{"action":"created","issue":{"url":"https://api.github.com/repos/TGAC/KAT/issues/20","labels_url":"https://api.github.com/repos/TGAC/KAT/issues/20/labels{/name}","comments_url":"https://api.github.com/repos/TGAC/KAT/issues/20/comments","events_url":"https://api.github.com/repos/TGAC/KAT/issues/20/events","html_url":"https://github.com/TGAC/KAT/issues/20","id":116295998,"number":20,"title":"kat-sect-counts.cvg - terminal kmers missing","user":{"login":"thackl","id":9363087,"avatar_url":"https://avatars.githubusercontent.com/u/9363087?v=3","gravatar_id":"","url":"https://api.github.com/users/thackl","html_url":"https://github.com/thackl","followers_url":"https://api.github.com/users/thackl/followers","following_url":"https://api.github.com/users/thackl/following{/other_user}","gists_url":"https://api.github.com/users/thackl/gists{/gist_id}","starred_url":"https://api.github.com/users/thackl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/thackl/subscriptions","organizations_url":"https://api.github.com/users/thackl/orgs","repos_url":"https://api.github.com/users/thackl/repos","events_url":"https://api.github.com/users/thackl/events{/privacy}","received_events_url":"https://api.github.com/users/thackl/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":4,"created_at":"2015-11-11T09:27:35Z","updated_at":"2015-11-11T11:13:16Z","closed_at":null,"body":"Hi Dan,\r\n\r\nI'm currently working with sects per sequence coverage count files and noticed that each record is 8 counts short at the end. I'm using a 19mer hash, I have not tested, if the number changes with other kmer sizes."},"comment":{"url":"https://api.github.com/repos/TGAC/KAT/issues/comments/155738486","html_url":"https://github.com/TGAC/KAT/issues/20#issuecomment-155738486","issue_url":"https://api.github.com/repos/TGAC/KAT/issues/20","id":155738486,"user":{"login":"thackl","id":9363087,"avatar_url":"https://avatars.githubusercontent.com/u/9363087?v=3","gravatar_id":"","url":"https://api.github.com/users/thackl","html_url":"https://github.com/thackl","followers_url":"https://api.github.com/users/thackl/followers","following_url":"https://api.github.com/users/thackl/following{/other_user}","gists_url":"https://api.github.com/users/thackl/gists{/gist_id}","starred_url":"https://api.github.com/users/thackl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/thackl/subscriptions","organizations_url":"https://api.github.com/users/thackl/orgs","repos_url":"https://api.github.com/users/thackl/repos","events_url":"https://api.github.com/users/thackl/events{/privacy}","received_events_url":"https://api.github.com/users/thackl/received_events","type":"User","site_admin":false},"created_at":"2015-11-11T11:13:16Z","updated_at":"2015-11-11T11:13:16Z","body":"I think I found the problem. I work with an previously created hashes:\r\n\r\n`~/software/kat/bin/kat sect -m 11 -o test_sect_hash test.fa test.jf` works, but\r\n`~/software/kat/bin/kat sect -o test_sect_hash test.fa test.jf` does not. \r\n\r\nLooks like sect defaults to a 27mer kmer size for computation instead of getting the size from the hash."}}