{"action":"opened","issue":{"url":"https://api.github.com/repos/etal/cnvkit/issues/389","repository_url":"https://api.github.com/repos/etal/cnvkit","labels_url":"https://api.github.com/repos/etal/cnvkit/issues/389/labels{/name}","comments_url":"https://api.github.com/repos/etal/cnvkit/issues/389/comments","events_url":"https://api.github.com/repos/etal/cnvkit/issues/389/events","html_url":"https://github.com/etal/cnvkit/issues/389","id":363449854,"node_id":"MDU6SXNzdWUzNjM0NDk4NTQ=","number":389,"title":"cnvkit run with error","user":{"login":"ganzj","id":43566603,"node_id":"MDQ6VXNlcjQzNTY2NjAz","avatar_url":"https://avatars1.githubusercontent.com/u/43566603?v=4","gravatar_id":"","url":"https://api.github.com/users/ganzj","html_url":"https://github.com/ganzj","followers_url":"https://api.github.com/users/ganzj/followers","following_url":"https://api.github.com/users/ganzj/following{/other_user}","gists_url":"https://api.github.com/users/ganzj/gists{/gist_id}","starred_url":"https://api.github.com/users/ganzj/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ganzj/subscriptions","organizations_url":"https://api.github.com/users/ganzj/orgs","repos_url":"https://api.github.com/users/ganzj/repos","events_url":"https://api.github.com/users/ganzj/events{/privacy}","received_events_url":"https://api.github.com/users/ganzj/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-09-25T07:43:53Z","updated_at":"2018-09-25T07:43:53Z","closed_at":null,"author_association":"NONE","body":"this is my command\r\ncnvkit.py target sample_NF.bed --annotate /workstation/work/ganzj/pool/refFlat.txt --split -o /workstation/work/ganzj/pool/reference/sample_NF.target.bed\r\nthis is report:\r\nTraceback (most recent call last):\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/bin/cnvkit.py\", line 13, in <module>\r\n    args.func(args)\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/cnvlib/commands.py\", line 234, in _cmd_target\r\n    regions = tabio.read_auto(args.interval)\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/skgenome/tabio/__init__.py\", line 113, in read_auto\r\n    return read(infile, fmt or 'tab')\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/skgenome/tabio/__init__.py\", line 77, in read\r\n    dframe = reader(infile, **kwargs)\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/skgenome/tabio/bedio.py\", line 54, in read_bed\r\n    \"end\", \"gene\", \"strand\"])\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/pandas/core/frame.py\", line 1269, in from_records\r\n    coerce_float=coerce_float)\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/pandas/core/frame.py\", line 7475, in _to_arrays\r\n    dtype=dtype)\r\n  File \"/home/ganzj/anaconda3/envs/cnvkit/lib/python2.7/site-packages/pandas/core/frame.py\", line 7549, in _list_to_arrays\r\n    content = list(lib.to_object_array_tuples(data).T)\r\n  File \"pandas/_libs/src/inference.pyx\", line 1563, in pandas._libs.lib.to_object_array_tuples\r\nMemoryError\r\n\r\ncould you help me if you have any ideas, thank you !!!"}}
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