Please describe the problem.

Some remotes disappeared from git annex info after synchronising with a new repo.

What steps will reproduce the problem?

  1. have a nice repository full of remotes and special remotes
  2. create a new repository with git init; git annex init; git reinit <some UUID from a previously lost repository>
  3. sync the two repositories

Expected the result: restore the lost repository the its previous state.

Actual result: previous state available, but lost track of other repositories.

I suspect there may be a relation to an old "forget history" transition at play here, as the last commit on the git-annex branch is:

``` commit 266099a48af81eab71d27741b43776372aa519c4 Merge: 13ed0a6 05681b9 Author: Antoine Beaupré anarcat@debian.org Date: Wed Mar 30 12:49:55 2016 -0400

continuing transition ["forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes"]

```

So in short, some remotes that i never marked as dead seem to be caught in the whirlpool of forget transitions.

What version of git-annex are you using? On what operating system?

5.20151208-1~bpo8+1 on debian jessie.

Please provide any additional information below.

So here's what i could salvage from my terminal history. Note that window resizing may have truncated some lines. Apologies for the mess...

[1077]anarcat@angela:cb39412b-d221-4846-a9dd-cdbabd9958f1$ sudo mkdir Music
[1078]anarcat@angela:cb39412b-d221-4846-a9dd-cdbabd9958f1$ sudo chown anarcat Music
[1079]anarcat@angela:cb39412b-d221-4846-a9dd-cdbabd9958f1$ cd Music/
[1082]anarcat@angela:Music$ git init
Dépôt Git vide initialisé dans /media/anarcat/cb39412b-d221-4846-a9dd-cdbabd9958f1/Music/.gi
[1083]anarcat@angela:Music$ git annex init
init  ok
(recording state in git...)
[1084]anarcat@angela:Music130$ git annex reinit 6f812272-18c8-4346-b68a-f57ae50f657e
reinit 6f812272-18c8-4346-b68a-f57ae50f657e ok
[1086]anarcat@angela:Music$ git remote add origin ~/mp3
[1087]anarcat@angela:Music$ git remote update # 12:44
Récupération de origin
warning: no common commits
remote: Décompte des objets: 819312, fait.
remote: Compression des objets: 100% (368189/368189), fait.
Réception d'objets: 100% (819312/819312), 64.97 MiB | 5.19 MiB/s, fait.
remote: Total 819312 (delta 653024), reused 588679 (delta 449859)
Depuis /home/anarcat/mp3
 * [nouvelle branche] git-annex  -> origin/git-annex
 * [nouvelle branche] master     -> origin/master
 * [nouvelle branche] synced/git-annex -> origin/synced/git-annex
 * [nouvelle branche] synced/master -> origin/synced/master
 * [nouvelle étiquette] bak        -> bak
[1089]anarcat@angela:Music$ git annex merge
merge git-annex (merging origin/git-annex origin/synced/git-annex into git-annex...)
(recording state in git...)
[1092]anarcat@angela:Music$ git co master
Extraction des fichiers: 100% (22187/22187), fait.
La branche master est paramétrée pour suivre la branche distante master depuis origin.
Déjà sur 'master'
[1099]anarcat@angela:Music130$ date; time git annex get --quiet --in here; date
mercredi 30 mars 2016, 12:53:29 (UTC-0400)
sha256sum: .git/annex/tmp/SHA256E-s4476433--bb954dfe81f3d0906a18e53d02040d1d8f8e78917552e0033b056bbf885710d9.mp3: Aucun fichier ou dossier de ce type
  sha256sum failed
git-annex: .git/annex/tmp/SHA256E-s4476433--bb954dfe81f3d0906a18e53d02040d1d8f8e78917552e0033b056bbf885710d9.mp3: openBinaryFile: does not exist (No such file or directory)
git-annex: get: 1 failed
Command exited with non-zero status 1
156.09user 39.26system 36:44.62elapsed 8%CPU (0avgtext+0avgdata 44900maxresident)k
8775224inputs+5811728outputs (51major+281689minor)pagefaults 0swaps
mercredi 30 mars 2016, 13:30:36 (UTC-0400)

... in the last step, the external device disappeared and the transfer failed.

After reconnecting the device, I tried to synchronise its content with the content of another device, but that device is gone!

[1013]anarcat@angela:Music1$ git annex info --fast # first notice how the remotes are not the same on the two repositories
repository mode: indirect
trusted repositories: 0
semitrusted repositories: 5
        00000000-0000-0000-0000-000000000001 -- web
        00000000-0000-0000-0000-000000000002 -- bittorrent
        0f9185ea-8462-4230-8cae-462a1ad0df36 -- origin
        45124790-dbb7-4e2e-bc0a-acfb618a01e0 -- anarcat@angela:/media/anarcat/cb39412b-d221-4846-a9dd-cdbabd9958f1/Music
        6f812272-18c8-4346-b68a-f57ae50f657e -- here
untrusted repositories: 0
transfers in progress: none
available local disk space: 4.68 gigabytes (+1 megabyte reserved)
[1014]anarcat@angela:Music$ cd ~/mp3
[1015]anarcat@angela:mp3$ git annex info --fast # here there is a lot more remotes!
repository mode: indirect
trusted repositories: 4
        22921df6-ff75-491c-b5d9-5a2aab33a689 -- anarcat@marcos:/media/anarcat/79884590-6445-4a6f-ae12-050b9a7c1912/mp3
        b7802161-c984-4c9f-8d05-787a29c41cfe -- anarcat@marcos:/srv/mp3 [marcos]
        c2ca4a13-9a5f-461b-a44b-53255ed3e2f9 -- anarcat@desktop008:/srv/musique/anarcat/mp3 [markov]
        f8818d12-9882-4ca5-bc0f-04e987888a8d -- anarcat@marcos:/media/anarcat/green_crypt/mp3/
semitrusted repositories: 8
        00000000-0000-0000-0000-000000000001 -- web
        00000000-0000-0000-0000-000000000002 -- bittorrent
        0f9185ea-8462-4230-8cae-462a1ad0df36 -- anarcat@angela:~/mp3 [here]
        3f6d8082-6f4b-4faa-a3d9-bd5db1891077 -- anarcat@lab-sc.no-ip.org:mp3
        4249a4ea-343a-43a8-9bba-457d2ff87c7d -- rachel@topcrapn:~/Musique/MUSIC/anarcat
        487dda55-d164-4bf1-9d85-66caaa9c0743 -- 300GB hard drive labeled VHS [VHS]
        6f812272-18c8-4346-b68a-f57ae50f657e -- htcones
        f867da6f-78cb-49be-a0db-d1c8e5f53664 -- n900
untrusted repositories: 0
transfers in progress: none
available local disk space: 13.51 gigabytes (+1 megabyte reserved)
[1016]anarcat@angela:mp3$ cd -
/media/anarcat/cb39412b-d221-4846-a9dd-cdbabd9958f1/Music
[1017]anarcat@angela:Music$ git annex find --in f867da6f-78cb-49be-a0db-d1c8e5f53664 --not --in here # trying to sync with the n900 remote
git-annex: there is no available git remote named "f867da6f-78cb-49be-a0db-d1c8e5f53664"
[1018]anarcat@angela:Music1$ git annex sync # maybe some data is missing?
commit  ok
pull origin
ok
push origin
Décompte des objets: 6368, fait.
Delta compression using up to 2 threads.
Compression des objets: 100% (6361/6361), fait.
Écriture des objets: 100% (6368/6368), 693.21 KiB | 565.00 KiB/s, fait.
Total 6368 (delta 5030), reused 11 (delta 3)
To /home/anarcat/mp3
   05681b9..266099a  git-annex -> synced/git-annex
ok
[1019]anarcat@angela:Music$ git annex find --in f867da6f-78cb-49be-a0db-d1c8e5f53664 --not --in here # trying again
git-annex: there is no available git remote named "f867da6f-78cb-49be-a0db-d1c8e5f53664"
[1020]anarcat@angela:Music1$ git annex find --in n900 --not --in here # of course, n900 is not a git remote locally
git-annex: there is no available git remote named "n900"
[1021]anarcat@angela:Music1$ git annex info --fast # and it's still not there
repository mode: indirect
trusted repositories: 0
semitrusted repositories: 5
        00000000-0000-0000-0000-000000000001 -- web
        00000000-0000-0000-0000-000000000002 -- bittorrent
        0f9185ea-8462-4230-8cae-462a1ad0df36 -- origin
        45124790-dbb7-4e2e-bc0a-acfb618a01e0 -- anarcat@angela:/media/anarcat/cb39412b-d221-
        6f812272-18c8-4346-b68a-f57ae50f657e -- here
untrusted repositories: 0
transfers in progress: none
available local disk space: 4.68 gigabytes (+1 megabyte reserved)
[1022]anarcat@angela:Music$ cd -
/home/anarcat/mp3
[1023]anarcat@angela:mp3$ git annex info --fast # worse: it's gone from my main repo!!
repository mode: indirect
trusted repositories: 2
        b7802161-c984-4c9f-8d05-787a29c41cfe -- marcos
        c2ca4a13-9a5f-461b-a44b-53255ed3e2f9 -- markov
semitrusted repositories: 6
        00000000-0000-0000-0000-000000000001 -- web
        00000000-0000-0000-0000-000000000002 -- bittorrent
        0f9185ea-8462-4230-8cae-462a1ad0df36 -- here
        45124790-dbb7-4e2e-bc0a-acfb618a01e0 -- anarcat@angela:/media/anarcat/cb39412b-d221-4846-a9dd-cdbabd9958f1/Music
        487dda55-d164-4bf1-9d85-66caaa9c0743 -- VHS
        6f812272-18c8-4346-b68a-f57ae50f657e -- htcones
untrusted repositories: 0
transfers in progress: none
available local disk space: 13.74 gigabytes (+1 megabyte rese

In my opinion, git-annex shouldn't have lost the following repositories:

    22921df6-ff75-491c-b5d9-5a2aab33a689 -- anarcat@marcos:/media/anarcat/79884590-6445-4a6f-ae12-050b9a7c1912/mp3
    f8818d12-9882-4ca5-bc0f-04e987888a8d -- anarcat@marcos:/media/anarcat/green_crypt/mp3/
    3f6d8082-6f4b-4faa-a3d9-bd5db1891077 -- anarcat@lab-sc.no-ip.org:mp3
    4249a4ea-343a-43a8-9bba-457d2ff87c7d -- rachel@topcrapn:~/Musique/MUSIC/anarcat
    f867da6f-78cb-49be-a0db-d1c8e5f53664 -- n900

Those are repositories that are in the git-annex history, but that don't have git remotes associated with them, for various reasons. I do not believe I have marked any of those as "dead" except maybe 3f6d8082-6f4b-4faa-a3d9-bd5db1891077. f8818d12-9882-4ca5-bc0f-04e987888a8d was used during the weekend to do my backups, so it's definitely not dead.

It is also interesting to note that even though git annex info doesn't know about the remotes, there is still tracking information about all of them (except the 3f one):

$ git cat-file -p git-annex:001/694/SHA256E-s6732474--e084001bc23a90bfd65d9a3fa20b7bf878be6a49fce7e5a9846efeeba8815516.mp3.log
1376877225.866849s 1 b7802161-c984-4c9f-8d05-787a29c41cfe
1378838314.653241s 1 c2ca4a13-9a5f-461b-a44b-53255ed3e2f9
1379790798.215871s 1 0f9185ea-8462-4230-8cae-462a1ad0df36
1391065040.28672s 1 22921df6-ff75-491c-b5d9-5a2aab33a689
1397893686.079999s 1 487dda55-d164-4bf1-9d85-66caaa9c0743
1398657510.376249s 1 4249a4ea-343a-43a8-9bba-457d2ff87c7d
1407479149.838437s 1 f8818d12-9882-4ca5-bc0f-04e987888a8d
1407479149.929843s 1 f8818d12-9882-4ca5-bc0f-04e987888a8d
1407510928.457047s 1 487dda55-d164-4bf1-9d85-66caaa9c0743
1424134721.290026s 1 b7802161-c984-4c9f-8d05-787a29c41cfe
1424227570.153123s 1 487dda55-d164-4bf1-9d85-66caaa9c0743
1445468844.056214s 1 f867da6f-78cb-49be-a0db-d1c8e5f53664
1458775384.454193s 0 6f812272-18c8-4346-b68a-f57ae50f657e

it's a mystery to me why that stuff disappeared from git-annex info. it's especially confusing since some commands seem to recognize there was a remote there:

$ git annex enableremote f867da6f-78cb-49be-a0db-d1c8e5f53664
git-annex: Unknown special remote.
        f867da6f-78cb-49be-a0db-d1c8e5f53664 -- n900

Notice how n900 was shown here: that metadata obviously is somewhere! The uuid.log file is obviously damaged:

[1036]anarcat@angela:mp31$ git cat-file -p git-annex:uuid.log
45124790-dbb7-4e2e-bc0a-acfb618a01e0 anarcat@angela:/media/anarcat/cb39412b-d221-4846-a9dd-cdbabd9958f1/Music timestamp=1459356223.537195s

... and it clearly looks like the file was damaged on that new repo:

*   266099a N (synced/git-annex, git-annex) continuing transition ["forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes"] (il y a 75 minutes) <Antoine Beaupré>
|\
* | 298cc10 N (htcones/synced/git-annex) continuing transition ["forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes","forget git history","forget dead remotes"] (il y a 13 jours) <Antoine Beaupré>| |
| | diff --git a/uuid.log b/uuid.log
| | index 656b369..a730ad0 100644
| | --- a/uuid.log
| | +++ b/uuid.log
| | @@ -1,14 +1,9 @@
| |  0f9185ea-8462-4230-8cae-462a1ad0df36 anarcat@angela:~/mp3 timestamp=1376882226.164478s
| |  22921df6-ff75-491c-b5d9-5a2aab33a689 anarcat@marcos:/media/anarcat/79884590-6445-4a6f-ae12-050b9a7c1912/mp3 timestamp=1397741440.125973s
| | -2fec390f-f21b-4293-be50-f219be10ea02 anarcat@marcos:/media/anarcat/Nokia N900/.sounds/mp3-test timestamp=1444709804.587901s
| |  3f6d8082-6f4b-4faa-a3d9-bd5db1891077 anarcat@lab-sc.no-ip.org:mp3 timestamp=1397882243.602438s
| | -3f6d8082-6f4b-4faa-a3d9-bd5db1891077 anarcat@serveur-maison:~/mp3 timestamp=1397870776.162703s
| |  4249a4ea-343a-43a8-9bba-457d2ff87c7d rachel@topcrapn:~/Musique/MUSIC/anarcat timestamp=1398631775.545666s
| |  487dda55-d164-4bf1-9d85-66caaa9c0743 300GB hard drive labeled VHS timestamp=1397880144.616515s
| | -509d1cd7-ecd1-4e2f-803d-575d9c56a5bc anarcat@angela:/media/anarcat/Nokia N900/.sounds/mp3 timestamp=1444483581.960103s
| |  b7802161-c984-4c9f-8d05-787a29c41cfe anarcat@marcos:/srv/mp3 timestamp=1376874943.951103s
| |  c2ca4a13-9a5f-461b-a44b-53255ed3e2f9 anarcat@desktop008:/srv/musique/anarcat/mp3 timestamp=1410989161.237514s
| | -c2ca4a13-9a5f-461b-a44b-53255ed3e2f9 anarcat@desktop008:/srv/musique/anarcat/musique/mp3 timestamp=1384884883.106166s
| | -f641e18f-7cb1-49ba-abe1-7544b435b67f anarcat@marcos:/media/anarcat/Nokia N900/.sounds/mp3-init timestamp=1444708760.468268s
| |  f867da6f-78cb-49be-a0db-d1c8e5f53664 n900 timestamp=1445438785.796624s
| |  f8818d12-9882-4ca5-bc0f-04e987888a8d anarcat@marcos:/media/anarcat/green_crypt/mp3/ timestamp=1407470841.967597s

So i guess i could manually edit that uuid.log file to restore my metadata, but i'm puzzled as to where my data went or how!

Workaround

The workaround is to, of course, restore a known sane uuid.log:

[1048]anarcat@angela:~128$ git clone -b git-annex mp3 mp3.annex
Clonage dans 'mp3.annex'...
fait.
Extraction des fichiers: 100% (32234/32234), fait.
[1049]anarcat@angela:~$ cd mp3.annex/
[1067]anarcat@angela:mp3.annex$ git co dfe1b77 uuid.log
[1068]anarcat@angela:mp3.annex$ git status
Sur la branche git-annex
Votre branche est à jour avec 'origin/git-annex'.
Modifications qui seront validées :
  (utilisez "git reset HEAD <fichier>..." pour désindexer)

        modifié :         uuid.log

[1069]anarcat@angela:mp3.annex$ git commit -m"restore broken uuid.log"
[git-annex 9628f3b] restore broken uuid.log
 1 file changed, 14 insertions(+), 1 deletion(-)
 rewrite uuid.log (100%)
[1070]anarcat@angela:mp3.annex$ git push
Décompte des objets: 2, fait.
Delta compression using up to 2 threads.
Compression des objets: 100% (2/2), fait.
Écriture des objets: 100% (2/2), 262 bytes | 0 bytes/s, fait.
Total 2 (delta 1), reused 0 (delta 0)
To /home/anarcat/mp3
   266099a..9628f3b  git-annex -> git-annex
[1071]anarcat@angela:mp3.annex$ cd -
/home/anarcat
[1072]anarcat@angela:~$ git ^C
[1072]anarcat@angela:~130$ cd -
/home/anarcat/mp3.annex
[1072]anarcat@angela:mp3.annex$ cd ../mp3
[1073]anarcat@angela:mp3$ git annex merge
merge git-annex ok
[1074]anarcat@angela:mp3$ git annex info --fast
repository mode: indirect
trusted repositories: 4
        22921df6-ff75-491c-b5d9-5a2aab33a689 -- anarcat@marcos:/media/anarcat/79884590-6445-4a6f-ae12-050b9a7c1912/mp3
        b7802161-c984-4c9f-8d05-787a29c41cfe -- anarcat@marcos:/srv/mp3 [marcos]
        c2ca4a13-9a5f-461b-a44b-53255ed3e2f9 -- anarcat@desktop008:/srv/musique/anarcat/mp3 [markov]
        f8818d12-9882-4ca5-bc0f-04e987888a8d -- anarcat@marcos:/media/anarcat/green_crypt/mp3/
semitrusted repositories: 8
        00000000-0000-0000-0000-000000000001 -- web
        00000000-0000-0000-0000-000000000002 -- bittorrent
        0f9185ea-8462-4230-8cae-462a1ad0df36 -- anarcat@angela:~/mp3 [here]
        3f6d8082-6f4b-4faa-a3d9-bd5db1891077 -- anarcat@lab-sc.no-ip.org:mp3
        4249a4ea-343a-43a8-9bba-457d2ff87c7d -- rachel@topcrapn:~/Musique/MUSIC/anarcat
        487dda55-d164-4bf1-9d85-66caaa9c0743 -- 300GB hard drive labeled VHS [VHS]
        6f812272-18c8-4346-b68a-f57ae50f657e -- htcones
        f867da6f-78cb-49be-a0db-d1c8e5f53664 -- n900
untrusted repositories: 0
transfers in progress: none
available local disk space: 13.44 gigabytes (+1 megabyte reserved)

But it seems to me there is a weird interaction between transitions and fresh new git repo syncs... that could be fixed...

Have you had any luck using git-annex before? (Sometimes we get tired of reading bug reports all day and a lil' positive end note does wonders)

Yes! Git-annex works generally well and, even though i often report bugs here, i am still quite happy with it. :) --anarcat