{"action":"created","issue":{"url":"https://api.github.com/repos/openworm/sibernetic/issues/145","repository_url":"https://api.github.com/repos/openworm/sibernetic","labels_url":"https://api.github.com/repos/openworm/sibernetic/issues/145/labels{/name}","comments_url":"https://api.github.com/repos/openworm/sibernetic/issues/145/comments","events_url":"https://api.github.com/repos/openworm/sibernetic/issues/145/events","html_url":"https://github.com/openworm/sibernetic/issues/145","id":333667232,"node_id":"MDU6SXNzdWUzMzM2NjcyMzI=","number":145,"title":"Performance changes in latest development branch","user":{"login":"pgleeson","id":1556687,"node_id":"MDQ6VXNlcjE1NTY2ODc=","avatar_url":"https://avatars0.githubusercontent.com/u/1556687?v=4","gravatar_id":"","url":"https://api.github.com/users/pgleeson","html_url":"https://github.com/pgleeson","followers_url":"https://api.github.com/users/pgleeson/followers","following_url":"https://api.github.com/users/pgleeson/following{/other_user}","gists_url":"https://api.github.com/users/pgleeson/gists{/gist_id}","starred_url":"https://api.github.com/users/pgleeson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pgleeson/subscriptions","organizations_url":"https://api.github.com/users/pgleeson/orgs","repos_url":"https://api.github.com/users/pgleeson/repos","events_url":"https://api.github.com/users/pgleeson/events{/privacy}","received_events_url":"https://api.github.com/users/pgleeson/received_events","type":"User","site_admin":false},"labels":[{"id":6091616,"node_id":"MDU6TGFiZWw2MDkxNjE2","url":"https://api.github.com/repos/openworm/sibernetic/labels/bug","name":"bug","color":"fc2929","default":true}],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":6,"created_at":"2018-06-19T13:17:21Z","updated_at":"2018-11-24T13:31:20Z","closed_at":null,"author_association":"MEMBER","body":"There seems to be a performance degradation in the latest development version of Sibernetic. Can be tested with the Docker image or with the current development branch:\r\n```\r\ncd sibernetic \r\ngit checkout development \r\ngit pull\r\ntime ./Release/Sibernetic  -f worm -no_g -l_to  timelimit=0.0001 timestep=5e-06 logstep=1000 device=ALL\r\n```\r\nThe above takes ~32 sec on my machine\r\n```\r\ngit checkout ow-0.8  # version as used in Docker \r\ngit pull\r\ntime ./Release/Sibernetic  -f worm -no_g -l_to  timelimit=0.0001 timestep=5e-06 logstep=1000 device=ALL\r\n```\r\nThis takes ~3 sec...\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/openworm/sibernetic/issues/comments/441368148","html_url":"https://github.com/openworm/sibernetic/issues/145#issuecomment-441368148","issue_url":"https://api.github.com/repos/openworm/sibernetic/issues/145","id":441368148,"node_id":"MDEyOklzc3VlQ29tbWVudDQ0MTM2ODE0OA==","user":{"login":"lungd","id":5890526,"node_id":"MDQ6VXNlcjU4OTA1MjY=","avatar_url":"https://avatars2.githubusercontent.com/u/5890526?v=4","gravatar_id":"","url":"https://api.github.com/users/lungd","html_url":"https://github.com/lungd","followers_url":"https://api.github.com/users/lungd/followers","following_url":"https://api.github.com/users/lungd/following{/other_user}","gists_url":"https://api.github.com/users/lungd/gists{/gist_id}","starred_url":"https://api.github.com/users/lungd/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lungd/subscriptions","organizations_url":"https://api.github.com/users/lungd/orgs","repos_url":"https://api.github.com/users/lungd/repos","events_url":"https://api.github.com/users/lungd/events{/privacy}","received_events_url":"https://api.github.com/users/lungd/received_events","type":"User","site_admin":false},"created_at":"2018-11-24T13:31:20Z","updated_at":"2018-11-24T13:31:20Z","author_association":"CONTRIBUTOR","body":"> Everything seems fine otherwise apart from just being slower.\r\n\r\nI am not sure about that (@pgleeson, @skhayrulin)\r\nI run some simulations using the docker container, i.e. Sibernetic simulations (**worm_crawl_half_resolution**) with c302, and got the following result:\r\n***\r\n3eb9914\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967645-f9102680-efe3-11e8-8d1e-25cc7df0115d.png\" width=\"400\">\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967662-4be9de00-efe4-11e8-8146-b80b80c19b93.png\" width=\"400\">\r\n***\r\n3eb9914  oclsourcepath=src/sphFluid_crawling.cl\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967663-54421900-efe4-11e8-85ac-ddc084472826.png\" width=\"400\">\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967664-573d0980-efe4-11e8-9cde-d44194fb2c95.png\" width=\"400\">\r\n***\r\ndevelopment (2f2bf84)\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967685-b569ec80-efe4-11e8-8063-11ad0e0884ff.png\" width=\"400\">\r\n<img src=\"https://user-images.githubusercontent.com/5890526/48967687-b733b000-efe4-11e8-9247-e7e27d2c468a.png\" width=\"400\">\r\n***\r\ndevelopment (2f2bf84) oclsourcepath=src/sphFluid_crawling.cl \r\n\r\nsame output as with sphFluid.cl\r\n***\r\nThe position_buffer file, using the latest dev version, is corrupted and the manually started rerun of the simulation stops immediately.\r\n```\r\n$ tail position_buffer.txt \r\nnan\tnan\tnan\t1.2\r\nnan\tnan\tnan\t1.2\r\n```\r\nThat issue is probably a little bit offt-opic.\r\n\r\n@skhayrulin @a-palyanov, should sphFluid_crawling.cl only be used in combination with the config 'worm_crawling'?\r\n\r\nRegarding performance, I guess the performance degradation comes from calculating and saving additional data (pressure)?"}}
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