{
    "info": {
        "author": "Daniel Danis",
        "author_email": "daniel.gordon.danis@gmail.com",
        "bugtrack_url": null,
        "classifiers": [],
        "description": "# PBGA\n\nPacBio Genome Analysis Python toolkit.\n\n## Install\n\nThe code is available at PyPi, therefore you can install it with pip.\n\n```bash\npip install pbga\n```\n\n## Connect to PBGA database\n\nThe PBGA database is a H2 database, therefore primarily meant to be used with Java.\nWe can connect to the database from Python, if:\n\n- Java is installed on the local machine\n- the local machine runs UNIX-like OS (sorry, Windows users)\n\nThen:\n```python\nfrom pbga import H2DbManager\n\nwith H2DbManager(\"path/to/sv_database.mv.db\", \n                 user=\"sa\", \n                 password=\"sa\") as h2:\n    with h2.get_connection() as conn:\n        with conn.cursor() as cur:\n            # do whatever you want\n            cur.execute('SELECT * FROM PBGA.CLINGEN_TRIPLOSENSITIVITY;')\n            for i, x in zip(range(5), cur.fetchall()):\n                # print first 5 lines \n                print(x)\n\n```\n\n## Use Jannovar `VariantEffect`s\n\nWe can access values of Jannovar `VariantEffect` enum:\n\n```python\nimport pbga.effects as pe \n\nve = pe.VARIANT_EFFECTS #  get tuple with all variant effects\n\np = pe.get_priority('MISSENSE_VARIANT') # returns 21\n```\n\n## Quick setup of Python `logging` framework\n\nSetting up of Python `logging` framework might be tedious. Here's a small helper function:\n\n```python\nfrom pbga.utils import setup_logging\n\n# set level to INFO, create a `main.log` file use nice log message format  \nsetup_logging()  \n\n```\n\n## Limitations\n\n- tested with `python>=3.6.8`\n\n\n",
        "description_content_type": "text/markdown",
        "docs_url": null,
        "download_url": "",
        "downloads": {
            "last_day": -1,
            "last_month": -1,
            "last_week": -1
        },
        "home_page": "https://github.com/TheJacksonLaboratory/PBGA-python-toolkit",
        "keywords": "bioinformatics genomics",
        "license": "GPLv3",
        "maintainer": "",
        "maintainer_email": "",
        "name": "pbga",
        "package_url": "https://pypi.org/project/pbga/",
        "platform": "",
        "project_url": "https://pypi.org/project/pbga/",
        "project_urls": {
            "Homepage": "https://github.com/TheJacksonLaboratory/PBGA-python-toolkit"
        },
        "release_url": "https://pypi.org/project/pbga/0.0.6/",
        "requires_dist": [
            "psycopg2-binary (>=2.8.3)"
        ],
        "requires_python": "",
        "summary": "Library of Python utilities for PacBio Genomes Analysis",
        "version": "0.0.6"
    },
    "last_serial": 5822316,
    "releases": {
        "0.0.1": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "cb107dd1cf82892be710087f3856a13d",
                    "sha256": "95da6f72894ea7e3bb365dbbaffabc1d30c3a786c99e4b955958d5fabb9b07fb"
                },
                "downloads": -1,
                "filename": "pbga-0.0.1-py3.7.egg",
                "has_sig": true,
                "md5_digest": "cb107dd1cf82892be710087f3856a13d",
                "packagetype": "bdist_egg",
                "python_version": "3.7",
                "requires_python": null,
                "size": 2083866,
                "upload_time": "2019-09-10T15:55:05",
                "url": "https://files.pythonhosted.org/packages/46/ec/2a864a7ea297b424e665adc7520fb0592e8aea74ad76615e8944e6937b48/pbga-0.0.1-py3.7.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "6c1410f060581568bba74c2c30a37af1",
                    "sha256": "fddc2be0cf8aa607b4c2044f3109ca6a8afb9806c8a87599c4ff94053321d695"
                },
                "downloads": -1,
                "filename": "pbga-0.0.1-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "6c1410f060581568bba74c2c30a37af1",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2096281,
                "upload_time": "2019-09-10T15:55:00",
                "url": "https://files.pythonhosted.org/packages/b9/f5/337e903225753b33d8b83c6bea65d342e2cf5ad051b33ad131f361df5f03/pbga-0.0.1-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "411f342b4fcacef2ba90ec32d33dbc77",
                    "sha256": "7c1d8fdfa8ee94fd8875361369bdbe40ab0248670a6a1ad5d7cea5c7c3559912"
                },
                "downloads": -1,
                "filename": "pbga-0.0.1.tar.gz",
                "has_sig": true,
                "md5_digest": "411f342b4fcacef2ba90ec32d33dbc77",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2084513,
                "upload_time": "2019-09-10T15:55:07",
                "url": "https://files.pythonhosted.org/packages/cb/3e/1e238458b6177cafa1f8ae19c903413b779001bca03bb6bdc8f4fb4a94c1/pbga-0.0.1.tar.gz"
            }
        ],
        "0.0.2": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "c7e824001e7f66c5b3fe7bd12b5658d1",
                    "sha256": "b57fa42c264aa2185d6e42d4a6c18e3ab033c56fa151474b58e2c8f1f14bd982"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2-py3.7.egg",
                "has_sig": true,
                "md5_digest": "c7e824001e7f66c5b3fe7bd12b5658d1",
                "packagetype": "bdist_egg",
                "python_version": "3.7",
                "requires_python": null,
                "size": 2083917,
                "upload_time": "2019-09-10T16:04:08",
                "url": "https://files.pythonhosted.org/packages/c8/40/b7e440052bdc0ab63f927d5ac248dc686afd677c8cda5c320492a13923e0/pbga-0.0.2-py3.7.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "58b23da056d05a215bacbc7ded0d2858",
                    "sha256": "b37a1e595be72d76161f2431af963bd081cc705b2f40d9be644fc7f6fb6a24d5"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "58b23da056d05a215bacbc7ded0d2858",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2096327,
                "upload_time": "2019-09-10T16:04:05",
                "url": "https://files.pythonhosted.org/packages/9b/08/e9dc95afff446bad64e6e754ca6e2d9bc49e62bb7d84362dfd2ae1a2eec5/pbga-0.0.2-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "a65c6e368941b2ddb5f6afc88d919d9b",
                    "sha256": "fb1b2762f3f9f262ed4c79b8df12d594c2befa56316b8d30adbd1927850961a1"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2.tar.gz",
                "has_sig": true,
                "md5_digest": "a65c6e368941b2ddb5f6afc88d919d9b",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2084635,
                "upload_time": "2019-09-10T16:04:11",
                "url": "https://files.pythonhosted.org/packages/16/b0/8ac51adb223d32fd3898fc4a8b696b032f6a9f5a4bff19ace2707db99d17/pbga-0.0.2.tar.gz"
            }
        ],
        "0.0.2.dev0": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "ab791b047d218fefdb65b0e0a464e612",
                    "sha256": "a86e071b5a6b0a11caa31362dcfb242076b9e0c470b4828b6fecb0a969a97cbf"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2.dev0-py3.7.egg",
                "has_sig": true,
                "md5_digest": "ab791b047d218fefdb65b0e0a464e612",
                "packagetype": "bdist_egg",
                "python_version": "3.7",
                "requires_python": null,
                "size": 2083947,
                "upload_time": "2019-09-10T16:02:09",
                "url": "https://files.pythonhosted.org/packages/bd/48/aa9f16b52f28ff4a2690c51213be7c28819130880c0e398de096516aeb48/pbga-0.0.2.dev0-py3.7.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "91e6ccd665a976fe8ea348918b94b2ab",
                    "sha256": "ffd178a1b22dbbf89bb086b48d61ca9009b85a64200bc07948f24d5c4d3b293a"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2.dev0-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "91e6ccd665a976fe8ea348918b94b2ab",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2096413,
                "upload_time": "2019-09-10T16:02:07",
                "url": "https://files.pythonhosted.org/packages/90/0e/28504bc3dc988f4c229c7cdd6f87dbbdedc7b40dccef71bb611cc89ec189/pbga-0.0.2.dev0-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "0eae18a401192e98f95b59cf15f3fbb9",
                    "sha256": "8fd938e95cb929ce9106b5e2711beacbf8f3b4f8c3ec79dba0045dfadc65e1a5"
                },
                "downloads": -1,
                "filename": "pbga-0.0.2.dev0.tar.gz",
                "has_sig": true,
                "md5_digest": "0eae18a401192e98f95b59cf15f3fbb9",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2084720,
                "upload_time": "2019-09-10T16:02:12",
                "url": "https://files.pythonhosted.org/packages/a1/75/9386b37fffebb53ebf107d22a91679d7d319249eab95018fd5eabbbd65e8/pbga-0.0.2.dev0.tar.gz"
            }
        ],
        "0.0.3": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "5a167110b6e71e724bfee395685b2554",
                    "sha256": "de3dfbe9da6eb88151ae30e3ac78b6e1affc8e166ca95443434ead5f17debad8"
                },
                "downloads": -1,
                "filename": "pbga-0.0.3-py3.7.egg",
                "has_sig": true,
                "md5_digest": "5a167110b6e71e724bfee395685b2554",
                "packagetype": "bdist_egg",
                "python_version": "3.7",
                "requires_python": null,
                "size": 2083961,
                "upload_time": "2019-09-10T16:14:18",
                "url": "https://files.pythonhosted.org/packages/9b/83/225fe0db0bac8c426ed5ca633a04e5cc3d56c309cd42f0a089abbfa580cd/pbga-0.0.3-py3.7.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "1f8e6f90cb163ad41f4a0a6cf596ea1d",
                    "sha256": "a823c3fa2406242d239bbf1b5fc6b27965d9c25aa491a03b6df2103401081e5b"
                },
                "downloads": -1,
                "filename": "pbga-0.0.3-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "1f8e6f90cb163ad41f4a0a6cf596ea1d",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2096367,
                "upload_time": "2019-09-10T16:14:16",
                "url": "https://files.pythonhosted.org/packages/17/37/317343233dd5e5f1d3f42e05c645e39f8f11a2f0b78bfb57b13bf2f65f3b/pbga-0.0.3-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "546449cf4cbfc12ba8b50d44b40621db",
                    "sha256": "69506c19300ad920d7aec5a76692415d6b64cabf1fce6b47a02a7a187f540ccd"
                },
                "downloads": -1,
                "filename": "pbga-0.0.3.tar.gz",
                "has_sig": true,
                "md5_digest": "546449cf4cbfc12ba8b50d44b40621db",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2084692,
                "upload_time": "2019-09-10T16:14:21",
                "url": "https://files.pythonhosted.org/packages/69/46/07f509aa2698eeeeee0d0a6a630d81ef85d4ff33b42ce118a62f04dd1ebd/pbga-0.0.3.tar.gz"
            }
        ],
        "0.0.4": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "2623c7f2902fc77434149d6db614acaa",
                    "sha256": "a11efac67b4f96cd4dea466675320a3d057d966aba036af355ee4a104b2824b9"
                },
                "downloads": -1,
                "filename": "pbga-0.0.4-py3.6.egg",
                "has_sig": true,
                "md5_digest": "2623c7f2902fc77434149d6db614acaa",
                "packagetype": "bdist_egg",
                "python_version": "3.6",
                "requires_python": null,
                "size": 2083973,
                "upload_time": "2019-09-10T19:06:48",
                "url": "https://files.pythonhosted.org/packages/ab/a4/6dc6510c708419a2bbf0b48047526c815bbe90cc2d8b8cf0f010cb491186/pbga-0.0.4-py3.6.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "4d1d15f13f11d7bb0d6482c00dbf6c3e",
                    "sha256": "c5588994cb2b3110f40447985574938ec0f577a64f06e44daeaf90f93c617ce8"
                },
                "downloads": -1,
                "filename": "pbga-0.0.4-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "4d1d15f13f11d7bb0d6482c00dbf6c3e",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2096379,
                "upload_time": "2019-09-10T19:06:46",
                "url": "https://files.pythonhosted.org/packages/21/23/9b5661987686b653ceb5ff3262f20ec1646011b12aedf670921f328dd058/pbga-0.0.4-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "b3d8f969727a094e321893def7db26d4",
                    "sha256": "5fb88eb043585d00e0ae716a791eb9e61520178df554d78ca39ec414394ca11c"
                },
                "downloads": -1,
                "filename": "pbga-0.0.4.tar.gz",
                "has_sig": true,
                "md5_digest": "b3d8f969727a094e321893def7db26d4",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2084614,
                "upload_time": "2019-09-10T19:06:51",
                "url": "https://files.pythonhosted.org/packages/c0/d8/340326aef2b4fd134e1b98e063eb9f4dd7e71a9cbf828d42fb8fb3122c01/pbga-0.0.4.tar.gz"
            }
        ],
        "0.0.6": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "f818544b944f20b7f0da22fe39c8b825",
                    "sha256": "4c11b2bb77ccf33a9e2a08c5fed66ec97c345eef38a4ba98338ac25673fd1b27"
                },
                "downloads": -1,
                "filename": "pbga-0.0.6-py3.6.egg",
                "has_sig": true,
                "md5_digest": "f818544b944f20b7f0da22fe39c8b825",
                "packagetype": "bdist_egg",
                "python_version": "3.6",
                "requires_python": null,
                "size": 2090201,
                "upload_time": "2019-09-12T20:13:52",
                "url": "https://files.pythonhosted.org/packages/6f/88/a4252de11a06ed91aaa56070d5ee8472bfdc55b52317346c326cb508508c/pbga-0.0.6-py3.6.egg"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "af78c574967fb050d7faeb73038bda1b",
                    "sha256": "1ec632d7fa4527daea8c4000b1eaf8cb43fc0ebede4be76218a1261cb76dba1d"
                },
                "downloads": -1,
                "filename": "pbga-0.0.6-py3-none-any.whl",
                "has_sig": true,
                "md5_digest": "af78c574967fb050d7faeb73038bda1b",
                "packagetype": "bdist_wheel",
                "python_version": "py3",
                "requires_python": null,
                "size": 2102712,
                "upload_time": "2019-09-12T20:13:49",
                "url": "https://files.pythonhosted.org/packages/46/98/52e3fdf33cce753b6d6baca3899d2a3c4642aee0377143f3aa81e5faf820/pbga-0.0.6-py3-none-any.whl"
            },
            {
                "comment_text": "",
                "digests": {
                    "md5": "75c379bf3e14509a5090c3358446e2d1",
                    "sha256": "0810bb2b4e0a7e223cd24d099a5c4f8998ef142db3bb7f01bc1469afb75507b6"
                },
                "downloads": -1,
                "filename": "pbga-0.0.6.tar.gz",
                "has_sig": true,
                "md5_digest": "75c379bf3e14509a5090c3358446e2d1",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 2090970,
                "upload_time": "2019-09-12T20:13:55",
                "url": "https://files.pythonhosted.org/packages/dc/a0/22a1b6b39fe7c1da4ca8ae5f3a4ee33ce448bc1e6573ee863073d3386338/pbga-0.0.6.tar.gz"
            }
        ]
    },
    "urls": [
        {
            "comment_text": "",
            "digests": {
                "md5": "f818544b944f20b7f0da22fe39c8b825",
                "sha256": "4c11b2bb77ccf33a9e2a08c5fed66ec97c345eef38a4ba98338ac25673fd1b27"
            },
            "downloads": -1,
            "filename": "pbga-0.0.6-py3.6.egg",
            "has_sig": true,
            "md5_digest": "f818544b944f20b7f0da22fe39c8b825",
            "packagetype": "bdist_egg",
            "python_version": "3.6",
            "requires_python": null,
            "size": 2090201,
            "upload_time": "2019-09-12T20:13:52",
            "url": "https://files.pythonhosted.org/packages/6f/88/a4252de11a06ed91aaa56070d5ee8472bfdc55b52317346c326cb508508c/pbga-0.0.6-py3.6.egg"
        },
        {
            "comment_text": "",
            "digests": {
                "md5": "af78c574967fb050d7faeb73038bda1b",
                "sha256": "1ec632d7fa4527daea8c4000b1eaf8cb43fc0ebede4be76218a1261cb76dba1d"
            },
            "downloads": -1,
            "filename": "pbga-0.0.6-py3-none-any.whl",
            "has_sig": true,
            "md5_digest": "af78c574967fb050d7faeb73038bda1b",
            "packagetype": "bdist_wheel",
            "python_version": "py3",
            "requires_python": null,
            "size": 2102712,
            "upload_time": "2019-09-12T20:13:49",
            "url": "https://files.pythonhosted.org/packages/46/98/52e3fdf33cce753b6d6baca3899d2a3c4642aee0377143f3aa81e5faf820/pbga-0.0.6-py3-none-any.whl"
        },
        {
            "comment_text": "",
            "digests": {
                "md5": "75c379bf3e14509a5090c3358446e2d1",
                "sha256": "0810bb2b4e0a7e223cd24d099a5c4f8998ef142db3bb7f01bc1469afb75507b6"
            },
            "downloads": -1,
            "filename": "pbga-0.0.6.tar.gz",
            "has_sig": true,
            "md5_digest": "75c379bf3e14509a5090c3358446e2d1",
            "packagetype": "sdist",
            "python_version": "source",
            "requires_python": null,
            "size": 2090970,
            "upload_time": "2019-09-12T20:13:55",
            "url": "https://files.pythonhosted.org/packages/dc/a0/22a1b6b39fe7c1da4ca8ae5f3a4ee33ce448bc1e6573ee863073d3386338/pbga-0.0.6.tar.gz"
        }
    ]
}