{"action":"created","issue":{"url":"https://api.github.com/repos/igvteam/igv.js/issues/249","repository_url":"https://api.github.com/repos/igvteam/igv.js","labels_url":"https://api.github.com/repos/igvteam/igv.js/issues/249/labels{/name}","comments_url":"https://api.github.com/repos/igvteam/igv.js/issues/249/comments","events_url":"https://api.github.com/repos/igvteam/igv.js/issues/249/events","html_url":"https://github.com/igvteam/igv.js/issues/249","id":173342158,"number":249,"title":"What is the max number of reads before IGV.js crashes?","user":{"login":"david-ma","id":3320713,"avatar_url":"https://avatars.githubusercontent.com/u/3320713?v=3","gravatar_id":"","url":"https://api.github.com/users/david-ma","html_url":"https://github.com/david-ma","followers_url":"https://api.github.com/users/david-ma/followers","following_url":"https://api.github.com/users/david-ma/following{/other_user}","gists_url":"https://api.github.com/users/david-ma/gists{/gist_id}","starred_url":"https://api.github.com/users/david-ma/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/david-ma/subscriptions","organizations_url":"https://api.github.com/users/david-ma/orgs","repos_url":"https://api.github.com/users/david-ma/repos","events_url":"https://api.github.com/users/david-ma/events{/privacy}","received_events_url":"https://api.github.com/users/david-ma/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":17,"created_at":"2016-08-26T00:28:37Z","updated_at":"2016-08-31T02:20:45Z","closed_at":null,"body":"I had someone load a BAM file with 500,000+ reads and the browser crashed.\r\n\r\nI'm going to put in a little warning that detects if the BAM is too big that directs them to open the file in Desktop IGV instead of in-browser IGV.\r\n\r\nIs there a known limit to the number of reads that IGV.js can handle? Or does this depend too much on the browser/machine you're using?"},"comment":{"url":"https://api.github.com/repos/igvteam/igv.js/issues/comments/243639582","html_url":"https://github.com/igvteam/igv.js/issues/249#issuecomment-243639582","issue_url":"https://api.github.com/repos/igvteam/igv.js/issues/249","id":243639582,"user":{"login":"jrobinso","id":933148,"avatar_url":"https://avatars.githubusercontent.com/u/933148?v=3","gravatar_id":"","url":"https://api.github.com/users/jrobinso","html_url":"https://github.com/jrobinso","followers_url":"https://api.github.com/users/jrobinso/followers","following_url":"https://api.github.com/users/jrobinso/following{/other_user}","gists_url":"https://api.github.com/users/jrobinso/gists{/gist_id}","starred_url":"https://api.github.com/users/jrobinso/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jrobinso/subscriptions","organizations_url":"https://api.github.com/users/jrobinso/orgs","repos_url":"https://api.github.com/users/jrobinso/repos","events_url":"https://api.github.com/users/jrobinso/events{/privacy}","received_events_url":"https://api.github.com/users/jrobinso/received_events","type":"User","site_admin":false},"created_at":"2016-08-31T02:20:45Z","updated_at":"2016-08-31T02:20:45Z","body":"The warning looks good,  but you can increase the 2500 number for these \nsituations by reducing the alignmentRowHeight.   The real limit is \n32,000 pixels / alignmentRowHeight.   Also note the maxRows setting,  \nwhich would need to be increased as well.\n\n\nOn 8/30/16 6:53 PM, David Ma wrote:\n>\n> Hey Jim! Sorry for the slow reply, some other stuff needed my attention.\n>\n>     Another solution would be to have a popup view that displays all\n>     alignments that have a mismatch at a specific location.\n>\n> Yes that would be a good way to show certain users what they want need \n> to see.\n>\n>     How do you know there are 500k reads at a particular location\n>\n> We use the variant caller's read depth output for the given variant, \n> this is stored when the pipeline is run, and this is how the users \n> decide which locus to navigate to.\n>\n>     make the downsample bar (the black bar) a little more prominent\n>\n> It turns out that I had previously set \"config.coverageTrackHeight = \n> 30\", which was messing up the display of coverage/downsample \n> bar/alignments. They were overlapping in inconsistent ways, but I have \n> fixed this by removing that config and so it just defaults to 50.\n>\n> ------------------------------------------------------------------------\n>\n> This is my warning when IGV.js opens now (no warning shows if it is \n> under 2500 reads/alignments/counts)\n>\n> screen shot 2016-08-31 at 11 05 24 am \n> <https://cloud.githubusercontent.com/assets/3320713/18112867/8ab3ef0c-6f6e-11e6-8c9e-763b13fd275f.png>\n>\n> —\n> You are receiving this because you commented.\n> Reply to this email directly, view it on GitHub \n> <https://github.com/igvteam/igv.js/issues/249#issuecomment-243635921>, \n> or mute the thread \n> <https://github.com/notifications/unsubscribe-auth/AA49HEVQBp0ZrG0AVE9ktvoCAiyQcc1qks5qlN6lgaJpZM4Jtogo>.\n>\n\n"}}
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