{"action":"created","issue":{"url":"https://api.github.com/repos/cBio/cbio-cluster/issues/226","repository_url":"https://api.github.com/repos/cBio/cbio-cluster","labels_url":"https://api.github.com/repos/cBio/cbio-cluster/issues/226/labels{/name}","comments_url":"https://api.github.com/repos/cBio/cbio-cluster/issues/226/comments","events_url":"https://api.github.com/repos/cBio/cbio-cluster/issues/226/events","html_url":"https://github.com/cBio/cbio-cluster/issues/226","id":60154053,"number":226,"title":"Strange out memory allocation issues","user":{"login":"rgejman","id":13392,"avatar_url":"https://avatars.githubusercontent.com/u/13392?v=3","gravatar_id":"","url":"https://api.github.com/users/rgejman","html_url":"https://github.com/rgejman","followers_url":"https://api.github.com/users/rgejman/followers","following_url":"https://api.github.com/users/rgejman/following{/other_user}","gists_url":"https://api.github.com/users/rgejman/gists{/gist_id}","starred_url":"https://api.github.com/users/rgejman/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rgejman/subscriptions","organizations_url":"https://api.github.com/users/rgejman/orgs","repos_url":"https://api.github.com/users/rgejman/repos","events_url":"https://api.github.com/users/rgejman/events{/privacy}","received_events_url":"https://api.github.com/users/rgejman/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":63,"created_at":"2015-03-06T20:26:38Z","updated_at":"2016-07-15T21:14:07Z","closed_at":"2015-03-07T16:56:38Z","body":"I just opened an active session (`qsub -I -q active -l mem=48gb -l walltime=48:00:00 -l nodes=1:ppn=1`) and got a cascade of memory errors:\r\n```\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\nruby-1.9.2-p320 - #gemset created /cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320\r\nmkdir: cannot create directory `/cbio/cslab/home/rgejman/.rvm/gems/ruby-1.9.2-p320': Cannot allocate memory\r\n```\r\nrepeating until I killed the job (job # 2900882.mskcc-fe1.local). This was on gpu-2-12\r\n\r\nI tried again and same thing happened."},"comment":{"url":"https://api.github.com/repos/cBio/cbio-cluster/issues/comments/233071517","html_url":"https://github.com/cBio/cbio-cluster/issues/226#issuecomment-233071517","issue_url":"https://api.github.com/repos/cBio/cbio-cluster/issues/226","id":233071517,"user":{"login":"rdp","id":12496,"avatar_url":"https://avatars.githubusercontent.com/u/12496?v=3","gravatar_id":"","url":"https://api.github.com/users/rdp","html_url":"https://github.com/rdp","followers_url":"https://api.github.com/users/rdp/followers","following_url":"https://api.github.com/users/rdp/following{/other_user}","gists_url":"https://api.github.com/users/rdp/gists{/gist_id}","starred_url":"https://api.github.com/users/rdp/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rdp/subscriptions","organizations_url":"https://api.github.com/users/rdp/orgs","repos_url":"https://api.github.com/users/rdp/repos","events_url":"https://api.github.com/users/rdp/events{/privacy}","received_events_url":"https://api.github.com/users/rdp/received_events","type":"User","site_admin":false},"created_at":"2016-07-15T21:14:07Z","updated_at":"2016-07-15T21:14:07Z","body":"Thanks!\r\n"}}
{"actor":{"display_login":"rdp"}}