{"action":"opened","issue":{"url":"https://api.github.com/repos/samtools/bcftools/issues/500","repository_url":"https://api.github.com/repos/samtools/bcftools","labels_url":"https://api.github.com/repos/samtools/bcftools/issues/500/labels{/name}","comments_url":"https://api.github.com/repos/samtools/bcftools/issues/500/comments","events_url":"https://api.github.com/repos/samtools/bcftools/issues/500/events","html_url":"https://github.com/samtools/bcftools/issues/500","id":184311313,"number":500,"title":"convert --haplegendsample prints sex as 2 (female) for all samples","user":{"login":"tommycarstensen","id":1582232,"avatar_url":"https://avatars.githubusercontent.com/u/1582232?v=3","gravatar_id":"","url":"https://api.github.com/users/tommycarstensen","html_url":"https://github.com/tommycarstensen","followers_url":"https://api.github.com/users/tommycarstensen/followers","following_url":"https://api.github.com/users/tommycarstensen/following{/other_user}","gists_url":"https://api.github.com/users/tommycarstensen/gists{/gist_id}","starred_url":"https://api.github.com/users/tommycarstensen/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tommycarstensen/subscriptions","organizations_url":"https://api.github.com/users/tommycarstensen/orgs","repos_url":"https://api.github.com/users/tommycarstensen/repos","events_url":"https://api.github.com/users/tommycarstensen/events{/privacy}","received_events_url":"https://api.github.com/users/tommycarstensen/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2016-10-20T18:53:55Z","updated_at":"2016-10-20T18:53:55Z","closed_at":null,"body":"I ran bcftools convert --haplegendsample. It prints the following header:\r\n`sample population group sex`\r\n\r\nBut the `sex` is `2` for all samples. Would it be possible to either supply a file with gender information or not have the sex printed at all? Thanks."}}
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