If .git is a gitlink file, setting cwd to it will fail, but --git-dir
will succeed. And this is the only place where it sets cwd when running
git, everywhere else already uses --git-dir.
Note that, git-annex's submodule fixup code usually converts gitlink
files to symlinks, so this wasn't usually problem. Still, worth fixing.
This commit was sponsored by Svenne Krap on Patreon.
This was the last one marked as a zombie. There might be others I don't
know about, but except for in the hypothetical case of a thread dying
due to an async exception before it can wait on a process it started, I
don't know of any.
It would probably be safe to remove the reapZombies now, but let's wait
and so that in its own commit in case it turns out to cause problems.
This commit was sponsored by Boyd Stephen Smith Jr. on Patreon.
Eliminate a zombie that was only cleaned up by the later zombie cleanup
code.
This is still not ideal, it would be cleaner if it used conduit or
something, and if the thread gets killed before waiting, it won't stop
the process.
Only remaining zombies are in CmdLine.Seek
This is only needed for the i386ancient build, so build in the git
version git-annex is built with, assuming git won't be upgraded, or if
it is, they just won't get the speedup of --buffer
This was a bit disappointing, I was hoping for a 2x speedup. But, I think
the metadata lookup is wasting a lot of time and also needs to be made to
stream.
The changes to catObjectStreamLsTree were benchmarked to not also speed
up --all around 3% more. Seems I managed to make it polymorphic after all.
The catObjectStream' is generic enough to let it be nicely used from
inside Annex monad.
Chan will be faster than DList here. Bearing in mind, it is unbounded,
but in reality will be bounded by the size of the stdio buffer through
git cat-file.
This speeds up --all by about 10% although I think only getting back to
the previous performance before I introduced that DList.
planned to use for an optimisation
most things using stagedDetails were not expecting to get dup files in a
conflicted merge and deal with them, so converted them to use
inRepoDetails.
And convert parser to attoparsec, probably faster.
Before, a parse failure threw the whole --stage output line in to the
filename, which was certianly a bad idea, so fixed that.
Turns out the %(rest) trick was not needed. Instead, just maintain a
list of files we've asked for, and each cat-file response is for the
next file in the list.
This actually benchmarks 25% faster than before! Very surprising, but it
must be due to needing to shove less data through the pipe, and parse
less.
This assumes that no location log files will have a newline or carriage
return in their name. catObjectStream skips any such files due to
cat-file not supporting them.
Keys have been prevented from containing newlines since 2011,
commit 480495beb4. If some old repo
had a key with a newline in it, --all will just skip processing that key.
Other things, like .git/annex/unused files certianly assume no newlines in
keys too, and AFAICR, such keys never actually worked.
Carriage return is escaped by preSanitizeKeyName since 2013. WORM keys
generated before that point could perhaps contain a CR. (URL probably not,
http probably doesn't support an URL with a raw CR in it.) So, added
a warning in fsck about such keys. Although, fsck --all will naturally
skip them, so won't be able to warn about them. Not entirely
satisfactory, but I'll bet there are not really any such keys in
existence.
Thanks to Lukey for finding this optimisation.
Fixes reversion in recent conversions, the old code relied on the GC
apparently, but the new code explicitly waits on the process, so must
close stdin handle first or the command will never exit.
Except for the assistant, which I think may use them between threads?
Most of the uses of SomeException were already catching only async exceptions.
But I did find a few places that were accidentially catching them.
This handles all createProcessSuccess callers, and aside from process
pools, the complete conversion of all process running to async exception
safety should be complete now.
Also, was able to remove from Utility.Process the old API that I now
know was not a good idea. And proof it was bad: The code size went *down*,
despite there being a fair bit of boilerplate for some future API to
reduce.
This handles all sites where checkSuccessProcess/ignoreFailureProcess
is used, except for one: Git.Command.pipeReadLazy
That one will be significantly more work to convert to bracketing.
(Also skipped Command.Assistant.autoStart, but it does not need to
shut down the processes it started on exception because they are
git-annex assistant daemons..)
forceSuccessProcess is done, except for createProcessSuccess.
All call sites of createProcessSuccess will need to be converted
to bracketing.
(process pools still todo also)
Not yet 100% done, so far I've grepped for waitForProcess and converted
everything that uses that to start the process with withCreateProcess.
Except for some things like P2P.IO and Assistant.TransferrerPool,
and Utility.CoProcess, that manage a pool of processes. See #2
in https://git-annex.branchable.com/todo/more_extensive_retries_to_mask_transient_failures/#comment-209f8a8c38e63fb3a704e1282cb269c7
for how those will need to be dealt with.
checkSuccessProcess, ignoreFailureProcess, and forceSuccessProcess calls waitForProcess, so
callers of them will also need to be dealt with, and have not been yet.
Added annex.skipunknown git config, that can be set to false to change the
behavior of commands like `git annex get foo*`, to not skip over files/dirs
that are not checked into git and are explicitly listed in the command
line.
Significant complexity was needed to handle git-annex add, which uses some
git ls-files calls, but needs to not use --error-unmatch because of course
the files are not known to git.
annex.skipunknown is planned to change to default to false in a
git-annex release in early 2022. There's a todo for that.
User reported git@my.gitlab.foo:username/myrepo.git didn't work with
git-repair, because it rewrites it to an url
ssh://git@my.gitlab.foo/~/username/myrepo.git
and the /~/ was not something the hosting site supported.
Since git-annex still generally needs the repo url to be well, an url, did
not change the conversion code. But in this case, we're running git fetch,
so we might as well pass it the remote name rather than the url.
Did a quick audit of repoLocation uses to see if there was anything else
like this problem elsewhere, and didn't see any. But this is not the first
time this special case in git and git-annex's attempt to de-special-case
it has caused a problem..
A couple of these were probably actual bugs in edge cases. Most of the
changes I'm fine with. The fact that aeson's object returns sometihng
that we know will be an Object, but the type checker does not know is
kind of annoying.
This was very susprising to me that it was not caught by -Wall, so I
enabled -Wincomplete-uni-patterns to catch such things. It found a
second one just lines above, but no others anywhere.
This change does impact git-annex config
eg "git annex config --set annex.addunlocked on"
will store "on" and new git-annex will understand that value, while
old git-annex will error:
git-annex: bad annex.addunlocked configuration in git annex config:
Parse failure: near "on"
That seems acceptable.
Not special remote configs that are only documented as =true or =false
however. Having git-annex support other values for those would break
backwards compatability when used with old versions of git-annex. And
older versions ignore invalid special remote configs.. That would not
be a good combination.
Eg"core.bare" is the same as "core.bare = true".
Note that git treats "core.bare =" the same as "core.bare = false", so the
code had to become more complicated in order to treat the absense of a
value differently than an empty value. Ugh.
Git has an obnoxious special case in git config, a line "foo" is the same
as "foo = true". That means there is no way to examine the output of
git config and tell if it was run with --null or not, since a "foo"
in the first line could be such a boolean, or could be followed by its
value on the next line if --null were used.
So, rather than trying to do such a detection, track the style of config
at all the points where it's generated.
Around 3% total speedup.
Profiling git annex find --not --in web, it's now bytestring end-to-end,
and there is only a little added overhead in eg accessing the Annex
state MVar (3%). The rest of the runtime is spent reading symlinks, and
in attoparsec.
This feels like the end of the optimisation road, without a major change
like caching information for faster queries.
Attoparsec parser for diff-tree.
Changed fromRef back to producing a String, to avoid needing to convert
every use of it. However, this does mean I'm going to miss some
opportunities where fromRef is used and the result converted back to a
ByteString. Would be worth revisiting that at some point maybe.
When the recorded submodule commit changes on an adjusted branch, the
change is carried in the function that reverseAdjustedCommit passes
for adjustTree's adjusttreeitem parameter. Update the CommitObject
handling in adjustTree to consider adjusttreeitem so that a submodule
change is synced back.
This breaks several parts of the upgrade code, when upgrading remotes
of the current repo, but those parts were buggy, and will need to be
fixed somehow anyway.
While git ls-files can actually be used on a repo that is not in the
cwd, it works inconsistently. For example, this fails:
git --git-dir=../foo/.git --work-tree=../foo ls-files ../foo
But change some of the paths to absolute and it will succeed. That seems
like a bug in git.
OTOH, this succeeds:
git --git-dir=../foo/.git --work-tree=../foo ls-files
But, that lists paths relative to the top of the --work-tree,
rather than the usual listing them relative to the cwd. Because the cwd
is not in the repo. And so anything parsing the ls-files output of that
is likely to operate on files in the wrong location. Indeed, there is
code in Upgrade/ that has this problem!
Remaining things needing converted are in the assistant, and Annex.Ssh.
Every other remaining call to createDirectoryIfMissing True has been
audited and is not relevant. The ones in Build/ of course don't get
included in the program. Others included eg, Remote.Tahoe and
Config.Files which both write to dotfiles under the home directory.
using git credential to get the password
One thing this doesn't do is wrap the password prompting inside the prompt
action. So with -J, the output can be a bit garbled.
Rather than leaking the name of the temp file, just say the config parse
failed, and where the config was downloaded from.
Not closing the bug report because two issues were reported in the same
bug report, because the universe wants me to continually re-read old
unclosed bug reports to waste my time determining what still needs to be
done.
This avoids hardcoding the sha size, so when git uses sha256, it will
output the full sha256 and not a truncation to 40 characters.
I reviewed git's history, and while there have been some
bugs with commands not supporting --no-abbrev (eg git diff --no-index
--no-abbrev was broken in git 2.1), none of the commands git-annex
uses will be impacted by those old bugs.
Git will eventually switch to sha2 and there will not be one single
shaSize anymore, but two (40 and 64).
Changed all parsers for git plumbing output to support both sizes of
shas.
One potential problem this does not deal with is, if somewhere in
git-annex it reads two shas from different sources, and compares them
to see if they're the same sha, it would fail if they're sha1 and sha256
of the same value. I don't know if that will really be a concern.
prop_encode_decode_roundtrip failed on "\175" in C locale.
This may be a new problem after the switch to RawFilePath, but it
already had filtering for high chars, so changed to only test ascii
chars.
smudge: When annex.largefiles=anything, files that were already stored in
git, and have not been modified could sometimes be converted to being
stored in the annex. Changes in 7.20191024 made this more of a problem.
This case is now detected and prevented.
* annex.addunlocked can be set to an expression with the same format used by
annex.largefiles, in case you want to default to unlocking some files but
not others.
* annex.addunlocked can be configured by git-annex config.
Added a git-annex-matching-expression man page, broken out from
tips/largefiles.
A tricky consequence of this is that git-annex add --relaxed
honors annex.addunlocked, but an expression might want to know the size
or content of an url, which it's not going to download. I decided it was
better not to fail, and just dummy up some plausible data in that case.
Performance impact should be negligible. The global config is already
loaded for annex.largefiles. The expression only has to be parsed once,
and in the simple true/false case, it should not do any additional work
matching it.
Adds a dependency on filepath-bytestring, an as yet unreleased fork of
filepath that operates on RawFilePath.
Git.Repo also changed to use RawFilePath for the path to the repo.
This does eliminate some RawFilePath -> FilePath -> RawFilePath
conversions. And filepath-bytestring's </> is probably faster.
But I don't expect a major performance improvement from this.
This is mostly groundwork for making Annex.Location use RawFilePath,
which will allow for a conversion-free pipleline.
Since the sqlite branch uses blobs extensively, there are some
performance benefits, ByteStrings now get stored and retrieved w/o
conversion in some cases like in Database.Export.
File mode is octal not decimal. This broke in the conversion to
attoparsec.
(I've submitted the content of Utility.Attoparsec to the attoparsec
developers.)
Test suite passes 100% now.
I had thought using ByteString would avoid the problem, but the
quickcheck property is still taking Arbitrary String input, so the use
of ByteString internally doesn't matter.
The parser and looking up config keys in the map should both be faster
due to using ByteString.
I had hoped this would speed up startup time, but any improvement to
that was too small to measure. Seems worth keeping though.
Note that the parser breaks up the ByteString, but a config map ends up
pointing to the config as read, which is retained in memory until every
value from it is no longer used. This can change memory usage
patterns marginally, but won't affect git-annex.
While L.toStrict copies, profiling showed it was only around 0.3% of
git-annex find runtime. Does not seem worth optimising that, which would
probably involve either a major refactoring, or a use of
UnsafeInterleaveIO.
Also, it seems to me that the latter would need to read chunks, and
preappend the leftover part to the next chunk. But a strict ByteString
append itself is a copy, so I'm not convinced that would be faster than
L.toStrict.
Finally builds (oh the agoncy of making it build), but still very
unmergable, only Command.Find is included and lots of stuff is badly
hacked to make it compile.
Benchmarking vs master, this git-annex find is significantly faster!
Specifically:
num files old new speedup
48500 4.77 3.73 28%
12500 1.36 1.02 66%
20 0.075 0.074 0% (so startup time is unchanged)
That's without really finishing the optimization. Things still to do:
* Eliminate all the fromRawFilePath, toRawFilePath, encodeBS,
decodeBS conversions.
* Use versions of IO actions like getFileStatus that take a RawFilePath.
* Eliminate some Data.ByteString.Lazy.toStrict, which is a slow copy.
* Use ByteString for parsing git config to speed up startup.
It's likely several of those will speed up git-annex find further.
And other commands will certianly benefit even more.
Goal is to make git-annex faster by using ByteString for all the
worktree traversal. For now, this is focusing on Command.Find,
in order to benchmark how much it helps. (All other commands are
temporarily disabled)
Currently in a very bad unbuildable in-between state.
Eg:
git clone url --bare r
git --git-dir r annex init
This resulted in worktree = Just "." and so several things that check
worktree to determine when the repo is bare ran code paths intended for
non-bare. One such code path[1] ran git checkout with --worktree=. which
actually makes it ignore core.bare config, and so the current directory
got populated with a checkout of the master branch in this example. There
was probably also other breakage.
The fix is a bit complicated because whether the repo is bare is not
known until after Git.Config reads the config, but Git.Config handles
setting the RepoLocations's worktree when core.worktree is set. So have
to assume the worktree is the cwd, let core.worktree override that,
and then if the repo turns out to be bare, it's set back to Nothing.
(And then GIT_WORK_TREE can still override all of that.)
[1] switchHEADBack, which runs even when the clone is not from a bare repo.
* git-lfs: The url provided to initremote/enableremote will now be
stored in the git-annex branch, allowing enableremote to be used without
an url. initremote --sameas can be used to add additional urls.
* git-lfs: When there's a git remote with an url that's known to be
used for git-lfs, automatically enable the special remote.
Renamed the database to .git/annex/keysdb;
the old .git/annex/keys gets deleted during the upgrade.
It is possible that an old git-annex process is running during the
upgrade. If so, it will be able to continue using the old keys db until the
upgrade is complete, and then will presumably fail in some ugly way. Or
perhaps the upgrade will be unable to delete the open files on some
systems, and so fail with an ugly error message.
It's also possible for multiple processes to be running the upgrade
concurrently. That should be fine; they will both write the same
information into the keys db.
Other databases still need to be upgraded.
Rescued from commit 11d6e2e260 which removed
db benchmarks in favor of benchmarking arbitrary git-annex commands. Which
is nice and general, but microbenchmarks are useful too.
Work around git cat-file --batch's odd stripping of carriage return from
the end of the line (some windows infection), avoiding crashing when the
repo contains a filename ending in a carriage return.
debian oldoldstable has 2.1, and that's what i386ancient uses. It would be
better to require git 2.2, which is needed to use adjusted branches, but
can't do that w/o losing support for some old linux kernels or a
complicated git backport.
This typo would make "git cat-file cat-file" fail, and the way it's used,
I think it broke querying all info from filenames containing newlines,
because the other queries are only run when it succeeds.
Drop support for building with ghc older than 8.4.4, and with older
versions of serveral haskell libraries than will be included in Debian 10.
The only remaining version ifdefs in the entire code base are now a couple
for aws!
This commit should only be merged after the Debian 10 release.
And perhaps it will need to wait longer than that; it would make
backporting new versions of git-annex to Debian 9 (stretch) which
has been actively happening as recently as this year.
This commit was sponsored by Ilya Shlyakhter.
The hoped for optimisation of CommandStart with -J did not materialize.
In fact, not runnign CommandStart in parallel is slower than -J3.
So, CommandStart are still run in parallel.
(The actual bad performance I've been seeing with -J in my big repo
has to do with building the remoteList.)
But, this is still progress toward making -J faster, because it gets rid
of the onlyActionOn roadblock in the way of making CommandCleanup jobs
run separate from CommandPerform jobs.
Added OnlyActionOn constructor for ActionItem which fixes the
onlyActionOn breakage in the last commit.
Made CustomOutput include an ActionItem, so even things using it can
specify OnlyActionOn.
In Command.Move and Command.Sync, there were CommandStarts that used
includeCommandAction, so output messages, which is no longer allowed.
Fixed by using startingCustomOutput, but that's still not quite right,
since it prevents message display for the includeCommandAction run
inside it too.
Prevents merging the import from deleting the non-preferred files from
the branch it's merged into.
adjustTree previously appended the new list of items to the old, which
could result in it generating a tree with multiple files with the same
name. That is not good and confuses some parts of git. Gave it a
function to resolve such conflicts.
That allowed dealing with the problem of what happens when the import
contains some files (or subtrees) with the same name as files that were
filtered out of the export. The files from the import win.
Needed for the --quiet to actually shut it up. The extra verification
this makes it do should be fine, as this is supposed to really return a
single tree's sha.
git rev-parse --quiet avoids "fatal: Invalid object name" when the
branch does not exist. Git.Ref.tree already returned a Maybe, so callers
already handle those cases themselves.
This does not change the overall license of the git-annex program, which
was already AGPL due to a number of sources files being AGPL already.
Legally speaking, I'm adding a new license under which these files are
now available; I already released their current contents under the GPL
license. Now they're dual licensed GPL and AGPL. However, I intend
for all my future changes to these files to only be released under the
AGPL license, and I won't be tracking the dual licensing status, so I'm
simply changing the license statement to say it's AGPL.
(In some cases, others wrote parts of the code of a file and released it
under the GPL; but in all cases I have contributed a significant portion
of the code in each file and it's that code that is getting the AGPL
license; the GPL license of other contributors allows combining with
AGPL code.)
The branch is only updated once the export is 100% complete. This way,
if an export is started but interrupted and so the remote does not yet
contain some of the files, an import will make a commit on the old
branch, and so won't delete the missing files.
Added graftTree but it's buggy.
Should use graftTree in Annex.Branch.graftTreeish; it will be faster
than the current implementation there.
Started Annex.Import, but untested and it doesn't yet handle tree
grafting.
My concern with using bytestring for this is the file needs to be split
into lines, and the encoding is not known. It's safe to split a utf-8
encoded file on the \n byte; only newlines get encoded to that byte in utf-8.
And this code already assumes utf-8 or ascii encoding, because it used
the filesystem encoding.
This relies on git ls-files --with-tree, which I'm using in a way that
its man page does not document. Hm. I emailed the git list to try to get
the docs improved, but at least the git test suite does test the same
kind of use case I'm using here.
Performance impact when not in an adjusted branch is limited to some
additional MVar accesses, and a single git call to determine the name of
the current branch. So very minimal.
When in an adjusted branch, the performance impact is
in Annex.WorkTree.lookupFile, which starts doing an equal amount of work
for files that didn't exist as it already did for files that were
unlocked.
This commit was sponsored by Jochen Bartl on Patreon.
Running git-annex linux builds in termux seems to work well enough that the
only reason to keep the Android app would be to support Android 4-5, which
the old Android app supported, and which I don't know if the termux method
works on (although I see no reason why it would not).
According to [1], Android 4-5 remains on around 29% of devices, down from
51% one year ago.
[1] https://www.statista.com/statistics/271774/share-of-android-platforms-on-mobile-devices-with-android-os/
This is a rather large commit, but mostly very straightfoward removal of
android ifdefs and patches and associated cruft.
Also, removed support for building with very old ghc < 8.0.1, and with
yesod < 1.4.3, and without concurrent-output, which were only being used
by the cross build.
Some documentation specific to the Android app (screenshots etc) needs
to be updated still.
This commit was sponsored by Brett Eisenberg on Patreon.
* init: Improve generated post-receive hook, so it won't fail when
run on a system whose git-annex is too old to support git-annex post-receive
* init: Update the post-receive hook when re-run in an existing repository.
This commit was sponsored by Jack Hill on Patreon.
Work around git cat-file --batch's protocol not supporting newlines by
running git cat-file not batched and passing the filename as a
parameter.
Of course this is quite a lot less efficient, especially because it
currently runs it multiple times to query for different pieces of
information.
Also, it has subtly different behavior when the batch process was
started and then some changes were made, in which case the batch process
sees the old index but this workaround sees the current index. Since
that batch behavior is mostly a problem that affects the assistant and has
to be worked around in it, I think I can get away with this difference.
I don't know of any other problems with newlines in filenames, everything
else in git I can think of supports -z. And git-annex's json output
supports newlines in filenames so downstream parsers from git-annex will be ok.
git-annex commands that use --batch themselves don't support newlines
in input filenames; using --json --batch is currently a way around that
problem.
This commit was sponsored by Ewen McNeill on Patreon.
* Don't use GIT_PREFIX when GIT_WORK_TREE=. because it seems git
does not intend GIT_WORK_TREE to be relative to GIT_PREFIX in that
case, despite GIT_WORK_TREE=.. being relative to GIT_PREFIX.
* Don't use GIT_PREFIX to fix up a relative GIT_DIR, because
git 2.11 sets GIT_PREFIX set to a path it's not relative to.
and apparently GIT_DIR is never relative to GIT_PREFIX.
Commit e50ed4ba48 led us down this path
by working around a git bug by relying on the barely documented GIT_PREFIX.
This commit was sponsored by Trenton Cronholm on Patreon.
This would be better if getInternalFiles were
more polymorphic, but I can't see a good
way to accomplish that without messing with Data.Typeable,
which seemed like overkill.
Reverted CommandAction back to the simpler version.
This commit was sponsored by Eric Drechsel on Patreon.
Switched code to use a for loop to avoid a filterM that would have
doubled the memory used.
This commit was supported by the NSF-funded DataLad project.
On second thought, git passes filepaths, which may not be valid utf8, so
can't use Text here.
String will be a little bit slower, but not enough to worry about.
Git uses pkt-line in the pack and http protocols, and for the long-running
filter processes protocol as well.
This should be a quite efficient parser and builder since it uses
attoparsec and bytestring-builder.
This adds a dependency on attoparsec, but it's a free dependency because
eg aeson depends on attoparsec and git-annex depends on aeson.
This commit was supported by the NSF-funded DataLad project.
Support working trees set up by git-worktree, by setting up some symlinks
such that git-annex links work right.
Also improved support for repositories created with --separate-git-dir.
At least recent git makes a .git file for those (older may have used a
symlink?), so that also needs to be converted to a symlink.
This commit was sponsored by Nick Piper on Patreon.
Work around git bug that runs smudge/clean filters at the top of the
repository while passing them a relative GIT_WORK_TREE that may point
outside of the repository, by using GIT_PREFIX to get back to the
subdirectory where a relative GIT_WORK_TREE is valid.
git devs have been informed of the bug and may fix it, which could conveivably
break this fix, but as it is, this works back to git 1.7.6.
This commit was sponsored by Jochen Bartl on Patreon.
https://prime.haskell.org/wiki/Libraries/Proposals/SemigroupMonoid
I am not happy with the fragile pile of CPP boilerplate required to support
ghc back to 7.0, which git-annex still targets for both the android build
and the standalone build targeting old linux kernels. It makes me unlikely
to want to use Semigroup more in git-annex, because the benefit of the
abstraction is swamped by the ugliness. I actually considered ripping out
all the Semigroup instances, but some are needed to use
optparse-applicative.
The problem, I think, is they made this transaction on too fast a timeline.
(Although ironically, work on it started in 2015 or earlier!)
In particular, Debian oldstable is not out of security support, and it's
not possible to follow the simpler workarounds documented on the wiki and
have it build on oldstable (because the semigroups package in it is too
old).
I have only tested this build with ghc 8.2.2, not the newer and older
versions that branches of the CPP support. So there could be typoes, we'll
see.
This commit was sponsored by Brock Spratlen on Patreon.
In some cases, unstaged changes are safe, eg dotfiles in the top which
are not affected by a view. Or non-annexed files in general which would
prevent view branch checkout from proceeding. But in other cases,
particularly unstaged changes to annexed files, entering a view would wipe
out those changes! And so don't allow entering a view with any unstaged
changes.
Staged changes are not safe when entering a view, because the changes get
committed to the view branch, and so the user is unlikely to remember them
when they exit the view, and so will effectively lose them, even if they're
still present in the view branch.
Also, improved the git status parser, although the improvement turned out
to not really be needed.
This commit was sponsored by Eric Drechsel on Patreon.
This fixes a crash when a git submodule has a name starting with a dot.
Such a submodule might contain dotfiles that are intended to be used when
inside the view (since a dot-directory that's not a submodule was already
preserved when entering a view). So, rather than eliminating the submodule
from the view, its git ls-files --stage hash is copied over into the view.
dotfiles/dirs have their git ls-files --stage hashes similarly copied over
to the view. This is more efficient and simpler than the old method,
and also won't break if git ever adds a new type of tree item, like was
done with submodules.
Since the content of dotfiles in the working tree is no longer hashed
when entering a view, when there are unstaged modifications, they are
not included in the view branch. Entering the view branch still works,
but git checkout shows "M .dotfile", and git diff will show the unstaged
changes. This seems like an improvement over the old behavior.
Also made Command.View not delete empty directories that are submodules
when entering a view, while still deleting other empty directories.
This commit was supported by the NSF-funded DataLad project.
This was badly named, it's a not a blob necessarily, but anything that a
tree can refer to.
Also removed the Show instance which was used for serialization to git
format, instead use fmtTreeItemType.
This commit was supported by the NSF-funded DataLad project.
Switch to Data.Map.Strict everywhere that used it.
There are still lots of lazy maps in git-annex. I think switching these
is safe. The risk is that there might be a map that is used in a way
that relies on the values not being evaluated to WHNF, and switching to
strict might result in bad performance or memory use. So, I have not
switched everything.
And for tab completion, by not unnessessarily statting paths to remotes,
which used to cause eg, spin-up of removable drives.
Got rid of the remotes member of Git.Repo. This was a bit painful.
Remote.Git modifies the list of remotes as it reads their configs,
so still need a persistent list of remotes. So, put it in as
Annex.gitremotes. It's only populated by getGitRemotes, so commands
like examinekey that don't care about remotes won't do so.
This commit was sponsored by Jake Vosloo on Patreon.
Fourth or fifth try at this and finally found a way to make it work.
Absurd amount of busy-work forced on me by change in cabal's behavior.
Split up Utility modules that need posix stuff out of ones used by
Setup. Various other hacks around inability for Setup to use anything
that ifdefs a use of unix.
Probably lost a full day of my life to this.
This is how build systems make their users hate them. Just saying.
This reverts commit 51228c2306.
No, still doesn't work when built with cabal. It did with stack; stack
must somehow make the unix package implicitly available.
With cabal, System.Posix.Process and System.Posix.Env are both missing.
Seems I had all the work in past commits to make this build, at least on
linux. I'm actually surprised it does, without a unix dep, Utility.Env
still builds ok somehow despite using System.Posix.Env.
This commit was sponsored by Fernando Jimenez on Patreon.
This avoids warnings from stack about the module not being listed in the
cabal file. So, the generated file is also renamed to Build/SysConfig.
Note that the setup program seems to be cached despite these changes; I
had to cabal clean to get cabal to update it so that Build/SysConfig was
written.
This commit was sponsored by Jochen Bartl on Patreon.
They need unix on non-windows, for Utility.Env, which Build.Configure uses,
but cabal can't express that in a custom-setup stanza.
To avoid this problem, Utility.Env would need to be moved into
unix-compat..
Windows needs the setenv package in custom-setup, but I don't want to
pull it in on unix, which would probably break some builds and need more
work. Instead, split out setEnv to a separate module.
Quite likely, unix-compat will get a portable environment layer, and
then both modules can be removed from here.
This commit was sponsored by Øyvind Andersen Holm.
Seems I forgot to fully test that feature when documenting it.
git rev-parse needs a colon after a branch to de-reference the tree
it points to, rather than the commit. But that had it adding an extra
colon when the user specified "branch:subdir". So, check if there is a
colon before adding one.
This commit was sponsored by Francois Marier on Patreon.
Also deletes any tagged pushes that the assistant might have done,
since those would also prevent resetting a branch back.
This commit was sponsored by andrea rota.
So it will be available later and elsewhere, even after GC.
I first though to use git update-index to do this, but feeding it a line
with a tree object seems to always cause it to generate a git subtree
merge. So, fell back to using the Git.Tree interface to maniupulate the
trees, and not involving the git-annex branch index file at all.
This commit was sponsored by Andreas Karlsson.
Security fix: Disallow hostname starting with a dash, which would get
passed to ssh and be treated an option. This could be used by an attacker
who provides a crafted ssh url (for eg a git remote) to execute arbitrary
code via ssh -oProxyCommand.
No CVE has yet been assigned for this hole.
The same class of security hole recently affected git itself,
CVE-2017-1000117.
Method: Identified all places where ssh is run, by git grep '"ssh"'
Converted them all to use a SshHost, if they did not already, for
specifying the hostname.
SshHost was made a data type with a smart constructor, which rejects
hostnames starting with '-'.
Note that git-annex already contains extensive use of Utility.SafeCommand,
which fixes a similar class of problem where a filename starting with a
dash gets passed to a program which treats it as an option.
This commit was sponsored by Jochen Bartl on Patreon.
QuickCheck 2.10 found a counterexample eg "\929184" broke the property.
As far as I can tell, Git.Filename is matching how git handles encoding
of strange high unicode characters in filenames for display. Git does
not display high unicode characters, and instead displays the C-style
escaped form of each byte. This is ambiguous, but since git is not
unicode aware, it doesn't need to roundtrip parse it.
So, making Git.FileName's roundtrip test only chars < 256 seems fine.
Utility.Format.format uses encode_c, in order to mimic git, so that's
ok.
Utility.Format.gen uses decode_c, but only so that stuff like "\n"
in the format string is handled. If the format string contains C-style
octal escapes, they will be converted to ascii characters, and not
combined into unicode characters, but that should not be a problem.
If the user wants unicode characters, they can include them in the
format string, without escaping them.
Finally, decode_c is used by Utility.Gpg.secretKeys, because gpg
--with-colons hex-escapes some characters in particular ':' and '\\'.
gpg passes unicode through, so this use of decode_c is not a problem.
This commit was sponsored by Henrik Riomar on Patreon.
Removed dependency on MissingH, instead depending on the split
library.
After laying groundwork for this since 2015, it
was mostly straightforward. Added Utility.Tuple and
Utility.Split. Eyeballed System.Path.WildMatch while implementing
the same thing.
Since MissingH's progress meter display was being used, I re-implemented
my own. Bonus: Now progress is displayed for transfers of files of
unknown size.
This commit was sponsored by Shane-o on Patreon.
It was being passed to sh, not to the command, oops. Noticed because it
broke the test suite on OSX, where sh -n silently does nothing. Would
also break on Linux when eg posh was being used as the shell; bash
ignores the -n.
This commit was supported by the NSF-funded DataLad project.
GIT_SSH_COMMAND was not working correctly with git-annex get,
because when used in rsync -e, there were additional parameters
appended at the end, which the GIT_SSH_COMMAND should not see.
Fixed by constructing the shell command differently.
This commit was supported by the NSF-funded DataLad project.
They are handled close the same as they are by git. However, unlike git,
git-annex sometimes needs to pass the -n parameter when using these.
So, this has the potential for breaking some setup, and perhaps there ought
to be a ANNEX_USE_GIT_SSH=1 needed to use these. But I'd rather avoid that
if possible, so let's see if anyone complains.
Almost all places where "ssh" was run have been changed to support the env
vars. Anything still calling sshOptions does not support them. In
particular, rsync special remotes don't. Seems that annex-rsync-transport
already gives sufficient control there.
(Fixed in passing: Remote.Helper.Ssh.toRepo used to extract
remoteAnnexSshOptions and pass them to sshOptions, which was redundant
since sshOptions also extracts those.)
This commit was sponsored by Jeff Goeke-Smith on Patreon.
* Added post-recieve hook, which makes updateInstead work with direct
mode and adjusted branches.
* init: Set up the post-receive hook.
This commit was sponsored by Fernando Jimenez on Patreon.
Argh, didn't need an accumulator here!
I think I use accumulators a lot more than I need to when recusively
processing lists..
This commit was sponsored by Jeff Goeke-Smith on Patreon.
Turns out that Data.List.Utils.split is slow and makes a lot of
allocations. Here's a much simpler single character splitter that behaves
the same (even in wacky corner cases) while running in half the time and
75% the allocations.
As well as being an optimisation, this helps move toward eliminating use of
missingh.
(Data.List.Split.splitOn is nearly as slow as Data.List.Utils.split and
allocates even more.)
I have not benchmarked the effect on git-annex, but would not be surprised
to see some parsing of eg, large streams from git commands run twice as
fast, and possibly in less memory.
This commit was sponsored by Boyd Stephen Smith Jr. on Patreon.
A commit last year that made a partial function use Maybe unfortunately
caused the whole input to need to be consumed, breaking streaming. So,
revert it.
This commit was sponsored by Nick Daly on Patreon.
ghc 8 added backtraces on uncaught errors. This is great, but git-annex was
using error in many places for a error message targeted at the user, in
some known problem case. A backtrace only confuses such a message, so omit it.
Notably, commands like git annex drop that failed due to eg, numcopies,
used to use error, so had a backtrace.
This commit was sponsored by Ethan Aubin.
Restarting a crashing git process could result in filename encoding issues
when not in a unicode locale, as the restarted processes's handles were not
read in raw mode.
Since rawMode is always used when starting a coprocess, didn't bother
to parameterise it and just always enable it for simplicity.
This commit was sponsored by Jake Vosloo on Patreon.
When adding a tree like a/b/c/d when a/b already exists, fixes the bug that
the tree that got created was a/b/a/b/c/d
Just need to flatten out the top N directories of the tree that's being
grafted in, so we get the c/d part. This was complicated by the Tree
data type being a rose tree rather than a regular tree.
This commit was sponsored by Nick Daly on Patreon.
The modification flag was not being set when making modifications deep
in a tree, so parent trees were not updated to contain the modified tree.
Seems to have exposed another bug where the wrong filename gets grafted in.
This commit was sponsored by Brock Spratlen on Patreon.
.. and have to be checked to see if they are a pointed to an annexed file.
Cases where such memory use could occur included, but were not limited to:
- git commit -a of a large unlocked file (in v5 mode)
- git-annex adjust when a large file was checked into git directly
Generally, any use of catKey was a potential problem.
Fix by using git cat-file --batch-check to check size before catting.
This adds another git batch process, which is included in the CatFileHandle
for simplicity.
There could be performance impact, anywhere catKey is used. Particularly
likely to affect adjusted branch generation speed, and operations on
unlocked files in v6 mode. Hopefully since the --batch-check and
--batch read the same data, disk buffering will avoid most overhead.
Leaving only the overhead of talking to the process over the pipe and
whatever computation --batch-check needs to do.
This commit was sponsored by Bruno BEAUFILS on Patreon.
Speeds up commands like "git-annex find --in remote" by over 50%.
Profiling showed that adjustGitEnv was 21% of the time and 37% of the
allocations of that command. It copied the environment each time with
getEnvironment.
The only repeated use of adjustGitEnv is in withIndexFile, which tends to
be run at least once per file. So, it was optimised by keeping a cache of
the environment, which can be reused.
There could be other better ways to optimise this. Maybe get the while
environment once at startup. But, then it would have to be serialized back
out each time running a child process, so I doubt that would be a net win.
It might be better to cache a version of the environment that is
pre-modified to use .git-annex/index. But, profiling doesn't show that
modifying the enviroment is taking any significant time.
* sync: Previously, when run in a branch with a slash in its name,
such as "foo/bar", the sync branch was "synced/bar". That conflicted
with the sync branch used for branch "bar", so has been changed to
"synced/foo/bar".
* adjust: Previously, when adjusting a branch with a slash in its name,
such as "foo/bar", the adjusted branch was "adjusted/bar(unlocked)".
That conflicted with the adjusted branch used for branch "bar",
so has been changed to "adjusted/foo/bar(unlocked)"
* Also, running sync in an adjusted branch did not correctly sync
changes back to the parent branch when it had a slash in its name.
This bug has been fixed.
Eliminate use of Git.Ref.under and Git.Ref.basename; using
Git.Ref.underBase and Git.Ref.base make everything handle deep branches
correctly.
Probably noone was adjusting deep branches, and v6 is still experimental
anyway, so I'm not going to worry about the mess that was left by that bug.
In the case of git-annex sync, using a fixed git-annex with an old unfixed
one will mean they use different sync branches for a deep branch, and so
they may stop syncing until the old one is upgraded. However, that's only
a problem when syncing between repositories without going via a central
bare repository. Added a warning about this to the CHANGELOG, but it's
probably not going to affect many people at all.
This commit was sponsored by Riku Voipio.
Show branch:file that is being operated on.
I had to make ActionItem a type and not a type class because
withKeyOptions' passed two different types of values when using the type
class, and I could not get the type checker to accept that.
This is actually worse than I thought; when git is being run with a
detached work tree, GIT_INDEX_FILE is treated as a path relative to CWD,
instead of the normal behavior of relative the top of the work tree.
This seems to make it basically impossible for any program that wants to
use GIT_INDEX_FILE to use anything other than an absolute path to it; there
are too many configurations to keep straight that can change how git
interprets what should be a simple relative path to a file.
(I have complained to the git developers.)
This affected git annex view. It turns out that some other places
that use GIT_INDEX_FILE were already working around the bug. I removed the
workaround from Annex.Branch since the new workaround will do.
Since git-annex unsets these when started, they have to be explicitly
propigated. Also, this makes --git-dir and --work-tree settings be
reflected in the environment.
The need for this came up in
https://github.com/DanielDent/git-annex-remote-rclone/issues/3
I'd prefer to use the env var, but let's use what git currently supports.
Revert this when the env var gets supported.
Note that the version checking assumes git 2.8.2 will get support for the
switch.
git 2.8.1 (or perhaps 2.9.0) is going to prevent git merge from merging in
unrelated branches. Since the webapp's pairing etc features often combine
together repositories with unrelated histories, work around this behavior
change by setting GIT_MERGE_ALLOW_UNRELATED_HISTORIES when the assistant
merges.
Note though that this is not done for git annex sync's merges, so
it will follow git's default or configured behavior.
This is how direct mode does it too, and somehow, for reasons that
currently escape me, this makes git merge not care if it's run with an
empty work tree.
Rationalle: User might have hook scripts whose output they want to see.
Also, git commit output may tell the user they forgot to add a file.
The output is not too ugly when there's nothing to commit.
This makes the direct mode to v6 upgrade able to be performed in one clone
of a repository without affecting other clones, which can continue using v5
and direct mode.
