removed
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t.z.mates
admin
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### Please describe the problem.
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I've noticed that adding a modified file to a version 6 repo will throw a number of errors if 'git annex add' is executed three or more directories deep from the git directory.
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Though it throws a number of errors, it seems the file is still added normally.
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I have also experienced a problem whereby adding a file will replace it with its key (as if I had run 'git annex drop').
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I'm not sure if that problem is related.
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### What steps will reproduce the problem?
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In order to cause the exception, a file already in the repo has to be unlocked, edited, and re-added; this re-adding must take place from three levels below the git directory.
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Here is a minimal working example:
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git init
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git annex init --version=6
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mkdir -p 1/2/3
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touch 1/2/3/foo
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git annex add 1/2/3/foo
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git annex sync
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git annex unlock 1/2/3/foo
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echo "bar" >> 1/2/3/foo
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cd 1/2/3
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git annex add foo
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Specifically, trying to run 'git annex add foo' will result in the following errors being thrown:
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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git-annex: git check-attr EOF: user error
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git-annex: smudge: 1 failed
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error: external filter git-annex smudge --clean %f failed 1
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error: external filter git-annex smudge --clean %f failed
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add foo ok
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(recording state in git...)
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### What version of git-annex are you using? On what operating system?
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I'm currently running version 6.20160720-g9f0428e on Arch Linux (x86), though I've experienced this problem since at least February.
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### Please provide any additional information below.
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[[!format sh """
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# If you can, paste a complete transcript of the problem occurring here.
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# If the problem is with the git-annex assistant, paste in .git/annex/daemon.log
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$ git init; git annex init --version=6
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Initialized empty Git repository in /mnt/.git/
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init ok
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(recording state in git...)
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$ mkdir -p 1/2/3
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$ touch 1/2/3/foo
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$ git annex add 1/2/3/foo
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add 1/2/3/foo ok
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(recording state in git...)
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$ git annex sync
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commit
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[master (root-commit) 25e1676] git-annex in
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:/mntt
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1 file changed, 1 insertion(+)
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create mode 120000 1/2/3/foo
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ok
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$ git annex unlock 1/2/3/foo
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unlock 1/2/3/foo ok
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(recording state in git...)
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$ echo "bar" >> 1/2/3/foo
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$ cd 1/2/3
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$ git annex add foo --debug
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[2016-08-23 14:47:21.764271] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","ls-files","--others","--exclude-standard","-z","--","foo"]
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[2016-08-23 14:47:21.766481] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","ls-files","--modified","-z","--","foo"]
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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fatal: '../1/2/3/foo' is outside repository
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git-annex: git check-attr EOF: user error
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git-annex: smudge: 1 failed
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error: external filter git-annex smudge --clean %f failed 1
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error: external filter git-annex smudge --clean %f failed
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[2016-08-23 14:47:21.806128] chat: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","check-attr","-z","--stdin","annex.backend","annex.numcopies","annex.largefiles","--"]
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[2016-08-23 14:47:21.806624] read: git ["--version"]
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[2016-08-23 14:47:21.809352] process done ExitSuccess
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[2016-08-23 14:47:21.813764] chat: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","cat-file","--batch"]
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add foo [2016-08-23 14:47:21.818268] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","symbolic-ref","-q","HEAD"]
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[2016-08-23 14:47:21.82027] process done ExitSuccess
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[2016-08-23 14:47:21.822862] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","show-ref","git-annex"]
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[2016-08-23 14:47:21.825102] process done ExitSuccess
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[2016-08-23 14:47:21.825233] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","show-ref","--hash","refs/heads/git-annex"]
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[2016-08-23 14:47:21.82715] process done ExitSuccess
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[2016-08-23 14:47:21.828549] chat: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","cat-file","--batch"]
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ok
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(recording state in git...)
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[2016-08-23 14:47:21.832848] feed: xargs
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["-0","git","--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","add","--"]
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[2016-08-23 14:47:21.836822] process done ExitSuccess
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[2016-08-23 14:47:21.837518] chat: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","hash-object","-w","--stdin-paths","--no-filters"]
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[2016-08-23 14:47:21.838061] feed: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","update-index","-z","--index-info"]
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[2016-08-23 14:47:21.843259] process done ExitSuccess
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[2016-08-23 14:47:21.843444] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","show-ref","--hash","refs/heads/git-annex"]
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[2016-08-23 14:47:21.847287] process done ExitSuccess
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[2016-08-23 14:47:21.847602] read: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","write-tree"]
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[2016-08-23 14:47:21.85106] process done ExitSuccess
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[2016-08-23 14:47:21.851221] chat: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","commit-tree","b4a158d15da89e28ef5c2f1782c5b1e3c6f1176c","--no-gpg-sign","-p","refs/heads/git-annex"]
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[2016-08-23 14:47:21.85892] process done ExitSuccess
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[2016-08-23 14:47:21.85907] call: git
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["--git-dir=../../../.git","--work-tree=../../..","--literal-pathspecs","update-ref","refs/heads/git-annex","68381bac2ba0f559d37214c30b5e41a404b9c98b"]
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[2016-08-23 14:47:21.861978] process done ExitSuccess
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# End of transcript or log.
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"""]]
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### 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)
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I've been happily using git-annex on my laptop and server for almost a year; it's saved me a great deal of time and effort.
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Thanks for all your work!
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