{"action":"created","issue":{"url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/31","repository_url":"https://api.github.com/repos/NLeSC/xenon-flow","labels_url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/31/labels{/name}","comments_url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/31/comments","events_url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/31/events","html_url":"https://github.com/NLeSC/xenon-flow/issues/31","id":350817022,"node_id":"MDU6SXNzdWUzNTA4MTcwMjI=","number":31,"title":"After canceling a job using the demo webinterface processes keep running","user":{"login":"jvdzwaan","id":4788897,"node_id":"MDQ6VXNlcjQ3ODg4OTc=","avatar_url":"https://avatars2.githubusercontent.com/u/4788897?v=4","gravatar_id":"","url":"https://api.github.com/users/jvdzwaan","html_url":"https://github.com/jvdzwaan","followers_url":"https://api.github.com/users/jvdzwaan/followers","following_url":"https://api.github.com/users/jvdzwaan/following{/other_user}","gists_url":"https://api.github.com/users/jvdzwaan/gists{/gist_id}","starred_url":"https://api.github.com/users/jvdzwaan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jvdzwaan/subscriptions","organizations_url":"https://api.github.com/users/jvdzwaan/orgs","repos_url":"https://api.github.com/users/jvdzwaan/repos","events_url":"https://api.github.com/users/jvdzwaan/events{/privacy}","received_events_url":"https://api.github.com/users/jvdzwaan/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":3,"created_at":"2018-08-15T13:52:05Z","updated_at":"2018-08-15T14:37:41Z","closed_at":null,"author_association":"MEMBER","body":"After canceling a job using the demo webinterface, cwltool and other python processes keep running. \r\n\r\nIn this specific case, the job was running for a very long time (24 hours), so maybe that is why they weren't killed? Or is this feature not yet implemented?"},"comment":{"url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/comments/413217948","html_url":"https://github.com/NLeSC/xenon-flow/issues/31#issuecomment-413217948","issue_url":"https://api.github.com/repos/NLeSC/xenon-flow/issues/31","id":413217948,"node_id":"MDEyOklzc3VlQ29tbWVudDQxMzIxNzk0OA==","user":{"login":"jvdzwaan","id":4788897,"node_id":"MDQ6VXNlcjQ3ODg4OTc=","avatar_url":"https://avatars2.githubusercontent.com/u/4788897?v=4","gravatar_id":"","url":"https://api.github.com/users/jvdzwaan","html_url":"https://github.com/jvdzwaan","followers_url":"https://api.github.com/users/jvdzwaan/followers","following_url":"https://api.github.com/users/jvdzwaan/following{/other_user}","gists_url":"https://api.github.com/users/jvdzwaan/gists{/gist_id}","starred_url":"https://api.github.com/users/jvdzwaan/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jvdzwaan/subscriptions","organizations_url":"https://api.github.com/users/jvdzwaan/orgs","repos_url":"https://api.github.com/users/jvdzwaan/repos","events_url":"https://api.github.com/users/jvdzwaan/events{/privacy}","received_events_url":"https://api.github.com/users/jvdzwaan/received_events","type":"User","site_admin":false},"created_at":"2018-08-15T14:37:41Z","updated_at":"2018-08-15T14:37:41Z","author_association":"MEMBER","body":"```\r\n2018-Aug-14 15:21:43.320 INFO - Submitted Job: class Job {\r\n    id: 259fe9c9-c250-4ebb-91c4-feafddaa6837\r\n    name: Split files on pages and stem dir\r\n    workflow: source/cwl/safar-split-and-stem-dir.cwl\r\n    input: {\"in_dir\":{\"class\":\"Directory\",\"path\":\"source/data/fiqh_corpus\"},\"split_regex_small\":\"PageV\\\\d{2}P\\\\d+\",\"cp\":\".:/data/java-lib/*:/data/java/\"}\r\n    state: Submitted\r\n    output: null\r\n    log: http://localhost:8080/jobs/259fe9c9-c250-4ebb-91c4-feafddaa6837/log\r\n    additionalInfo:{createdAt=Tue Aug 14 15:21:43 CEST 2018, internalState=Submitted, baseurl=http://localhost:8080/}\r\n}\r\n2018-Aug-14 15:21:44.248 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Stage_In\r\n2018-Aug-14 15:21:44.289 INFO - Creating directory: /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837\r\n2018-Aug-14 15:21:44.289 INFO - Copying from /var/www/webdav/source/cwl/safar-split-and-stem-dir.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/safar-split-and-stem-dir.cwl\r\n2018-Aug-14 15:21:44.290 INFO - Copying from /var/www/webdav/source/cwl/ls.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/ls.cwl\r\n2018-Aug-14 15:21:44.292 INFO - Copying from /var/www/webdav/source/cwl/safar-split-and-stem-file.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/safar-split-and-stem-file.cwl\r\n2018-Aug-14 15:21:44.292 INFO - Copying from /var/www/webdav/source/cwl/extract_metadata.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/extract_metadata.cwl\r\n2018-Aug-14 15:21:44.302 INFO - Copying from /var/www/webdav/source/cwl/split-text.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/split-text.cwl\r\n2018-Aug-14 15:21:44.302 INFO - Copying from /var/www/webdav/source/cwl/save-files-to-dir.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/save-files-to-dir.cwl\r\n2018-Aug-14 15:21:44.303 INFO - Copying from /var/www/webdav/source/cwl/SafarStem.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/SafarStem.cwl\r\n2018-Aug-14 15:21:44.304 INFO - Copying from /var/www/webdav/source/cwl/save-files-to-dir.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/save-files-to-dir.cwl\r\n2018-Aug-14 15:21:44.304 INFO - Copying from /var/www/webdav/source/cwl/merge-safar-xml.cwl to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/merge-safar-xml.cwl\r\n2018-Aug-14 15:21:44.305 INFO - Copying from /var/www/webdav/source/data/fiqh_corpus to /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/fiqh_corpus\r\n2018-Aug-14 15:21:44.306 INFO - Writing string to: /data/xenon-flow/running-jobs/split-files-on-pages-and-stem-dir-259fe9c9-c250-4ebb-91c4-feafddaa6837/job-order.json\r\n2018-Aug-14 15:22:03.735 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Staging_Ready\r\n2018-Aug-14 15:22:03.736 INFO - StageIn complete.\r\n2018-Aug-14 15:22:03.748 INFO - Starting new job runner for job: 259fe9c9-c250-4ebb-91c4-feafddaa6837\r\n2018-Aug-14 15:22:03.751 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Xenon_Submit\r\n2018-Aug-14 15:22:03.753 INFO - Xenon jobid: local-19\r\n2018-Aug-14 15:22:03.760 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Waiting\r\n2018-Aug-14 15:22:03.797 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Running\r\n2018-Aug-15 15:22:06.696 INFO - Trying to cancel job 259fe9c9-c250-4ebb-91c4-feafddaa6837\r\n2018-Aug-15 15:22:06.698 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Running_Cr\r\n2018-Aug-15 15:22:08.787 INFO - Job 259fe9c9-c250-4ebb-91c4-feafddaa6837 now has state: Cancelled\r\n```\r\n\r\nDisclaimer: I killed the running processes, including (by accident) xenonflow. I waited about 20 minutes before doing so (so plenty of time for xenonflow to have canceled them...)"}}
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