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### Please describe the problem.
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I have a V6 annex in adjusted branch with a submodule, which also is a V6 annex in adjusted branch.
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There staged changes in the superproject, while the submodule is clean. Calling git-annex-sync in the superproject now leads to:
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[[!format sh """
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% git annex sync
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commit (recording state in git...)
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[adjusted/master(unlocked) 3c8d350] git-annex in me@mycomputer:/tmp/datalad_temp_test_AnnexRepo_statusGmqM5E
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4 files changed, 4 insertions(+), 2 deletions(-)
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create mode 100644 fifth
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create mode 100644 sub/third
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ok
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fatal: entry 'submod' object type (blob) doesn't match mode type (commit)
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git-annex: user error (git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","mktree","--batch","-z"] exited 128)
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failed
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git-annex: sync: 1 failed
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"""]]
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### What steps will reproduce the problem?
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Sadly I wasn't able to reproduce it outside the datalad test it is happening in.
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I will provide the steps to achieve that situation, whenever I figured them out.
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But may be just the error message is sufficient to address the problem ...
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### What version of git-annex are you using? On what operating system?
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[[!format sh """
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% git annex version
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git-annex version: 6.20170307+gitg24ade8a25-1~ndall+1
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build flags: Assistant Webapp Pairing Testsuite S3(multipartupload)(storageclasses) WebDAV Inotify DBus DesktopNotify ConcurrentOutput TorrentParser MagicMime Feeds Quvi
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key/value backends: SHA256E SHA256 SHA512E SHA512 SHA224E SHA224 SHA384E SHA384 SHA3_256E SHA3_256 SHA3_512E SHA3_512 SHA3_224E SHA3_224 SHA3_384E SHA3_384 SKEIN256E SKEIN256 SKEIN512E SKEIN512 SHA1E SHA1 MD5E MD5 WORM URL
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remote types: git gcrypt p2p S3 bup directory rsync web bittorrent webdav tahoe glacier ddar hook external
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local repository version: 6
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supported repository versions: 3 5 6
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upgrade supported from repository
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"""]]
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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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# 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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[[ben]]
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