bug report for checkpresentkey
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Ilya_Shlyakhter
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84
doc/bugs/checkpresentkey_wrongly_reports_key_absense.mdwn
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doc/bugs/checkpresentkey_wrongly_reports_key_absense.mdwn
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(master_env_v082_py36) 00:55 [ilya-work] $ git annex checkpresentkey MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam 19c05b2b-b155-4ac3-a9e7-fa7c8d67e430
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(master_env_v082_py36) 00:55 [ilya-work] $ echo $?
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0
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(master_env_v082_py36) 00:55 [ilya-work] $ git annex checkpresentkey MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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(master_env_v082_py36) 00:55 [ilya-work] $ echo $?
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1
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(master_env_v082_py36) 00:55 [ilya-work] $ git annex whereis --key MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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whereis MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam (1 copy)
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19c05b2b-b155-4ac3-a9e7-fa7c8d67e430 -- [dnanexus]
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dnanexus: dx://file-FBf5qFj06KBfVygf2pz3pXPQ/1375.cleaned.bam
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ok
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(master_env_v082_py36) 00:57 [ilya-work] $ git annex readpresentkey MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam 19c05b2b-b155-4ac3-a9e7-fa7c8d67e430
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(master_env_v082_py36) 00:57 [ilya-work] $ echo $?
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0
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(master_env_v082_py36) 00:57 [ilya-work] $ git annex --verbose --debug checkpresentkey MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam 19c05b2b-b155-4ac3-a9e7-fa7c8d67e430
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[2019-02-14 00:58:32.575463] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","show-ref","git-annex"]
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[2019-02-14 00:58:32.583744] process done ExitSuccess
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[2019-02-14 00:58:32.583809] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","show-ref","--hash","refs/heads/git-annex"]
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[2019-02-14 00:58:32.592023] process done ExitSuccess
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[2019-02-14 00:58:32.592656] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..5dde7d61a8183a50acf98e0847650df20547a0c5","--pretty=%H","-n1"]
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[2019-02-14 00:58:32.608022] process done ExitSuccess
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[2019-02-14 00:58:32.608086] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..aee29af11409cba48bb52ef5893249f5c964180c","--pretty=%H","-n1"]
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[2019-02-14 00:58:32.830193] process done ExitSuccess
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[2019-02-14 00:58:32.830306] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..818a062162bbac26adfd3d30f5ab076d3d0b77e0","--pretty=%H","-n1"]
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[2019-02-14 00:58:32.844831] process done ExitSuccess
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[2019-02-14 00:58:32.84522] chat: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","cat-file","--batch"]
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[2019-02-14 00:58:32.845628] chat: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","cat-file","--batch-check=%(objectname) %(objecttype) %(objectsize)"]
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[2019-02-14 00:58:32.860656] read: git ["config","--null","--list"]
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[2019-02-14 00:58:32.874021] process done ExitSuccess
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[2019-02-14 00:58:32.881706] chat: /data/ilya-work/viral-ngs/is-1808252024-add-benchmarks/tools/git-annex-remotes/git-annex-remote-dnanexus []
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[2019-02-14 00:58:32.924132] git-annex-remote-dnanexus[1] --> VERSION 1
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[2019-02-14 00:58:32.924215] git-annex-remote-dnanexus[1] <-- EXTENSIONS INFO
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[2019-02-14 00:58:32.924288] git-annex-remote-dnanexus[1] --> EXTENSIONS
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[2019-02-14 00:58:32.924322] git-annex-remote-dnanexus[1] <-- PREPARE
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[2019-02-14 00:58:32.924372] git-annex-remote-dnanexus[1] --> PREPARE-SUCCESS
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[2019-02-14 00:58:32.9244] git-annex-remote-dnanexus[1] <-- CHECKPRESENT MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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[2019-02-14 00:58:32.924461] git-annex-remote-dnanexus[1] --> DEBUG CHECKING PRESENCE OF KEY MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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[2019-02-14 00:58:32.924491] CHECKING PRESENCE OF KEY MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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[2019-02-14 00:58:32.924512] git-annex-remote-dnanexus[1] --> GETURLS MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam dx://
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[2019-02-14 00:58:32.925707] git-annex-remote-dnanexus[1] <-- VALUE dx://file-FBf5qFj06KBfVygf2pz3pXPQ/1375.cleaned.bam
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[2019-02-14 00:58:32.925755] git-annex-remote-dnanexus[1] <-- VALUE
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[2019-02-14 00:58:33.399433] git-annex-remote-dnanexus[1] --> CHECKPRESENT-SUCCESS MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995.bam
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(master_env_v082_py36) 00:58 [ilya-work] $
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-(master_env_v082_py36) 00:58 [ilya-work] $ git annex --verbose --debug checkpresentkey MD5E-s622177--a8c1aebb39d2093b08ce81a13661a995\
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.bam
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[2019-02-14 01:00:22.921333] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","show-ref","git-annex"]
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[2019-02-14 01:00:22.929444] process done ExitSuccess
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[2019-02-14 01:00:22.929505] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","show-ref","--hash","refs/heads/git-ann\
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ex"]
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[2019-02-14 01:00:22.937493] process done ExitSuccess
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[2019-02-14 01:00:22.938154] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..5dde7d61a8\
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183a50acf98e0847650df20547a0c5","--pretty=%H","-n1"]
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[2019-02-14 01:00:22.952747] process done ExitSuccess
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[2019-02-14 01:00:22.952809] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..aee29af114\
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09cba48bb52ef5893249f5c964180c","--pretty=%H","-n1"]
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[2019-02-14 01:00:23.174093] process done ExitSuccess
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[2019-02-14 01:00:23.174196] read: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","log","refs/heads/git-annex..818a062162\
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bbac26adfd3d30f5ab076d3d0b77e0","--pretty=%H","-n1"]
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[2019-02-14 01:00:23.189329] process done ExitSuccess
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[2019-02-14 01:00:23.189644] chat: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","cat-file","--batch"]
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[2019-02-14 01:00:23.189965] chat: git ["--git-dir=.git","--work-tree=.","--literal-pathspecs","cat-file","--batch-check=%(objectname)\
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%(objecttype) %(objectsize)"]
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[2019-02-14 01:00:23.204081] read: git ["config","--null","--list"]
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[2019-02-14 01:00:23.21793] process done ExitSuccess
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(master_env_v082_py36) 01:00 [ilya-work] $ git annex version
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git-annex version: 7.20181211-g1cdb7a2
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build flags: Assistant Webapp Pairing S3(multipartupload)(storageclasses) WebDAV Inotify TorrentParser MagicMime Feeds Testsuite
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dependency versions: aws-0.20 bloomfilter-2.0.1.0 cryptonite-0.25 DAV-1.3.2 feed-1.0.0.0 ghc-8.2.2 http-client-0.5.13.1 persistent-sql\
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ite-2.8.1.2 torrent-10000.1.1 uuid-1.3.13 yesod-1.6.0
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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_2\
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24 SHA3_384E SHA3_384 SKEIN256E SKEIN256 SKEIN512E SKEIN512 BLAKE2B256E BLAKE2B256 BLAKE2B512E BLAKE2B512 BLAKE2B160E BLAKE2B160 BLAKE\
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2B224E BLAKE2B224 BLAKE2B384E BLAKE2B384 BLAKE2S256E BLAKE2S256 BLAKE2S160E BLAKE2S160 BLAKE2S224E BLAKE2S224 BLAKE2SP256E BLAKE2SP256\
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BLAKE2SP224E BLAKE2SP224 SHA1E SHA1 MD5E MD5 WORM URL
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remote types: git gcrypt p2p S3 bup directory rsync web bittorrent webdav adb tahoe glacier ddar hook external
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operating system: linux x86_64
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supported repository versions: 5 7
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upgrade supported from repository versions: 0 1 2 3 4 5 6
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local repository version: 5
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Linux ip-172-31-85-193 4.14.97-74.72.amzn1.x86_64 #1 SMP Tue Feb 5 20:59:30 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux
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