Added some tweaks to make git-annex work in termux on Android. The regular
arm standalone tarball now works in termux.
I guess the test for "$base/bin/git" is not really necessary, since it
tests for git-annex. Since that gets deleted on android, removed that test.
These are pretty hackish hacks, especially adding it to PATH. The goal is
to make it work well enough out of the box on Android.
This commit was sponsored by Eric Drechsel on Patreon.
* For url downloads, git-annex now defaults to using a http library,
rather than wget or curl. But, if annex.web-options is set, it will
use curl. To use the .netrc file, run:
git config annex.web-options --netrc
* git-annex no longer uses wget (and wget is no longer shipped with
git-annex builds).
Note that curl is always run in silent mode, since the new API for
download has a MeterUpdate and doesn't make way for curl progress
output. It might be worth writing a parser for curl's progress output
to update the meter when using it, but I didn't bother with this edge
case for now.
This commit was supported by the NSF-funded DataLad project.
Remote.S3 and Remote.Helper.Http both had similar code to sink a
http-conduit Response to a file; refactor out sinkResponseFile.
downloadC downloads an url to a file using http-conduit, and supports
resuming. Falls back to curl to handle urls that http-conduit does not
support. This is not used yet, but the goal is to replace download with
it.
git-annex.cabal: conduit-extra was not actually used for a long time,
remove the dep. conduit moves into the main dependency list, but since
http-conduit was already in there, and it depends on conduit, that's not
really adding a new build dep.
This commit was supported by the NSF-funded DataLad project.
Enable HTTP connection reuse across multiple files, when git-annex
uses http-conduit. Before, a new Manager was created each time
Utility.Url used it. Now, a single Manager gets created the first time,
so connections are reused.
Doesn't help when external programs are used for url download,
but does speed up addurl --fast, fsck --from web, etc.
Testing fsck --fast --from web with 3 files, over high-latency
satellite internet, it sped up from 19.37s to 14.96s.
This commit was supported by the NSF-funded DataLad project.
git annex testremote passes.
exportree not implemented yet, although the documentation talks about it,
since it will be the main way this remote will be used.
The adb push/pull progress is displayed for now; it would be better
to consume it and use it to update the git-annex progress bar.
This commit was sponsored by andrea rota.
There are a lot of different variants and sizes, I suppose we might as well
export all the common ones.
Bump dep to cryptonite to 0.16, earlier versions lacked BLAKE2 support.
Even android has 0.16 or newer.
On Debian, Blake2bp_512 is buggy, so I have omitted it for now.
http://bugs.debian.org/892855
This commit was sponsored by andrea rota.
When resuming a download and not using a rolling checksummer like rsync,
the partial file we start with might contain garbage, in the case where a
file changed as it was being downloaded. So, disabling verification on
resumes risked a bad object being put into the annex.
Even downloads with rsync are currently affected. It didn't seem worth the
added complexity to special case those to prevent verification, especially
since git-annex is using rsync less often now.
This commit was sponsored by Brock Spratlen on Patreon.
P2P protocol version 1 adds VALID|INVALID after DATA; INVALID means the
file was detected to change content while it was being sent and so we
may not have received the valid content of the file.
Added new MustVerify constructor for Verification, which forces
verification even when annex.verify=false etc. This is used when INVALID
and in protocol version 0.
As well as changing git-annex-shell p2psdio, this makes git-annex tor
remotes always force verification, since they don't yet use protocol
version 1. Previously, annex.verify=false could skip verification when
using tor remotes, and let bad data into the repository.
This commit was sponsored by Jack Hill on Patreon.
When the assistant detects a network change, it
stops using old git-annex transferkeys processes.
So, no problem that old git-annex-shell p2pstdio
connections are cached; they won't be reused after
network change.
When git-annex-shell p2pstdio fails with 255, it's because the ssh
server is not reachable. Avoid running the fallback action in this case,
since it would just try a second time to connect, and presumably fail.
Note that the closed P2PSshConnection will not be stored in the pool,
so the next request tries again to connect. This is just the right
behavior; when the remote becomes reachable again, the same git-annex
process will start using it.
This commit was sponsored by Ole-Morten Duesund on Patreon.
Unfortunately ReceiveMessage didn't handle unknown messages the way it
was documented to; client sending VERSION would cause the server to
return an ERROR and hang up. Fixed that, but old releases of git-annex
use the P2P protocol for tor and will still have that behavior.
So, version is not negotiated for Remote.P2P connections, only for
Remote.Git connections, which will support VERSION from their first
release. There will need to be a later flag day to change Remote.P2P;
left a commented out line that is the only thing that will need to be
changed then.
Version 1 of the P2P protocol is not implemented yet, but updated
the docs for the DATA change that will be allowed by that version.
This commit was sponsored by Jeff Goeke-Smith on Patreon.
Note that, due to not using rsync to transfer files to ssh remotes
any longer, permissions and other file metadata of annexed files
will no longer be preserved when copying them to ssh remotes.
Other remotes never supported preserving that information, so
this is not considered a regression. Added NEWS item about this.
Another significant side effect of this is that, even when rsync is run to
retrieve a file, its progress display will no longer be shown, and
instead the native git-annex progress display will appear. It would be
possible to use the rsync process display when rsync is used (old
git-annex-shell and also retrieval from a local repository), but it
would have complicated the code unncessarily, and been inconsistent
behavior.
(I'd been thinking for a while about eliminating the rsync progress
display, since it's got some annoying verbosities, including display of
the key and the "(xfr#1, to-chk=0/1)" bit and was already somewhat
inconsistent.)
retrieveKeyFileCheap still uses rsync, since that ensures that it gets
the actual file content from the remote. Using the P2P protocol would
use the local content, as long as the local and remote size are the
same.
This commit was sponsored by John Pellman on Patreon.
Not yet used for everything else, but this is enough to
verify that it works, and do some benchmarking.
Some bugfixes included, which got it working. Also fallback to old
actions has been verified to work correctly.
Benchmarked dropping one thousand files from a ssh remote on localhost.
Using the old git-annex 40.867 seconds.
With the P2P protocol 9.905 seconds!
This commit was sponsored by Jochen Bartl on Patreon.
Not yet used by git-annex, but this will allow faster transfers etc than
using individual ssh connections and rsync.
Not called git-annex-shell p2p, because git-annex p2p does something
else and I don't want two subcommands with the same name between the two
for sanity reasons.
This commit was sponsored by Øyvind Andersen Holm.
Renaming is not supported; it might be possible to use --fuzzy to get rsync
to notice the file is being renamed, but that is a bit ..fuzzy.
On the other hand, interrupted transfers of an exported file are resumed,
since rsync is great at that. Had to adjust the exporttree docs, which
said interrupted transfers would restart.
Note that remove no longer makes the empty directory dummy, instead
sending the top-level empty directory. This works just as well and I
noticed the dummy was unncessary when refactoring it into removeGeneric.
Verified that behavior of remove is not changed, and git annex
testremote does pass.
This commit was sponsored by Brock Spratlen on Patreon.
It's left up to the special remote to detect when git-annex is new enough
to support the message; an old git-annex will blow up.
This commit was supported by the NSF-funded DataLad project.
gmane's disk crashed, I found one thread in another archive, but could
not find my whole patch set in any archive (perhaps some of the messages
were too long), so pulled it out of my personal mail archives.
This commit was supported by the NSF-funded DataLad project.
A top-level .noannex file will prevent git-annex init from being used in a
repository. This is useful for repositories that have a policy reason not
to use git-annex. The content of the file will be displayed to the user who
tries to run git-annex init.
This also affects git annex reinit and initialization via the webapp.
It does not affect automatic inits, when there's a sibling git-annex branch
already.
This commit was supported by the NSF-funded DataLad project.
This will be used in youtube-dl integration, to tell when a html page has
been downloaded by addurl, in which case it is worth running youtube-dl
to see if it can extract media from it.
tagsoup is an almost free dependency, because yesod depends on it.
So, this only really adds a dep when git-annex is built without the
webapp.
I'd like this to as closely as possible match how browsers decide if a
page is html or not. Unfortunately, that is fairly heuristic, in order
to support malformed html. And, we don't want to falsely detect
something as html just because it has something that looks like a html
tag embedded somewhere in it. Probably any major video hosting site is
going to be serving html documents that at least start with a <html>
tag, so requiring that or a DOCTYPE should be good enough.
This commit was sponsored by Jeff Goeke-Smith on Patreon.
As long as the class of remotes supports exporting, it's tested whether
or not the remote is configured with exporttree=yes.
Also, made testremote of a remote configured with exporttree=yes
disable that configuration for testing non-export storage.
This commit was supported by the NSF-funded DataLad project.
Remove closed bugs and todos that were last edited or commented before 2017.
Command line used:
for f in $(grep -l '|done\]\]' -- *.mdwn); do d="$(echo "$f" | sed 's/.mdwn$//')"; if [ -z "$(git log --since=01-01-2017 --pretty=oneline -- "$f")" -a -z "$(git log --since=01-01-2017 --pretty=oneline -- "$d")" ]; then git rm -- "./$f" ; git rm -rf "./$d"; fi; done
for f in $(grep -l '\[\[done\]\]' -- *.mdwn); do d="$(echo "$f" | sed 's/.mdwn$//')"; if [ -z "$(git log --since=01-01-2017 --pretty=oneline -- "$f")" -a -z "$(git log --since=01-01-2017 --pretty=oneline -- "$d")" ]; then git rm -- "./$f" ; git rm -rf "./$d"; fi; done
This is similar to the pusher thread, but a separate thread because git
pushes can be done in parallel with exports, and updating a big export
should not prevent other git pushes going out in the meantime.
The exportThread only runs at most every 30 seconds, since updating an
export is more expensive than pushing. This may need to be tuned.
Added a separate channel for export commits; the committer records a
commit in that channel.
Also, reconnectRemotes records a dummy commit, to make the exporter
thread wake up and make sure all exports are up-to-date. So,
connecting a drive with a directory special remote export will
immediately update it, and getting online will automatically
update S3 and WebDAV exports.
The transfer queue is not involved in exports. Instead, failed
exports are retried much like failed pushes.
This commit was sponsored by Ewen McNeill.
The bug occurred when closeDb was not called, and garbage collection of
the DbHandle didn't give the workerThread time to shut down. Fixed by
exiting the runSqlite action when a commit is made.
(MultiWriter mode already forked off a runSqlite action, so avoided the
problem.)
This commit was sponsored by Brock Spratlen on Patreon.
Now when one repository has exported a tree, another repository can get
files from the export, after syncing.
There's a bug: While the database update works, somehow the database on
disk does not get updated, and so the database update is run the next
time, etc. Wasn't able to figure out why yet.
This commit was sponsored by Ole-Morten Duesund on Patreon.
New table needed to look up what filenames are used in the currently
exported tree, for reasons explained in export.mdwn.
Also, added smart constructors for ExportLocation and ExportDirectory to
make sure they contain filepaths with the right direction slashes.
And some code refactoring.
This commit was sponsored by Francois Marier on Patreon.
There does not seem to be a use case for supporting that, and it would
need a lot of complication to support it in a way that allows eventual
consistency when two repositories are updating the same export.
This commit was sponsored by Henrik Riomar on Patreon.
Apparently box.com renaming is just buggy. I tried a couple of fixes:
* In case the http Manager was opening multiple connections and reaching
different backend servers, I tried limiting the number of connections
to 1. Didn't help.
* To make sure it was not a http connection reuse problem, I tried
rewriting how exportAction works, so that the same http connection
is clearly open. Didn't help.
So, disable renaming of exports for box.com. It would be good to test it
with some other webdav server.
This commit was sponsored by John Peloquin on Patreon.
It was not getting old lines removed, because the tree graft confused
the updater, so it union merged from the previous git-annex branch,
which still contained the old lines. Fixed by carefully using setIndexSha.
This commit was supported by the NSF-funded DataLad project.
This breaks backwards compatibility, but only with unreleased versions of
git-annex, which I think is acceptable.
This commit was supported by the NSF-funded DataLad project.
Removal works, only derives are a potential issue, so allow removing
with a warning. This way, unexporting a file works, and behavior is
consistent with IA remotes whether or not exporttree=yes.
Also tested exporting filenames containing unicode, spaces, underscores.
All worked, despite the IA's faq saying it doesn't.
This commit was sponsored by Trenton Cronholm on Patreon.
It opens a http connection per file exported, but then so does git
annex copy --to s3.
Decided not to munge exported filenames for IA. Too large a chance of
the munging having confusing results. Instead, export of files not
supported by IA, eg with spaces in their name, will fail.
This commit was supported by the NSF-funded DataLad project.
Only rename when actually ncessary.
The diff gets buffered in memory. Probably git has to buffer a diff in
memory when generating it as well, so this memory usage should not be a
problem, even when the diff is very large. I hope.
This commit was supported by the NSF-funded DataLad project.
Don't allow "exporttree=yes" to be set when the special remote
does not support exports. That would be confusing since the user would
set up a special remote for exports, but `git annex export` to it would
later fail.
This commit was supported by the NSF-funded DataLad project.
The export database has writes made to it and then expects to read back
the same data immediately. But, the way that Database.Handle does
writes, in order to support multiple writers, makes that not work, due
to caching issues. This resulted in export re-uploading files it had
already successfully renamed into place.
Fixed by allowing databases to be opened in MultiWriter or SingleWriter
mode. The export database only needs to support a single writer; it does
not make sense for multiple exports to run at the same time to the same
special remote.
All other databases still use MultiWriter mode. And by inspection,
nothing else in git-annex seems to be relying on being able to
immediately query for changes that were just written to the database.
This commit was supported by the NSF-funded DataLad project.
Straightforward enough, except for the needed belt-and-suspenders sanity
checks to avoid foot shooting due to exports not being key/value stores.
* Even when annex.verify=false, always verify from exports.
* Only get files from exports that use a backend that supports
checksum verification.
* Never trust exports, even if the user says to, because then
`git annex drop` would drop content if the export seemed to contain
a copy.
This commit was supported by the NSF-funded DataLad project.
Removed uncorrect UniqueKey key in db schema; a key can appear multiple
times with different files.
The database has to be flushed after each removal. But when adding files
to the export, lots of changes are able to be queued up w/o flushing.
So it's still fairly efficient.
If large removals of files from exports are too slow, an alternative
would be to make two passes over the diff, one pass queueing deletions
from the database, then a flush and the a second pass updating the
location log. But that would use more memory, and need to look up
exportKey twice per removed file, so I've avoided such optimisation yet.
This commit was supported by the NSF-funded DataLad project.
* Only export to remotes that were initialized to support it.
* Prevent storing key/value on export remotes.
* Prevent enabling exporttree=yes and encryption in the same remote.
SetupStage Enable was changed to take the old RemoteConfig.
This allowed only setting exporttree when initially setting up a
remote, and not configuring it later after stuff might already be stored
in the remote.
Went with =yes rather than =true for consistency with other parts of
git-annex. Changed docs accordingly.
This commit was supported by the NSF-funded DataLad project.
Make a pass over the whole exported tree, and upload anything that has
not yet reached the export. Update location log when exporting.
Note that the synthesized keys for non-annexed files are stored in the
location log too.
Some cases involving files in the tree with the same content are not
handled correctly yet.
This commit was sponsored by Boyd Stephen Smith Jr. on Patreon.
Cryptonite is faster and allocates less, and I want to get rid of
MissingH use.
Note that the new dependency on memory is free; it's a dependency of
cryptonite.
This commit was supported by the NSF-funded DataLad project.
Unlike git add -u, git annex add -u does not update the index for files
removed from the working tree. But then, "git add ." stages removals,
and "git annex add ." does not, so that's an existing divergence.
Seems that --update --batch would need to run git ls-files once per line of
batch input, which would surely be too slow, so just throw an error for
that.
This commit was supported by the NSF-funded DataLad project.
* init: When annex.securehashesonly has been set with git-annex config,
copy that value to the annex.securehashesonly git config.
* config --set: As well as setting value in git-annex branch,
set local gitconfig. This is needed especially for
annex.securehashesonly, which is read only from local gitconfig and not
the git-annex branch.
doc/todo/sha1_collision_embedding_in_git-annex_keys.mdwn has the
rationalle for doing it this way. There's no perfect solution; this
seems to be the least-bad one.
This commit was supported by the NSF-funded DataLad project.
Yesterday's SHA1 collision attack could be used to generate eg:
SHA256-sfoo--whatever.good
SHA256-sfoo--whatever.bad
Such that they collide. A repository with the good one could have the
bad one swapped in and signed commits would still verify.
I've already mitigated this.
I am not happy that I had to put backend-specific code in file2key. But
it would be very difficult to avoid this layering violation.
Most of the time, when parsing a Key from a symlink target, git-annex
never looks up its Backend at all, so adding this check to a method of
the Backend object would not work.
The Key could be made to contain the appropriate
Backend, but since Backend is parameterized on an "a" that is fixed to
the Annex monad later, that would need Key to change to "Key a".
The only way to clean this up that I can see would be to have the Key
contain a LowlevelBackend, and put the validation in LowlevelBackend.
Perhaps later, but that would be an extensive change, so let's not do
it in this commit which may want to cherry-pick to backports.
This commit was sponsored by Ethan Aubin.
* Run curl with -S, so HTTP errors are displayed, even when
it's otherwise silent.
* When downloading in --json or --quiet mode, use curl in preference
to wget, since curl is able to display only errors to stderr, unlike
wget.
This does mean that downloadQuiet is only silent on stdout, not necessarily
on stderr, which affects a couple other calls of it. For example,
downloading the .git/config of a http remote may show an error message now,
perhaps with slightly suboptimal formatting due to other output.
This adds one extra line of output when a download is successful,
after the progress bar. I don't much like that, but wget does not provide a
way to show HTTP errors without it.
I've seen this thing, whatever it is, mentioned in spam links before,
so even if it's valid for some OS (probably not the one being asked
about), it's verboten here.
config group groupwanted numcopies schedule wanted required: Avoid
displaying extraneous messages about repository auto-init, git-annex branch
merging, etc, when being used to get information.
By displaying error messages from the remote then it fails to update
its checked out branch.
Error messages in the default receive.denyCurrentBranch are still
suppressed, which matches user expectations.
This commit was sponsored by Nick Daly on Patreon.
This is the same as running git annex reinject --known, followed by
git-annex import. The advantage to having it in one command is that it
only has to hash each file once; the two commands have to
hash the imported files a second time.
This commit was sponsored by Shane-o on Patreon.
... to control the default behavior in all clones of a repository.
This includes a new Configurable data type, so the GitConfig type indicates
which values can be configured this way.
The implementation should be quite efficient; the config log is only read
once, and only when a Configurable value has not already been set by
git-config.
Indeed, it would be nice in the future to extend this, so that git-config
is itself only read on demand. Some commands may not need to look at the
git configuration at all.
This commit was sponsored by Trenton Cronholm 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.
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.
Any config names can be set using this; git-annex commands will only look
at specific ones that make sense and are worth the overhead of querying the
branch.
This might also be useful for storing whatever other config-type stuff the
user might want to shove into the git-annex branch.
This commit was sponsored by Jochen Bartl on Patreon.
This way we know that after enable-tor, the tor hidden service is fully
published and working, and so there should be no problems with it at
pairing time.
It has to start up its own temporary listener on the hidden service. It
would be nice to have it start the remotedaemon running, so that extra
step is not needed afterwards. But, there may already be a remotedaemon
running, in communication with the assistant and we don't want to start
another one. I thought about trying to HUP any running remotedaemon, but
Windows does not make it easy to do that. In any case, having the user
start the remotedaemon themselves lets them know it needs to be running
to serve the hidden service.
This commit was sponsored by Boyd Stephen Smith Jr. on Patreon.
I'm unsure why this fixed it, but it did. Seems to suggest that the
memory leak is not due to a bug in my code, but that ghc didn't manage
to take full advantage of laziness, or was failing to gc something it
could have.
I've long considered the XMPP support in git-annex a wart.
It's nice to remove it.
(This also removes the NetMessager, which was only used for XMPP, and the
daemonstatus's desynced list (likewise).)
Existing XMPP remotes should be ignored by git-annex.
This commit was sponsored by Brock Spratlen on Patreon.
Multiple external special remote processes for the same remote will be
started as needed when using -J.
This should not beak any existing external special remotes, because running
multiple git-annex commands at the same time could already start multiple
processes for the same external special remotes.
Only done in -J mode because only if there's concurrency can downloading
from two remotes be faster. Without concurrency, it's likely the case that
sequential downloads from the same remote are faster than switching back
and forth between two remotes.
There is some hairy MVar code here, but basically it just keeps
the activeremotes MVar full except when deciding which remote to assign
to a thread.
Also affects gets by sync --content -J
This commit was sponsored by Jochen Bartl.
This was disabled in commit 61ccf95004,
because only the assistant used them, and they were clutter. But, now
--failed also uses them.
Remove the failure log files after successful transfers. Should avoid
most of the clutter problems.
Commit 61ccf95004 mentions a subtle behavior
change, which has now been reverted:
There is one behavior change from this. If glacier is being used, and a
manual git annex get --from glacier fails because the file isn't available
yet, the assistant will no longer later see that failed transfer file and
retry the get.
Note that get --from foo --failed will get things that a previous get --from bar
tried and failed to get, etc. I considered making --failed only retry
transfers from the same remote, but it was easier, and seems more useful,
to not have the same remote requirement.
Noisy due to some refactoring into Types/
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.
Added --branch option to copy, drop, fsck, get, metadata, mirror, move, and
whereis commands. This option makes git-annex operate on files that are
included in a specified branch (or other treeish).
The names of the files from the branch that are being operated on are not
displayed yet; only the keys. Displaying the filenames will need changes
to every affected command.
Also, note that --branch can be specified repeatedly. This is not really
documented, but seemed worth supporting, especially since we may later want
the ability to operate on all branches matching a refspec. However, when
operating on two branches that contain the same key, that key will be
operated on twice.
This is useful for makking a special remote that anyone with a clone of the
repo and your public keys can upload files to, but only you can decrypt the
files stored in it.
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.
Remove closed bugs and todos that were last edited or commented before Q3 2015.
Command line used:
for f in $(grep -l '\[\[done\]\]' -- *.mdwn); do d="$(echo "$f" | sed 's/.mdwn$//')"; if [ -z "$(git log --since=09-09-2015 --pretty=oneline -- "$f")" -a -z "$(git log --since=09-09-2015 --pretty=oneline -- "$d")" ]; then git rm -- "$f"; git rm -rf "$d"; fi; done
for f in $(grep -l '|done\]\]' -- *.mdwn); do d="$(echo "$f" | sed 's/.mdwn$//')"; if [ -z "$(git log --since=09-09-2015 --pretty=oneline -- "$f")" -a -z "$(git log --since=09-09-2015 --pretty=oneline -- "$d")" ]; then git rm -- "$f"; git rm -rf "$d"; fi; done
This lets readonly repos be used. If a repo is readonly, we can ignore the
keys database, because nothing that we can do will change the state of the
repo anyway.
The benchmark shows that the database access is quite fast indeed!
And, it scales linearly to the number of keys, with one exception,
getAssociatedKey.
Based on this benchmark, I don't think I need worry about optimising
for cases where all files are locked and the database is mostly empty.
In those cases, database access will be misses, and according to this
benchmark, should add only 50 milliseconds to runtime.
(NB: There may be some overhead to getting the database opened and locking
the handle that this benchmark doesn't see.)
joey@darkstar:~/src/git-annex>./git-annex benchmark
setting up database with 1000
setting up database with 10000
benchmarking keys database/getAssociatedFiles from 1000 (hit)
time 62.77 μs (62.70 μs .. 62.85 μs)
1.000 R² (1.000 R² .. 1.000 R²)
mean 62.81 μs (62.76 μs .. 62.88 μs)
std dev 201.6 ns (157.5 ns .. 259.5 ns)
benchmarking keys database/getAssociatedFiles from 1000 (miss)
time 50.02 μs (49.97 μs .. 50.07 μs)
1.000 R² (1.000 R² .. 1.000 R²)
mean 50.09 μs (50.04 μs .. 50.17 μs)
std dev 206.7 ns (133.8 ns .. 295.3 ns)
benchmarking keys database/getAssociatedKey from 1000 (hit)
time 211.2 μs (210.5 μs .. 212.3 μs)
1.000 R² (0.999 R² .. 1.000 R²)
mean 211.0 μs (210.7 μs .. 212.0 μs)
std dev 1.685 μs (334.4 ns .. 3.517 μs)
benchmarking keys database/getAssociatedKey from 1000 (miss)
time 173.5 μs (172.7 μs .. 174.2 μs)
1.000 R² (0.999 R² .. 1.000 R²)
mean 173.7 μs (173.0 μs .. 175.5 μs)
std dev 3.833 μs (1.858 μs .. 6.617 μs)
variance introduced by outliers: 16% (moderately inflated)
benchmarking keys database/getAssociatedFiles from 10000 (hit)
time 64.01 μs (63.84 μs .. 64.18 μs)
1.000 R² (1.000 R² .. 1.000 R²)
mean 64.85 μs (64.34 μs .. 66.02 μs)
std dev 2.433 μs (547.6 ns .. 4.652 μs)
variance introduced by outliers: 40% (moderately inflated)
benchmarking keys database/getAssociatedFiles from 10000 (miss)
time 50.33 μs (50.28 μs .. 50.39 μs)
1.000 R² (1.000 R² .. 1.000 R²)
mean 50.32 μs (50.26 μs .. 50.38 μs)
std dev 202.7 ns (167.6 ns .. 252.0 ns)
benchmarking keys database/getAssociatedKey from 10000 (hit)
time 1.142 ms (1.139 ms .. 1.146 ms)
1.000 R² (1.000 R² .. 1.000 R²)
mean 1.142 ms (1.140 ms .. 1.144 ms)
std dev 7.142 μs (4.994 μs .. 10.98 μs)
benchmarking keys database/getAssociatedKey from 10000 (miss)
time 1.094 ms (1.092 ms .. 1.096 ms)
1.000 R² (1.000 R² .. 1.000 R²)
mean 1.095 ms (1.095 ms .. 1.097 ms)
std dev 4.277 μs (2.591 μs .. 7.228 μs)
Several tricky parts:
* When the conflict is just between the same key being locked and unlocked,
the unlocked version wins, and the file is not renamed in this case.
* Need to update associated file map when conflict resolution renames
an unlocked file.
* git merge runs the smudge filter on the conflicting file, and actually
overwrites the file with the same content it had before, and so
invalidates its inode cache. This makes it difficult to know when it's
safe to remove such files as conflict cruft, without going so far as to
compare their entire contents.
Dealt with this by preventing the smudge filter from populating the file
when a merge is run. However, that also prevents the smudge filter being
run for non-conflicting files, so eg moving a file won't put its new
content into place.
* Ideally, if a merge or a merge conflict resolution renames an unlocked
file, the file in the work tree can just be moved, rather than copying
the content to a new worktree file.
This is attempted to be done in merge conflict resolution, but
due to git merge's behavior of running smudge filters, what actually
seems to happen is the old worktree file with the content is deleted and
rewritten as a pointer file, so doesn't get reused.
So, this is probably not as efficient as it optimally could be.
If that becomes a problem, could look into running the merge in a separate
worktree and updating the real worktree more efficiently, similarly to the
direct mode merge. However, the direct mode merge had a lot of bugs, and
I'd rather not use that more error-prone method unless really needed.
Decided it's too scary to make v6 unlocked files have 1 copy by default,
but that should be available to those who need it. This is consistent with
git-annex not dropping unused content without --force, etc.
* Added annex.thin setting, which makes unlocked files in v6 repositories
be hard linked to their content, instead of a copy. This saves disk
space but means any modification of an unlocked file will lose the local
(and possibly only) copy of the old version.
* Enable annex.thin by default on upgrade from direct mode to v6, since
direct mode made the same tradeoff.
* fix: Adjusts unlocked files as configured by annex.thin.
Writes are optimised by queueing up multiple writes when possible.
The queue is flushed after the Annex monad action finishes. That makes it
happen on program termination, and also whenever a nested Annex monad action
finishes.
Reads are optimised by checking once (per AnnexState) if the database
exists. If the database doesn't exist yet, all reads return mempty.
Reads also cause queued writes to be flushed, so reads will always be
consistent with writes (as long as they're made inside the same Annex monad).
A future optimisation path would be to determine when that's not necessary,
which is probably most of the time, and avoid flushing unncessarily.
Design notes for this commit:
- separate reads from writes
- reuse a handle which is left open until program
exit or until the MVar goes out of scope (and autoclosed then)
- writes are queued
- queue is flushed periodically
- immediate queue flush before any read
- auto-flush queue when database handle is garbage collected
- flush queue on exit from Annex monad
(Note that this may happen repeatedly for a single database connection;
or a connection may be reused for multiple Annex monad actions,
possibly even concurrent ones.)
- if database does not exist (or is empty) the handle
is not opened by reads; reads instead return empty results
- writes open the handle if it was not open previously
The annex object for it may have been modified due to hard link, and
that should be cleaned up when the new version is added. If another
associated file has the old key's content, that's linked into the annex
object. Otherwise, update location log to reflect that content has been
lost.
When a v6 unlocked files is removed from the work tree,
unused doesn't show it. When it gets removed from the index,
unused does show it. This is the same as a locked file.
This only adds 1 stat to each file fscked for locked files, so
added overhead is minimal.
For unlocked files it has to access the database to see if a file
is modified.
If multiple files point to the same annex object, the user may want to
modify them independently, so don't use a hard link.
Also, check diskreserve when copying.
Note that the implementation uses replaceFile, so that the actual
replacement of the work tree file is atomic. This seems a good property to
have!
It would be possible for unlock in v6 mode to be run on files that do not
have their content present. However, that would be a behavior change from
before, and I don't see any immediate need to support it, so I didn't
implement it.
This avoids querying the database when the content file doen't exist
(or otherwise fails the provided check). However, it does add overhead of
querying the database, and will certianly impact performance.
The Keys database can hold multiple inode caches for a given key. One for
the annex object, and one for each pointer file, which may not be hard
linked to it.
Inode caches for a key are recorded when its content is added to the annex,
but only if it has known pointer files. This is to avoid the overhead of
maintaining the database when not needed.
When the smudge filter outputs a file's content, the inode cache is not
updated, because git's smudge interface doesn't let us write the file. So,
dropping will fall back to doing an expensive verification then. Ideally,
git's interface would be improved, and then the inode cache could be
updated then too.
This removes ambiguity, because while someone might have "WORM--foo" in a
file that's not intended to be a git-annex pointer file,
"annex/objects/WORM--foo" is less likely.
Also, 664cc987e8 had a caveat about symlink
targets being parsed as pointer files, and now the same parser is used for
both.
I did not include any hash directories before the key in the pointer file,
as they're not needed. However, if they were included, the parser would
still work ok.
Note that this changes the default behavior of git add in a newly
initialized repository; it will add files to the annex.
Don't like that this could break workflows, but it's necessary in order for
any pointer files in the repo to be handled by git-annex.
Since all places where a repo is used in direct mode need to have git-annex
upgraded before the repo can safely be converted to v6, the upgrade needs
to be manual for now.
I suppose that at some point I'll want to drop all the direct mode support
code. At that point, will stop supporting v5, and will need to auto-upgrade
any remaining v5 repos. If possible, I'd like to carry the direct mode
support for say, a year or so, to give people plenty of time to upgrade and
avoid disruption.
importfeed just calls addurl functions, so inherits this from it.
Note that addurl still generates a temp file, and uses that key to download
the file. It just adds it to the work tree at the end when the file is small.
Implemented with no additional overhead of compares etc.
This is safe to do for presence logs because of their locality of change;
a given repo's presence logs are only ever changed in that repo, or in a
repo that has just been actively changing the content of that repo.
So, we don't need to worry about a split-brain situation where there'd
be disagreement about the location of a key in a repo. And so, it's ok to
not update the timestamp when that's the only change that would be made
due to logging presence info.
* When annex objects are received into git repositories, their checksums are
verified then too.
* To get the old, faster, behavior of not verifying checksums, set
annex.verify=false, or remote.<name>.annex-verify=false.
* setkey, rekey: These commands also now verify that the provided file
matches the key, unless annex.verify=false.
* reinject: Already verified content; this can now be disabled by
setting annex.verify=false.
recvkey and reinject already did verification, so removed now duplicate
code from them. fsck still does its own verification, which is ok since it
does not use getViaTmp, so verification doesn't happen twice when using fsck
--from.
Seems easy, but git ls-files can't list the right subset of files.
So, I wrote a whole new parser for git status output, and converted the
status command to use that.
There are a few other small behavior changes. The order changed. Unlocked
files show as T. In indirect mode, deleted files were not shown before, and
that's fixed. Regular files checked directly into git and modified
were not shown before, and are now.
todo/Nearine_support is where this is being discussed, it was closed as a
dup erroniously.
Spending more time closing dups about this than working on it. :(
I've tested all the dataenc to sandi conversions except Assistant.XMPP,
and all have unchanged behavior, including behavior on large unicode code
points.
Note that while the assistant detects changes made to remote names, I left
the commit message fixed rather than calculating it after every commit. It
doesn't seem worth the CPU to do the latter.
* info: Can now display info about a given uuid.
* Added to remote/uuid info: Count of the number of keys present
on the remote, and their size. This is rather expensive to calculate,
so comes last and --fast will disable it.
* Git remote info now includes the date of the last sync with the remote.
