remove data referred to by
the git history, without being forced.
Like drop, dropunused checks remotes, and honors the global annex.numcopies
setting. (However, .gitattributes settings cannot apply to unused files.)
I only added this to the presense messages that are really intended for
presence. The ones used for tunneling git etc don't have the tag, because
that would waste bandwidth.
In direct mode, it's best to whenever possible not move direct mode files
out of the way, and so I made unannex avoid touching the direct mode file at
all.
That actually turns out to be easy, because in direct mode, unlike indirect
mode, the pre-commit hook won't get confused if the unannexed file later
gets added back by git add. So there's no need to commit the unannex right
away; it can be staged for the user to commit later. This also means that
unannex in direct mode is a lot faster than in indirect mode!
Another subtle bit is the bookkeeping that is done when unannexing a direct
mode file. The inode cache needs to be removed so that when uninit runs
getKeysPresent, it doesn't see the cache and think the key is still
present and crash when it's not.
This commit is sponsored by Douglas Butts. Thanks!
This is ok to do now that the socket filename never needs to be mapped back
to a hostname.
Short hostnames will still appear in the clear, which is less obfuscated.
So this cannot possibly make ssh connection caching fail for a hostname it
used to work for.
gmail.com has some XMPP SRV records, but does not itself respond to XMPP
traffic, although it does accept connections on port 5222. So if a user
entered the wrong password, it would try all the SRVs and fall back to
trying gmail, and hang at that point.
This seems the right thing to do, not just a workaround.
I wanted to try to guard against it in Command.Add too, but it's a case of
garbage in, garbage out. Once Command.Add has been told it's dealing with a
dummy symlink, it goes and deletes it, and even though the object it
thinks it points to is not present in the annex, it's Command.Add is still
doing the right thing to go ahead and add the broken symlink. So the two
fixes I was able to put in will have to do.
I thought at first this was a Windows specific problem, but it's not;
this affects checking any non-bare repository exported via http. Which is
a potentially important use case!
The actual bug was the case where Right False was returned by the first url
short-curcuited later checks. But the whole method used felt like code
I'd no longer write, and the use of undefined was particularly disgusting.
So I rewrote it.
Also added an action display.
This commit was sponsored by Eric Hanchrow. Thanks!
Cabal does not seem to have a way to check if flag A is set and then, if
flag B is set, add a dep. Instead, it makes flag B get unset if the
dep is not available.
Note that've told me:
We'll see how it goes, but I think this could be a permanent offer for
your userbase. People using git-annex are clueful and won't be a big
support burden for us, so it's a win-win.
The icon files will be installed when running make install or cabal
install. Did not try to run update-icon-caches, since I think it's debian
specific, and dh_icons will take care of that for the Debian package.
Using the favicon as a 16x16 icon. At 24x24 the svg displays pretty well,
although the dotted lines are rather faint. The svg is ok at all higher
resolutions.
The standalone linux build auto-installs the desktop and autostart files
when run. I have not made it auto-install the icon file too, because
a) that would take more work to include them in the tarball and find them
b) it would need to be an install to ~/.icons/, and I don't know if that
really works!
annexLocations uses OS-native directory separators, but for an url,
it needs to use / even on Windows.
This is an ugly workaround. Could parameterize a lot of stuff in
annexLocations to fix it better. I suspect this is probably the only place
it's needed though.
migrate wants to know the associated filename, in order to look up
the new backend. Can't do that with --all
migrate --all --backend=newvalue could be useful to support, in the future.
I spent a long time worrying about this problem with --all, that it cannot
check .gitattributes files for numcopies settings, and so would not be
entirely safe to use. The solution turns out to be simple, just don't
implement `git annex drop --all`. drop is the only command that needs to
check numcopies (move can also reduce the number of copies, but explicitly
bypasses numcopies settings).
Use cases that might need a drop --all are probably better served by using
unused and dropunused, which already work in a bare repository.
The ssh setup first runs ssh to the real hostname, to probe if a ssh key is
needed. If one is, it generates a mangled hostname that uses a key. This
mangled hostname was being used to ssh into the server to set up the key.
But if the server already had the key set up, and it was locked down, the
setup would fail. This changes it to use the real hostname when sshing in
to set up the key, which avoids the problem.
Note that it will redundantly set up the key on the ssh server. But it's
the same key; the ssh key generation code uses the key if it already
exists.
A common failure mode for direct mode has been for files to end up still
stored in indirect mode. While I hope that doesn't happen anymore, fsck
should deal with it.
This is a compromise. I would like to nice every thread except for the
webapp thread, but it's not practical to do so. That would need every
thread to run as a bound thread, which could add significant overhead.
And any forkIO would escape the nice level.
Better to have a working test suite that doesn't test a few things
than no working test suite.
Most of the disabled stuff is because for some reason "git annex sync"
doesn't work when run inside the test suite. Looks like PATH problems.
The directory and rsync special remotes seem broken on Windows, or
maybe the tests are. Pretty sure the hook special remote test is broken.
Yeah, that didn't actually work. Got error messages like it couldn't read
from the control socket, so probably ssh doesn't really support that on
Windows, at least the cygwin ssh build I'm using.
This write permission frobbing is very appropriate in indirect mode,
since annexed objects are stored as immutably as can be managed. But not
in direct mode, where files should be able to be modified at any time.
There are already sufficient guards that there's no need to prevent a file
being written to while it's being ingested, in direct mode. The inode cache
will detect (most) types of modifications, and the add will fail. Then a
re-add should be done. The assistant should get another inotify change
event, and automatically add the new version of the file.
Fuzz tests have shown that git cat-file --batch sometimes stops running.
It's not yet known why (no error message; repo seems ok). But this is
something we can deal with in the CoProcess framework, since all 3 types of
long-running git processes should be restartable if they fail.
Note that, as implemented, only IO errors are caught. So an error thrown
by the reveiver, when it sees something that is not valid output from
git cat-file (etc) will not cause a restart. I don't want it to retry
if git commands change their output or are just outputting garbage.
This does mean that if the command did a partial output and crashed in the
middle, it would still not be restarted.
There is currently no guard against restarting a command repeatedly, if,
for example, it crashes repeatedly on startup.
The checkpresent hook can return either True or, False, or fail with a message
if it cannot successfully check the remote. Currently for glacier, when
--trust-glacier is not set, it always returns False. Crucially, in the case
when a file is in glacier, this is telling git-annex it's not there, so copy
re-uploads it. This is not desirable; it breaks using glacier-cli to retreive
that file later, and it wastes money/bandwidth.
What if it instead, when the glacier inventory is missing a
file, it returns False. And when the glacier inventory has a file, unless
--trust-glacier is set, it *fails*.
The result would be:
* `git annex copy --to glacier` would only send things not listed in inventory. If a file is listed in the inventory, `copy`
would complain that --trust-glacier` is not set, and not re-upload the file.
* `git annex drop` would only trust that glacier has a file when --trust-glacier is set. Behavior unchanged.
* `git annex move --to glacier`, when the file is not listed in inventory, would send the file, and delete it locally. Behavior unchanged.
* `git annex move --to glacier`, when the file is listed in inventory, would only trust that glacier has the file when --trust-glacier is set
* `git annex copy --from glacier` / `git annex get`, when the file is located in glacier, would trust the location log, and attempt to get the file from glacier.
Ie, when there'a a conflicted merge we may get foo.variant-xxxx
created in a merge. If a second merge conflict occurs on that new file,
it was not falling back to putting in the whole key (which should stop
the merge conflicts happening for good, but is ugly).
The current manual mode preferred content expression is:
"present and (((exclude=*/archive/* and exclude=archive/*) or (not (copies=archive:1 or copies=smallarchive:1))) or (not copies=semitrusted+:1))"
The old matcher misparsed this, to basically:
OR (present and (...)) (not copies=semitrusted+:1))
The paren handling and indeed the whole conversion from tokens to the
matcher was just wrong. The new way may not be the cleverest, but I think
it is correct, and you can see how it pattern matches structurally against
the expressions when parsing them.
That expression is now parsed to:
MAnd (MOp <function>)
(MOr (MOr (MAnd (MOp <function>) (MOp <function>)) (MNot (MOr (MOp <function>) (MOp <function>))))
(MNot (MOp <function>)))
Which appears correct, and behaves correct in testing.
Also threw in a simplifier, so the final generated Matcher has less
unnecessary clutter in it. Mostly so that I could more easily read &
confirm them.
Also, added a simple test of the Matcher to the test suite.
There is a small chance of badly formed preferred content expressions
behaving differently than before due to this rewrite.
I noticed that when my modem hung up and redialed, my xmpp client was left
sending messages into the void. This will also handle any idle
disconnection issues.
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.
The bug was in movein, which just replaceFile'd the file with a symlink,
even if it already had the desired content, before trying to pull the
content out of the annex and replace the symlink with it.
That was ok-ish for non conflicted merges, where if the file existed it would
be an old version of the content. But for conflicted merges, the automatic
merge resolver has already run, and will have already put the desired
content into the file for the local variant.
Also, made removeDirect not trust that the associated files map is correct.
Only if it can verify that another file has the content will it not move it
into .git/annex/objects.
As seen in this bug report, the lifted exception handling using the StateT
monad throws away state changes when an action throws an exception.
http://git-annex.branchable.com/bugs/git_annex_fork_bombs_on_gpg_file/
.. Which can result in cached values being redundantly calculated, or other
possibly worse bugs when the annex state gets out of sync with reality.
This switches from a StateT AnnexState to a ReaderT (MVar AnnexState).
All changes to the state go via the MVar. So when an Annex action is
running inside an exception handler, and it makes some changes, they
immediately go into affect in the MVar. If it then throws an exception
(or even crashes its thread!), the state changes are still in effect.
The MonadCatchIO-transformers change is actually only incidental.
I could have kept on using lifted-base for the exception handling.
However, I'd have needed to write a new instance of MonadBaseControl
for the new monad.. and I didn't write the old instance.. I begged Bas
and he kindly sent it to me. Happily, MonadCatchIO-transformers is
able to derive a MonadCatchIO instance for my monad.
This is a deep level change. It passes the test suite! What could it break?
Well.. The most likely breakage would be to code that runs an Annex action
in an exception handler, and *wants* state changes to be thrown away.
Perhaps the state changes leaves the state inconsistent, or wrong. Since
there are relatively few places in git-annex that catch exceptions in the
Annex monad, and the AnnexState is generally just used to cache calculated
data, this is unlikely to be a problem.
Oh yeah, this change also makes Assistant.Types.ThreadedMonad a bit
redundant. It's now entirely possible to run concurrent Annex actions in
different threads, all sharing access to the same state! The ThreadedMonad
just adds some extra work on top of that, with its own MVar, and avoids
such actions possibly stepping on one-another's toes. I have not gotten
rid of it, but might try that later. Being able to run concurrent Annex
actions would simplify parts of the Assistant code.
Run the same code git-annex used to get the sha, including its sanity
checking. Much better than old grep. Should detect FreeBSD systems with
sha commands that output in stange format.
This after fielding a bug where git-annex was built with a sha256 program
whose output checked out, but was then run with one that output lines
like:
SHA256 (file) = <sha here>
Which it then parsed as having a SHA256 of "SHA256"!
Now the output of the command is required to be of the right length,
and contain only the right characters.
It's possible for files in indirect mode to have a direct mode mapping
file. Probably from when they were in direct mode. In this case,
toDirectGen tried to copy the content from the direct mode file that the
mapping said had it. But, being in indirect mode, it didn't really have the
content. So it did nothing. This fix makes it always move the content from
.git/annex/objects/ when it's there.
Observed that the pushed refs were received, but not merged into master.
The merger never saw an add event for these refs. Either git is not writing
to a new file and renaming it into place, or the inotify code didn't notice
that. Changed it to also watch for modify events and that seems to have
fixed it!
Note that the note on df88c51334 turned out
to be wrong. Multiple repository pairing over XMPP does work, because the
annex-uuid of the xmpp remote is updated to the uuid of the new repo
when pairing takes place. So the push from it is accepted. (And the other
UUIDs are listed in uuid.log, so pushes from those repositories also are
accepted of course.)
The root of the problem is that toInodeCache sees a non-symlink, and so
goes on and generates a new inode cache for the dummy symlink.
Any place that toInodeCache, or sameFileStatus, or genInodeCache are called
may need to deal with this case. Although many of them are ok. For example,
prepSendAnnex calls sameInodeCache, which calls genInodeCache.. but if
the file content is not present, the InodeCache generated for its standin
file is appropriately not the same, and so it returns Nothing.
I've audited some, but have to say I'm not happy with this; it should be
handled at the type level somehow, or a toInodeCache wrapper be used that
is aware of dummy symlinks.
(The Watcher already dealt with it, via the guardSymlinkStandin function.)
This is so git remotes on servers without git-annex installed can be used
to keep clients' git repos in sync.
This is a behavior change, but since annex-sync can be set to disable
syncing with a remote, I think it's acceptable.
