{"action":"created","comment":{"url":"https://api.github.com/repos/broadinstitute/gatk-protected/pulls/comments/66143789","id":66143789,"diff_hunk":"@@ -0,0 +1,51 @@\n+package org.broadinstitute.hellbender.tools.coveragemodel;\n+\n+import org.apache.commons.math3.distribution.NormalDistribution;\n+import org.apache.commons.math3.random.RandomGenerator;\n+import org.broadinstitute.hellbender.tools.exome.Target;\n+import org.broadinstitute.hellbender.utils.hmm.CopyNumberTriState;\n+\n+/**\n+ * Implements the {@link TargetLikelihoodCalculator} interface for the original XHMM-based germline model.\n+ *\n+ * @author David Benjamin &lt;davidben@broadinstitute.org&gt;\n+ */\n+public class XHMMTargetLikelihoodCalculator implements TargetLikelihoodCalculator {","path":"src/main/java/org/broadinstitute/hellbender/tools/coveragemodel/XHMMTargetLikelihoodCalculator.java","position":13,"original_position":13,"commit_id":"c4ab595e55a9351748b4924c7afaf4b53b85ebbe","original_commit_id":"c4ab595e55a9351748b4924c7afaf4b53b85ebbe","user":{"login":"samuelklee","id":11076296,"avatar_url":"https://avatars.githubusercontent.com/u/11076296?v=3","gravatar_id":"","url":"https://api.github.com/users/samuelklee","html_url":"https://github.com/samuelklee","followers_url":"https://api.github.com/users/samuelklee/followers","following_url":"https://api.github.com/users/samuelklee/following{/other_user}","gists_url":"https://api.github.com/users/samuelklee/gists{/gist_id}","starred_url":"https://api.github.com/users/samuelklee/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/samuelklee/subscriptions","organizations_url":"https://api.github.com/users/samuelklee/orgs","repos_url":"https://api.github.com/users/samuelklee/repos","events_url":"https://api.github.com/users/samuelklee/events{/privacy}","received_events_url":"https://api.github.com/users/samuelklee/received_events","type":"User","site_admin":false},"body":"oops, i forgot that this class can be `final` if desired","created_at":"2016-06-07T20:14:06Z","updated_at":"2016-06-07T20:14:06Z","html_url":"https://github.com/broadinstitute/gatk-protected/pull/536#discussion_r66143789","pull_request_url":"https://api.github.com/repos/broadinstitute/gatk-protected/pulls/536","_links":{"self":{"href":"https://api.github.com/repos/broadinstitute/gatk-protected/pulls/comments/66143789"},"html":{"href":"https://github.com/broadinstitute/gatk-protected/pull/536#discussion_r66143789"},"pull_request":{"href":"https://api.github.com/repos/broadinstitute/gatk-protected/pulls/536"}}},"pull_request":{"url":"https://api.github.com/repos/broadinstitute/gatk-protected/pulls/536","id":72452717,"html_url":"https://github.com/broadinstitute/gatk-protected/pull/536","diff_url":"https://github.com/broadinstitute/gatk-protected/pull/536.diff","patch_url":"https://github.com/broadinstitute/gatk-protected/pull/536.patch","issue_url":"https://api.github.com/repos/broadinstitute/gatk-protected/issues/536","number":536,"state":"open","locked":false,"title":"Interface for coverage likelihoods.  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