{"action":"created","issue":{"url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/4355","labels_url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/4355/labels{/name}","comments_url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/4355/comments","events_url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/4355/events","html_url":"https://github.com/openmicroscopy/openmicroscopy/pull/4355","id":119034129,"number":4355,"title":"Remove HDF5_DIR overriding in python_deps.sh","user":{"login":"sbesson","id":1355463,"avatar_url":"https://avatars.githubusercontent.com/u/1355463?v=3","gravatar_id":"","url":"https://api.github.com/users/sbesson","html_url":"https://github.com/sbesson","followers_url":"https://api.github.com/users/sbesson/followers","following_url":"https://api.github.com/users/sbesson/following{/other_user}","gists_url":"https://api.github.com/users/sbesson/gists{/gist_id}","starred_url":"https://api.github.com/users/sbesson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sbesson/subscriptions","organizations_url":"https://api.github.com/users/sbesson/orgs","repos_url":"https://api.github.com/users/sbesson/repos","events_url":"https://api.github.com/users/sbesson/events{/privacy}","received_events_url":"https://api.github.com/users/sbesson/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/labels/develop","name":"develop","color":"02e10c"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":5,"created_at":"2015-11-26T12:16:13Z","updated_at":"2015-11-30T17:25:39Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/pulls/4355","html_url":"https://github.com/openmicroscopy/openmicroscopy/pull/4355","diff_url":"https://github.com/openmicroscopy/openmicroscopy/pull/4355.diff","patch_url":"https://github.com/openmicroscopy/openmicroscopy/pull/4355.patch"},"body":"This export command currently makes the dependency installation script unusable for PyTables in any other location than the ones under which the HDF libraries are accessible (e.g. /usr/local for Homebrew). Reported by @pwalczysko during testing. \r\n\r\nWithout this change, on OSX with Homebrew installed packages, running the following command\r\n\r\n```\r\nvirtualenv /tmp/venv\r\nsource /tmp/ven/bin/activate\r\nbash path/to/python_deps.sh\r\n```\r\n\r\nfrom any other location than `/usr/local` should fail. With this change, the Python packages installation should complete and find the HDF libraries under `/usr/local`."},"comment":{"url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/comments/160696085","html_url":"https://github.com/openmicroscopy/openmicroscopy/pull/4355#issuecomment-160696085","issue_url":"https://api.github.com/repos/openmicroscopy/openmicroscopy/issues/4355","id":160696085,"user":{"login":"pwalczysko","id":2478303,"avatar_url":"https://avatars.githubusercontent.com/u/2478303?v=3","gravatar_id":"","url":"https://api.github.com/users/pwalczysko","html_url":"https://github.com/pwalczysko","followers_url":"https://api.github.com/users/pwalczysko/followers","following_url":"https://api.github.com/users/pwalczysko/following{/other_user}","gists_url":"https://api.github.com/users/pwalczysko/gists{/gist_id}","starred_url":"https://api.github.com/users/pwalczysko/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/pwalczysko/subscriptions","organizations_url":"https://api.github.com/users/pwalczysko/orgs","repos_url":"https://api.github.com/users/pwalczysko/repos","events_url":"https://api.github.com/users/pwalczysko/events{/privacy}","received_events_url":"https://api.github.com/users/pwalczysko/received_events","type":"User","site_admin":false},"created_at":"2015-11-30T17:25:39Z","updated_at":"2015-11-30T17:25:39Z","body":"I am afraid, if I just checkout the branch of this PR, it does not work either. Following the scenario in the comment of this PR I get.\r\n\r\n```\r\nCollecting tables==2.4\r\n  Downloading tables-2.4.0.tar.gz (8.9MB)\r\n    100% |████████████████████████████████| 8.9MB 61kB/s \r\n    Complete output from command python setup.py egg_info:\r\n    .. ERROR:: You need numpy 1.4.1 or greater to run PyTables!\r\n    \r\n    ----------------------------------------\r\nCommand \"python setup.py egg_info\" failed with error code 1 in /private/var/folders/j3/9sf00sjs4kng7djn76m0_grh4d75r0/T/pip-build-Xyh1VI/tables\r\n(venv2)[pwalczysko@ls31619 ~/Work/openmicroscopy]$ \r\n```"}}