{"action":"created","issue":{"url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/922","repository_url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus","labels_url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/922/labels{/name}","comments_url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/922/comments","events_url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/922/events","html_url":"https://github.com/smith-chem-wisc/MetaMorpheus/issues/922","id":293875427,"number":922,"title":"Search stalled in new MM version and lengthy searches","user":{"login":"Dmorgen","id":35773089,"avatar_url":"https://avatars1.githubusercontent.com/u/35773089?v=4","gravatar_id":"","url":"https://api.github.com/users/Dmorgen","html_url":"https://github.com/Dmorgen","followers_url":"https://api.github.com/users/Dmorgen/followers","following_url":"https://api.github.com/users/Dmorgen/following{/other_user}","gists_url":"https://api.github.com/users/Dmorgen/gists{/gist_id}","starred_url":"https://api.github.com/users/Dmorgen/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Dmorgen/subscriptions","organizations_url":"https://api.github.com/users/Dmorgen/orgs","repos_url":"https://api.github.com/users/Dmorgen/repos","events_url":"https://api.github.com/users/Dmorgen/events{/privacy}","received_events_url":"https://api.github.com/users/Dmorgen/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-02-02T12:39:39Z","updated_at":"2018-02-02T17:08:11Z","closed_at":null,"author_association":"NONE","body":"Hi,\r\n\r\nI've downloaded the new version and ran a search. search stalled in \"picking MS2 spectra\". when I shut the run down, I got \"index out of range error\". the search was done on a single file running a search and G-PTM-D pipeline.\r\n\r\nthe second question is of slow searches. before downloading the new version i've put a quant set to search running an initial search with wide ppm values and small DB, calibration and then full search and G-PTM-D.\r\ncalibration took forever - 3 files took more than 8 hours. the software is installed on a 26 core VM on a Windows Enterprise 2008 R2 version. could that be influencing the search speed? \r\n\r\nThanks!\r\nDavid."},"comment":{"url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/comments/362645088","html_url":"https://github.com/smith-chem-wisc/MetaMorpheus/issues/922#issuecomment-362645088","issue_url":"https://api.github.com/repos/smith-chem-wisc/MetaMorpheus/issues/922","id":362645088,"user":{"login":"stefanks","id":5972770,"avatar_url":"https://avatars1.githubusercontent.com/u/5972770?v=4","gravatar_id":"","url":"https://api.github.com/users/stefanks","html_url":"https://github.com/stefanks","followers_url":"https://api.github.com/users/stefanks/followers","following_url":"https://api.github.com/users/stefanks/following{/other_user}","gists_url":"https://api.github.com/users/stefanks/gists{/gist_id}","starred_url":"https://api.github.com/users/stefanks/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/stefanks/subscriptions","organizations_url":"https://api.github.com/users/stefanks/orgs","repos_url":"https://api.github.com/users/stefanks/repos","events_url":"https://api.github.com/users/stefanks/events{/privacy}","received_events_url":"https://api.github.com/users/stefanks/received_events","type":"User","site_admin":false},"created_at":"2018-02-02T17:08:11Z","updated_at":"2018-02-02T17:08:11Z","author_association":"OWNER","body":"@Dmorgen Calibration is an optional step that takes a long time, but once you have calibrated files there is no need to re-run the calibration again! Just use the output mzmls in any subsequent searches.\r\n\r\nRegarding the \"loading ms2 scans\" taking a long time, you can uncheck \"Deconvolute Precursors\" in the search task window.\r\n\r\n"}}
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