{"action":"opened","issue":{"url":"https://api.github.com/repos/hammerlab/pyensembl/issues/55","labels_url":"https://api.github.com/repos/hammerlab/pyensembl/issues/55/labels{/name}","comments_url":"https://api.github.com/repos/hammerlab/pyensembl/issues/55/comments","events_url":"https://api.github.com/repos/hammerlab/pyensembl/issues/55/events","html_url":"https://github.com/hammerlab/pyensembl/issues/55","id":60418230,"number":55,"title":"gtf assertion error when installing ensembl release","user":{"login":"timodonnell","id":467896,"avatar_url":"https://avatars.githubusercontent.com/u/467896?v=3","gravatar_id":"","url":"https://api.github.com/users/timodonnell","html_url":"https://github.com/timodonnell","followers_url":"https://api.github.com/users/timodonnell/followers","following_url":"https://api.github.com/users/timodonnell/following{/other_user}","gists_url":"https://api.github.com/users/timodonnell/gists{/gist_id}","starred_url":"https://api.github.com/users/timodonnell/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/timodonnell/subscriptions","organizations_url":"https://api.github.com/users/timodonnell/orgs","repos_url":"https://api.github.com/users/timodonnell/repos","events_url":"https://api.github.com/users/timodonnell/events{/privacy}","received_events_url":"https://api.github.com/users/timodonnell/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":0,"created_at":"2015-03-09T22:05:10Z","updated_at":"2015-03-09T22:05:10Z","closed_at":null,"body":"This is on Python 3.\r\n\r\n```\r\n$ pyensembl 75 install\r\nINFO:root:Annotation data for release 75 is already downloaded\r\nINFO:root:Transcript sequence data for release 75 is already downloaded\r\nINFO:root:Cached file Homo_sapiens.GRCh37.75.gtf from URL ftp://ftp.ensembl.org/pub/release-75/gtf/homo_sapiens/Homo_sapiens.GRCh37.75.gtf.gz\r\nCreating database: /Users/tim/Library/Caches/ensembl/Homo_sapiens.GRCh37.75.db\r\nINFO:root:Reading GTF /Users/tim/Library/Caches/ensembl/Homo_sapiens.GRCh37.75.gtf into DataFrame\r\nINFO:root:Extracting attributes for 0 entries in GTF DataFrame\r\nINFO:root:Adding attribute columns: []\r\nTraceback (most recent call last):\r\n  File \"/Users/tim/sinai/git/datacache/venv/bin/pyensembl\", line 9, in <module>\r\n    load_entry_point('pyensembl==0.5.12', 'console_scripts', 'pyensembl')()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/shell.py\", line 59, in run\r\n    data.install()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/ensembl_release.py\", line 152, in install\r\n    self._index(force=False)\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/ensembl_release.py\", line 163, in _index\r\n    if self.db.create(force=force):\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/database.py\", line 515, in create\r\n    self._create_database(force=force)\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/database.py\", line 153, in _create_database\r\n    df = self.gtf.dataframe()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/gtf.py\", line 241, in dataframe\r\n    self._dataframes[key] = cached_dataframe(csv_path, local_loader_fn)\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/compute_cache.py\", line 92, in cached_dataframe\r\n    df = compute_fn()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/gtf.py\", line 215, in local_loader_fn\r\n    full_df = self._load_full_dataframe()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/gtf.py\", line 178, in _load_full_dataframe\r\n    return cached_dataframe(csv_path, self._load_full_dataframe_from_gtf)\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/compute_cache.py\", line 92, in cached_dataframe\r\n    df = compute_fn()\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/gtf.py\", line 185, in _load_full_dataframe_from_gtf\r\n    return load_gtf_as_dataframe(path)\r\n  File \"/Users/tim/sinai/git/pyensembl/pyensembl/gtf_parsing.py\", line 309, in load_gtf_as_dataframe\r\n    list(sorted(df.columns)))\r\nAssertionError: Missing required column 'gene_name', available: ['end', 'feature', 'frame', 'score', 'seqname', 'source', 'start', 'strand']"}}