{"action":"created","issue":{"url":"https://api.github.com/repos/soedinglab/hh-suite/issues/22","repository_url":"https://api.github.com/repos/soedinglab/hh-suite","labels_url":"https://api.github.com/repos/soedinglab/hh-suite/issues/22/labels{/name}","comments_url":"https://api.github.com/repos/soedinglab/hh-suite/issues/22/comments","events_url":"https://api.github.com/repos/soedinglab/hh-suite/issues/22/events","html_url":"https://github.com/soedinglab/hh-suite/issues/22","id":184190932,"number":22,"title":"cstranslate questions [v3.0.0]","user":{"login":"fslee62","id":4173879,"avatar_url":"https://avatars.githubusercontent.com/u/4173879?v=3","gravatar_id":"","url":"https://api.github.com/users/fslee62","html_url":"https://github.com/fslee62","followers_url":"https://api.github.com/users/fslee62/followers","following_url":"https://api.github.com/users/fslee62/following{/other_user}","gists_url":"https://api.github.com/users/fslee62/gists{/gist_id}","starred_url":"https://api.github.com/users/fslee62/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/fslee62/subscriptions","organizations_url":"https://api.github.com/users/fslee62/orgs","repos_url":"https://api.github.com/users/fslee62/repos","events_url":"https://api.github.com/users/fslee62/events{/privacy}","received_events_url":"https://api.github.com/users/fslee62/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":4,"created_at":"2016-10-20T10:23:42Z","updated_at":"2016-10-21T14:07:55Z","closed_at":null,"body":"hello,\r\ni was using hhsuite2 with database files built by people before me. all was well. lately, i have been trying to update to version 3. i am able to make packed files from a3m's and hhm's using ffindex_build. however, i have trouble making the corresponding <db>_cs219 packed file and index using cstranslate.\r\n\r\n(1) i used existing a3m's and hhm's (made from version 2) to make the <db>_cs219 ffdata and ffindex files and i got errors like:\r\n\r\nProcessing entry: 4jdv_L.a3m\r\nCould not read entry: 4jdv_L.a3m, Message: Sequence 2 has 0 match columns but should have 103!\r\n\r\nwhat may have gone wrong here? i also tried using freshly made a3m's and hhm's (from v3) to make the cs219 files. i saw similarly errors. perhaps these a3m's and hhm's were not prepared properly?\r\n\r\n(2) do hhsuite v3 hhsearch and hhblits always require the corresponding cs219 db files to run? seemed so from my very limited experience with v3. i don't recall version 2 needing the cs219 files. simplistically speaking, what is being added here?\r\n\r\nwarm regards,\r\nfred\r\n"},"comment":{"url":"https://api.github.com/repos/soedinglab/hh-suite/issues/comments/255386653","html_url":"https://github.com/soedinglab/hh-suite/issues/22#issuecomment-255386653","issue_url":"https://api.github.com/repos/soedinglab/hh-suite/issues/22","id":255386653,"user":{"login":"meiermark","id":12233941,"avatar_url":"https://avatars.githubusercontent.com/u/12233941?v=3","gravatar_id":"","url":"https://api.github.com/users/meiermark","html_url":"https://github.com/meiermark","followers_url":"https://api.github.com/users/meiermark/followers","following_url":"https://api.github.com/users/meiermark/following{/other_user}","gists_url":"https://api.github.com/users/meiermark/gists{/gist_id}","starred_url":"https://api.github.com/users/meiermark/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/meiermark/subscriptions","organizations_url":"https://api.github.com/users/meiermark/orgs","repos_url":"https://api.github.com/users/meiermark/repos","events_url":"https://api.github.com/users/meiermark/events{/privacy}","received_events_url":"https://api.github.com/users/meiermark/received_events","type":"User","site_admin":false},"created_at":"2016-10-21T14:07:55Z","updated_at":"2016-10-21T14:07:55Z","body":"In the recent commit, cstranslate should now work with a3m's that include secondary structure annotations.\r\n"}}
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