{"action":"created","issue":{"url":"https://api.github.com/repos/bigdatagenomics/adam/issues/1055","repository_url":"https://api.github.com/repos/bigdatagenomics/adam","labels_url":"https://api.github.com/repos/bigdatagenomics/adam/issues/1055/labels{/name}","comments_url":"https://api.github.com/repos/bigdatagenomics/adam/issues/1055/comments","events_url":"https://api.github.com/repos/bigdatagenomics/adam/issues/1055/events","html_url":"https://github.com/bigdatagenomics/adam/pull/1055","id":162292742,"number":1055,"title":"Documentation cleanup and minor refactor on the consensus package.","user":{"login":"fnothaft","id":3752466,"avatar_url":"https://avatars.githubusercontent.com/u/3752466?v=3","gravatar_id":"","url":"https://api.github.com/users/fnothaft","html_url":"https://github.com/fnothaft","followers_url":"https://api.github.com/users/fnothaft/followers","following_url":"https://api.github.com/users/fnothaft/following{/other_user}","gists_url":"https://api.github.com/users/fnothaft/gists{/gist_id}","starred_url":"https://api.github.com/users/fnothaft/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/fnothaft/subscriptions","organizations_url":"https://api.github.com/users/fnothaft/orgs","repos_url":"https://api.github.com/users/fnothaft/repos","events_url":"https://api.github.com/users/fnothaft/events{/privacy}","received_events_url":"https://api.github.com/users/fnothaft/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":3,"created_at":"2016-06-25T18:02:17Z","updated_at":"2016-07-04T17:02:26Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/bigdatagenomics/adam/pulls/1055","html_url":"https://github.com/bigdatagenomics/adam/pull/1055","diff_url":"https://github.com/bigdatagenomics/adam/pull/1055.diff","patch_url":"https://github.com/bigdatagenomics/adam/pull/1055.patch"},"body":"* Moved `org.bdgenomics.adam.models.Concensus` to `org.bdgenomics.adam.algorithms.consensus.Consensus`.\r\n* Made all classes in `org.bdgenomics.adam.algorithms.consensus` package private to `org.bdgenomics.adam`, along with `IndelTable` and `NormalizationUtils`.\r\n* Fleshed out documentation for all classes and methods in `org.bdgenomics.adam.algorithms.consensus.Consensus`.\r\n* Refactored `Consensus` method to use `ReferenceRegion` instead of `start`/`end` to check overlap bounds. This led to the discovery of an off by one error in `ConsensusSuite`, which was then fixed."},"comment":{"url":"https://api.github.com/repos/bigdatagenomics/adam/issues/comments/230328317","html_url":"https://github.com/bigdatagenomics/adam/pull/1055#issuecomment-230328317","issue_url":"https://api.github.com/repos/bigdatagenomics/adam/issues/1055","id":230328317,"user":{"login":"fnothaft","id":3752466,"avatar_url":"https://avatars.githubusercontent.com/u/3752466?v=3","gravatar_id":"","url":"https://api.github.com/users/fnothaft","html_url":"https://github.com/fnothaft","followers_url":"https://api.github.com/users/fnothaft/followers","following_url":"https://api.github.com/users/fnothaft/following{/other_user}","gists_url":"https://api.github.com/users/fnothaft/gists{/gist_id}","starred_url":"https://api.github.com/users/fnothaft/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/fnothaft/subscriptions","organizations_url":"https://api.github.com/users/fnothaft/orgs","repos_url":"https://api.github.com/users/fnothaft/repos","events_url":"https://api.github.com/users/fnothaft/events{/privacy}","received_events_url":"https://api.github.com/users/fnothaft/received_events","type":"User","site_admin":false},"created_at":"2016-07-04T17:02:26Z","updated_at":"2016-07-04T17:02:26Z","body":"Addressed typos and rebased."}}
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