{"action":"created","issue":{"url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/61","labels_url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/61/labels{/name}","comments_url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/61/comments","events_url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/61/events","html_url":"https://github.com/genome/genome-snapshot-deps/pull/61","id":128452758,"number":61,"title":"Bump PTero Perl SDK to 0.2.4-1","user":{"login":"davidlmorton","id":650482,"avatar_url":"https://avatars.githubusercontent.com/u/650482?v=3","gravatar_id":"","url":"https://api.github.com/users/davidlmorton","html_url":"https://github.com/davidlmorton","followers_url":"https://api.github.com/users/davidlmorton/followers","following_url":"https://api.github.com/users/davidlmorton/following{/other_user}","gists_url":"https://api.github.com/users/davidlmorton/gists{/gist_id}","starred_url":"https://api.github.com/users/davidlmorton/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/davidlmorton/subscriptions","organizations_url":"https://api.github.com/users/davidlmorton/orgs","repos_url":"https://api.github.com/users/davidlmorton/repos","events_url":"https://api.github.com/users/davidlmorton/events{/privacy}","received_events_url":"https://api.github.com/users/davidlmorton/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2016-01-25T03:41:51Z","updated_at":"2016-01-25T20:07:01Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/genome/genome-snapshot-deps/pulls/61","html_url":"https://github.com/genome/genome-snapshot-deps/pull/61","diff_url":"https://github.com/genome/genome-snapshot-deps/pull/61.diff","patch_url":"https://github.com/genome/genome-snapshot-deps/pull/61.patch"},"body":"This version bump only affects the test code.  It makes the tests more strict to catch a bug that made it into staging and was only caught by the model tests.  \r\n\r\nFailed Model Test: https://apipe-ci.gsc.wustl.edu/job/ptero_genome_model_tests/GENOME_TEST_MODEL_NAME=apipe-test-rnaseq/56/console\r\nRelated PRs: https://github.com/genome/ptero-perl-sdk/pull/108 and https://github.com/genome/ptero-workflow/pull/249 for more information.\r\n```\r\nSun Jan 24 09:32 PM dmorton@linus265:/gscuser/dmorton/tmp\r\n$ apt-cache policy libptero-perl\r\nlibptero-perl:\r\n  Installed: 0.2.3-1\r\n  Candidate: 0.2.4-1\r\n  Version table:\r\n     0.2.4-1 0\r\n       1001 http://repo.gsc.wustl.edu/ubuntu/ lucid-genome-development/main Packages\r\n *** 0.2.3-1 0\r\n        100 /var/lib/dpkg/status\r\n\r\nSun Jan 24 09:32 PM dmorton@linus265:/gscuser/dmorton/tmp\r\n$ sudo apt-get install libptero-perl\r\nReading package lists... Done\r\nBuilding dependency tree\r\nReading state information... Done\r\nThe following packages were automatically installed and are no longer required:\r\n  libruby libxmlrpc-ruby mcollective-nrpe-common bam-readcount0.7.3\r\nUse 'apt-get autoremove' to remove them.\r\nThe following packages will be upgraded:\r\n  libptero-perl\r\n1 upgraded, 0 newly installed, 0 to remove and 834 not upgraded.\r\nNeed to get 35.3kB of archives.\r\nAfter this operation, 0B of additional disk space will be used.\r\nWARNING: The following packages cannot be authenticated!\r\n  libptero-perl\r\nAuthentication warning overridden.\r\nGet:1 http://repo.gsc.wustl.edu/ubuntu/ lucid-genome-development/main libptero-perl 0.2.4-1 [35.3kB]\r\nFetched 35.3kB in 0s (0B/s)\r\n(Reading database ... 455806 files and directories currently installed.)\r\nPreparing to replace libptero-perl 0.2.3-1 (using .../libptero-perl_0.2.4-1_all.deb) ...\r\nUnpacking replacement libptero-perl ...\r\nProcessing triggers for man-db ...\r\nSetting up libptero-perl (0.2.4-1) ...\r\n```\r\n```\r\nSun Jan 24 09:32 PM dmorton@linus265:/gscuser/dmorton/tmp\r\n$ ptero-glance http://workflow.apipe-deis.gsc.wustl.edu/v1/workflows?name='c605abf8-00fc-40be-af09-5c0eb49fcb4c'\r\n                     STATUS SUMMARY      TYPE  NAME\r\n                          succeeded  Workflow  c605abf8-00fc-40be-af09-5c0eb49fcb4c\r\n                               S:85      Task  . Make Per Chromosome Genotyped VCFs [parallel-by: chrs]\r\n                               S:84       DAG  . . Make Per Chromosome Genotyped VCFs\r\n                              S:588      Task  . . . Combine VCFs [parallel-by: batches]\r\n                              S:504       DAG  . . . . Combine in batches\r\n                              S:504      Task  . . . . . Combine in batches\r\n                              S:504       Job  . . . . . . Combine in batches\r\n                               S:84      Task  . . . Genotype vcf\r\n                               S:84       Job  . . . . Genotype\r\n                          succeeded      Task  . Combine vcfs across chrs\r\n                          succeeded       Job  . . Combine vcfs across chrs\r\n                          succeeded      Task  . Run Indel variant quality score recalibration\r\n                          succeeded       Job  . . Recalibrate VQS Indels\r\n                          succeeded      Task  . Run SNP variant quality score recalibration\r\n                          succeeded       Job  . . Recalibrate VQS Snps\r\n                               S:85      Task  . Apply variant recalibration [parallel-by: chrs]\r\n                               S:84       DAG  . . Apply variant recalibration\r\n                               S:84      Task  . . . Apply variant recalibration\r\n                               S:84       Job  . . . . Apply variant recalibration\r\n```"},"comment":{"url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/comments/174643746","html_url":"https://github.com/genome/genome-snapshot-deps/pull/61#issuecomment-174643746","issue_url":"https://api.github.com/repos/genome/genome-snapshot-deps/issues/61","id":174643746,"user":{"login":"mkiwala","id":108881,"avatar_url":"https://avatars.githubusercontent.com/u/108881?v=3","gravatar_id":"","url":"https://api.github.com/users/mkiwala","html_url":"https://github.com/mkiwala","followers_url":"https://api.github.com/users/mkiwala/followers","following_url":"https://api.github.com/users/mkiwala/following{/other_user}","gists_url":"https://api.github.com/users/mkiwala/gists{/gist_id}","starred_url":"https://api.github.com/users/mkiwala/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mkiwala/subscriptions","organizations_url":"https://api.github.com/users/mkiwala/orgs","repos_url":"https://api.github.com/users/mkiwala/repos","events_url":"https://api.github.com/users/mkiwala/events{/privacy}","received_events_url":"https://api.github.com/users/mkiwala/received_events","type":"User","site_admin":false},"created_at":"2016-01-25T20:07:01Z","updated_at":"2016-01-25T20:07:01Z","body":"+1 :koala: "}}