{"action":"created","comment":{"url":"https://api.github.com/repos/broadinstitute/gatk/pulls/comments/64620910","id":64620910,"diff_hunk":"@@ -118,7 +109,7 @@ public static GenotypesContext subsetDiploidAlleles(final VariantContext vc,\n         if (vc.getGenotypes().isEmpty()) return GenotypesContext.create();\n \n         // we need to determine which of the alternate alleles (and hence the likelihoods) to use and carry forward\n-        final List<Integer> likelihoodIndexesToUse = determineLikelihoodIndexesToUse(vc, allelesToUse);\n+        final List<List<Integer>>likelihoodIndexesToUse = determineLikelihoodIndexesToUse(vc, 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after `>>`","created_at":"2016-05-25T17:55:47Z","updated_at":"2016-05-25T17:55:47Z","html_url":"https://github.com/broadinstitute/gatk/pull/1845#discussion_r64620910","pull_request_url":"https://api.github.com/repos/broadinstitute/gatk/pulls/1845","_links":{"self":{"href":"https://api.github.com/repos/broadinstitute/gatk/pulls/comments/64620910"},"html":{"href":"https://github.com/broadinstitute/gatk/pull/1845#discussion_r64620910"},"pull_request":{"href":"https://api.github.com/repos/broadinstitute/gatk/pulls/1845"}}},"pull_request":{"url":"https://api.github.com/repos/broadinstitute/gatk/pulls/1845","id":70873321,"html_url":"https://github.com/broadinstitute/gatk/pull/1845","diff_url":"https://github.com/broadinstitute/gatk/pull/1845.diff","patch_url":"https://github.com/broadinstitute/gatk/pull/1845.patch","issue_url":"https://api.github.com/repos/broadinstitute/gatk/issues/1845","number":1845,"state":"open","locked":false,"title":"SelectVariants works with 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