{"action":"created","comment":{"url":"https://api.github.com/repos/broadinstitute/hellbender/pulls/comments/37246453","id":37246453,"diff_hunk":"@@ -104,68 +103,58 @@ public void runAllTests() throws Exception {\n \n     @DataProvider(name = \"BQSRTest\")\n     public Object[][] createBQSRTestData() {\n-        final String hg18Reference = publicTestDir + \"human_g1k_v37.chr17_1Mb.fasta\";\n-        final String b36Reference = getResourceDir() + \"human_b36_both.chr1_1k.fasta\";\n-        final String HiSeqBam = getResourceDir() + \"NA12878.chr17_69k_70k.dictFix.bam\";\n+        // we need an API key to get to the reference\n+        final String apiArgs = \"--apiKey \" + getDataflowTestApiKey() + \" --project \" + getDataflowTestProject() + \" \";\n+        final String localResources =  getResourceDir();\n+        final String hg19Ref = \"EMWV_ZfLxrDY-wE\";\n+        //final String GRCh37RefLite = \"EJjur6DxjIa6KQ\"; // that's the \"lite\" version\n+        final String GRCh37Ref = \"EOSsjdnTicvzwAE\"; // that's the \"full\" version","path":"src/test/java/org/broadinstitute/hellbender/tools/walkers/bqsr/BaseRecalibratorDataflow2IntegrationTest.java","position":72,"original_position":72,"commit_id":"40bed0dfc38df831fabd19f79ca748e0ce41ff76","original_commit_id":"40bed0dfc38df831fabd19f79ca748e0ce41ff76","user":{"login":"droazen","id":798637,"avatar_url":"https://avatars.githubusercontent.com/u/798637?v=3","gravatar_id":"","url":"https://api.github.com/users/droazen","html_url":"https://github.com/droazen","followers_url":"https://api.github.com/users/droazen/followers","following_url":"https://api.github.com/users/droazen/following{/other_user}","gists_url":"https://api.github.com/users/droazen/gists{/gist_id}","starred_url":"https://api.github.com/users/droazen/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/droazen/subscriptions","organizations_url":"https://api.github.com/users/droazen/orgs","repos_url":"https://api.github.com/users/droazen/repos","events_url":"https://api.github.com/users/droazen/events{/privacy}","received_events_url":"https://api.github.com/users/droazen/received_events","type":"User","site_admin":false},"body":"Could you declaure these reference ids as public constants in `RefAPISource` so that we can use them elsewhere?","created_at":"2015-08-17T22:49:02Z","updated_at":"2015-08-17T22:49:02Z","html_url":"https://github.com/broadinstitute/hellbender/pull/812#discussion_r37246453","pull_request_url":"https://api.github.com/repos/broadinstitute/hellbender/pulls/812","_links":{"self":{"href":"https://api.github.com/repos/broadinstitute/hellbender/pulls/comments/37246453"},"html":{"href":"https://github.com/broadinstitute/hellbender/pull/812#discussion_r37246453"},"pull_request":{"href":"https://api.github.com/repos/broadinstitute/hellbender/pulls/812"}}},"pull_request":{"url":"https://api.github.com/repos/broadinstitute/hellbender/pulls/812","id":42376095,"html_url":"https://github.com/broadinstitute/hellbender/pull/812","diff_url":"https://github.com/broadinstitute/hellbender/pull/812.diff","patch_url":"https://github.com/broadinstitute/hellbender/pull/812.patch","issue_url":"https://api.github.com/repos/broadinstitute/hellbender/issues/812","number":812,"state":"open","locked":false,"title":"BaseRecalibrator made to fit the skeleton, including local and cloud tests.","user":{"login":"jean-philippe-martin","id":10458949,"avatar_url":"https://avatars.githubusercontent.com/u/10458949?v=3","gravatar_id":"","url":"https://api.github.com/users/jean-philippe-martin","html_url":"https://github.com/jean-philippe-martin","followers_url":"https://api.github.com/users/jean-philippe-martin/followers","following_url":"https://api.github.com/users/jean-philippe-martin/following{/other_user}","gists_url":"https://api.github.com/users/jean-philippe-martin/gists{/gist_id}","starred_url":"https://api.github.com/users/jean-philippe-martin/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jean-philippe-martin/subscriptions","organizations_url":"https://api.github.com/users/jean-philippe-martin/orgs","repos_url":"https://api.github.com/users/jean-philippe-martin/repos","events_url":"https://api.github.com/users/jean-philippe-martin/events{/privacy}","received_events_url":"https://api.github.com/users/jean-philippe-martin/received_events","type":"User","site_admin":false},"body":" * new version of BaseRecalibratorDataflow that fits into the skeleton framework\r\n * new command-line BaseRecalibratorDataflow that uses the same code\r\n * tests and test inputs for BaseRecalibrator. 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