{
    "info": {
        "author": "EGA team",
        "author_email": "ega-helpdesk@ebi.ac.uk",
        "bugtrack_url": null,
        "classifiers": [
            "Development Status :: 3 - Alpha",
            "License :: OSI Approved :: Apache Software License",
            "Programming Language :: Python :: 3.4",
            "Topic :: Scientific/Engineering :: Bio-Informatics"
        ],
        "description": "EGA python client - pyEGA3\npyEGA3 uses the EGA REST API to download authorized datasets and files\n\nCurrently works only with Python3\n\nREQUIREMENTS:\nPython \"requests\" module\nhttp://docs.python-requests.org/en/master/\npip3 install requests\n\nFirewall Ports\nThis client makes https calls to the EGA AAI (https://ega.ebi.ac.uk:8443/) and to the EGA Data API (https://ega.ebi.ac.uk:8051). Both ports 8443 and 8051 must be reachable from the location where this client script is run. Otherwise you will experience timeouts.\n(e.g. https://ega.ebi.ac.uk:8443/ega-openid-connect-server/, https://ega.ebi.ac.uk:8051/elixir/central/stats/load should not time out).\n----------------------------------------------------------------------------------\nINSTALLATION via Pip:\nsudo pip3 install pyega3\n----------------------------------------------------------------------------------\nINSTALLATION via Conda(Bioconda channel):\nconda config --add channels bioconda\nconda config --add channels conda-forge\nconda install pyega3\n----------------------------------------------------------------------------------\nUSAGE:\npyega3 [-h] [-d] -cf CREDENTIALS_FILE [-c CONNECTIONS] {datasets,files,fetch} ...\n\nDownload from EMBL EBI's EGA (European Genome-phenome Archive)\n\npositional arguments:\n  {datasets,files,fetch}\n                        subcommands\n    datasets            List authorized datasets\n    files               List files in a specified dataset\n    fetch               Fetch a dataset or file\n\noptional arguments:\n  -h, --help            show this help message and exit\n  -d, --debug           Extra debugging messages\n  -cf CREDENTIALS_FILE, --credentials-file CREDENTIALS_FILE\n                        JSON file containing credentials\n                        e.g.{'username':'user1','password':'toor'}\n  -c CONNECTIONS, --connections CONNECTIONS\n                        Download using specified number of connections                      \n                        \n----------------------------------------------------------------------------------\n  \nCredentials file supposed to be in json format e.g:\n{\n    \"username\": \"my.email@domain.edu\",\n    \"password\": \"mypassword\",    \n    \"client_secret\":\"AMenuDLjVdVo4BSwi0QD54LL6NeVDEZRzEQUJ7hJOM3g4imDZBHHX0hNfKHPeQIGkskhtCmqAJtt_jm7EKq-rWw\"\n}\n\nYour username and password are provided to you by EGA.\nSpecifying password is not mandatory - if password is not provided \nthe user will be asked to enter it from the console\n\n----------------------------------------------------------------------------------\n\nParallelism ( download via multiple connections ) works on the file level, \nbut still usable while downloading whole dataset. \nIf -c command line switch is provided all big files (>100Mb) in the \ndataset will be downloaded using specified # of connections.\n\nThe number of connections breaks down individual file downloads into segments, \nwhich are then downloaded in parallel. So using a very high number actually \nintroduces overhead that slows down the download of the file.\nFiles are still downloaded in sequence \u2013 so multiple connections doesn't mean \ndownloading multiple files in parallel, if an entire dataset is being downloaded.\n\n----------------------------------------------------------------------------------\n\nGENOMIC RANGE REQUESTS ( via Htsget protocol ) :\n\nusage: pyega3 fetch [-h] [--reference-name REFERENCE_NAME]\n                    [--reference-md5 REFERENCE_MD5] [--start START]\n                    [--end END] [--format {BAM,CRAM}] [--saveto [SAVETO]]\n                    identifier\n\npositional arguments:\n  identifier            Id for dataset (e.g. EGAD00000000001) or file (e.g.\n                        EGAF12345678901)\n\noptional arguments:\n  -h, --help            show this help message and exit\n  --reference-name REFERENCE_NAME, -r REFERENCE_NAME\n                        The reference sequence name, for example 'chr1', '1',\n                        or 'chrX'. If unspecified, all data is returned.\n  --reference-md5 REFERENCE_MD5, -m REFERENCE_MD5\n                        The MD5 checksum uniquely representing the requested\n                        reference sequence as a lower-case hexadecimal string,\n                        calculated as the MD5 of the upper-case sequence\n                        excluding all whitespace characters.\n  --start START, -s START\n                        The start position of the range on the reference,\n                        0-based, inclusive. If specified, reference-name or\n                        reference-md5 must also be specified.\n  --end END, -e END     The end position of the range on the reference,\n                        0-based exclusive. If specified, reference-name or\n                        reference-md5 must also be specified.\n  --format {BAM,CRAM}, -f {BAM,CRAM}\n                        The format of data to request.\n  --max-retries MAX_RETRIES, -M MAX_RETRIES\n                        The maximum number of times to retry a failed\n                        transfer. Any negative number means infinite number of\n                        retries( default value = 5 ).\n  --retry-wait RETRY_WAIT, -W RETRY_WAIT\n                        The number of seconds to wait before retrying a failed\n                        transfer( default value = 5 ).\n  --saveto [SAVETO]     Output file(for files)/output dir(for datasets)",
        "description_content_type": "text/plain",
        "docs_url": null,
        "download_url": "",
        "downloads": {
            "last_day": -1,
            "last_month": -1,
            "last_week": -1
        },
        "home_page": "https://github.com/EGA-archive/ega-download-client",
        "keywords": "EGA,archive",
        "license": "Apache License, Version 2.0",
        "maintainer": "",
        "maintainer_email": "",
        "name": "pyega3",
        "package_url": "https://pypi.org/project/pyega3/",
        "platform": "",
        "project_url": "https://pypi.org/project/pyega3/",
        "project_urls": {
            "Homepage": "https://github.com/EGA-archive/ega-download-client"
        },
        "release_url": "https://pypi.org/project/pyega3/3.0.39/",
        "requires_dist": null,
        "requires_python": "",
        "summary": "EGA python client",
        "version": "3.0.39"
    },
    "last_serial": 5709614,
    "releases": {
        "3.0.18": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "8dd1c49cb639f6dcc1e2f603991476a1",
                    "sha256": "90eca51e4a780920952a077646796b7d34c4b9be914ddfe2c32be2aa58bc9c9b"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.18.tar.gz",
                "has_sig": false,
                "md5_digest": "8dd1c49cb639f6dcc1e2f603991476a1",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10224,
                "upload_time": "2018-06-28T15:12:12",
                "url": "https://files.pythonhosted.org/packages/eb/18/e28ba2b40ec9da8ce0649b31533e21157c79c74c4fa2889f1cc74b62dddd/pyega3-3.0.18.tar.gz"
            }
        ],
        "3.0.19": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "8f5c268b8d97c2d091f00eba3368bb7d",
                    "sha256": "3bfcf9d71201c82fefea52be3f937b62750a17f1611c54a748da0b8b7c057eee"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.19.tar.gz",
                "has_sig": false,
                "md5_digest": "8f5c268b8d97c2d091f00eba3368bb7d",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10232,
                "upload_time": "2018-06-28T16:12:14",
                "url": "https://files.pythonhosted.org/packages/5f/2a/dfff2a41a9b9f16d65da7b27e6219acbf0a9f88a5ab1a0e504690d7d0c19/pyega3-3.0.19.tar.gz"
            }
        ],
        "3.0.21": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "194ca8e8a6e9a6fcf5a131936f8e5b22",
                    "sha256": "4ffb56a7a50a3f2b667277a46b6a453d1498da933d5f8b342f659e5720dca8ca"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.21.tar.gz",
                "has_sig": false,
                "md5_digest": "194ca8e8a6e9a6fcf5a131936f8e5b22",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10329,
                "upload_time": "2018-08-29T10:26:28",
                "url": "https://files.pythonhosted.org/packages/a5/3e/06a7a6331c40a48bd387b8a560e64abd1b3cb80e9b2c0af682eaa315cd89/pyega3-3.0.21.tar.gz"
            }
        ],
        "3.0.22": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "2381b16ae89fe2e75888f63d949228cb",
                    "sha256": "d1f96986e723013e2ea5f2aef9957c89726ce02546f6b00a4f220da7a9128fd4"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.22.tar.gz",
                "has_sig": false,
                "md5_digest": "2381b16ae89fe2e75888f63d949228cb",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10367,
                "upload_time": "2018-08-30T11:10:04",
                "url": "https://files.pythonhosted.org/packages/ce/80/9b613032cecba26669b395ccb7792ae84fdfb70be5d50f235647897e3c17/pyega3-3.0.22.tar.gz"
            }
        ],
        "3.0.23": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "c5de33c3567d31302be6545946885a36",
                    "sha256": "870f6738479cf67d1ec567e02fc6d610d2532661c14221d738f96500bacfe892"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.23.tar.gz",
                "has_sig": false,
                "md5_digest": "c5de33c3567d31302be6545946885a36",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10456,
                "upload_time": "2018-08-30T13:42:12",
                "url": "https://files.pythonhosted.org/packages/e8/19/b25c2c5e74dbbd3009ff3a798057aa1ce7a8619fe9f671acab73d3b830ca/pyega3-3.0.23.tar.gz"
            }
        ],
        "3.0.24": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "93b9577ab0b82aa1a25b90f53e34ad5f",
                    "sha256": "a89d83208d746dd4a53e273d585ce4d0b4290314b06f1a16a6e4f88cd7259ffa"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.24.tar.gz",
                "has_sig": false,
                "md5_digest": "93b9577ab0b82aa1a25b90f53e34ad5f",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 10657,
                "upload_time": "2018-08-31T12:47:48",
                "url": "https://files.pythonhosted.org/packages/29/e3/be63789c2fb51cb36a81959a1a994f4d04971dc4829becd0efd722687c75/pyega3-3.0.24.tar.gz"
            }
        ],
        "3.0.27": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "64f10f02fa672acae42721b1d5f310cb",
                    "sha256": "983965ad8b7a699b86204afbbe4b14e9231cb57466858fa23a934451e3643028"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.27.tar.gz",
                "has_sig": false,
                "md5_digest": "64f10f02fa672acae42721b1d5f310cb",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14691,
                "upload_time": "2018-09-24T14:25:11",
                "url": "https://files.pythonhosted.org/packages/6d/17/12ac364f056b40f5b0d6c48cac4f8ab142a85c413a3ea2befcb6b1c221fc/pyega3-3.0.27.tar.gz"
            }
        ],
        "3.0.28": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "9257d767854ac1d2538f993336bf20c1",
                    "sha256": "ebd90ff13e65f09604d375e1f6677d95f5ffd884a3105c83fde38e140a16baae"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.28.tar.gz",
                "has_sig": false,
                "md5_digest": "9257d767854ac1d2538f993336bf20c1",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14376,
                "upload_time": "2019-01-28T10:45:17",
                "url": "https://files.pythonhosted.org/packages/4f/ae/463f85ca290c01a82362d77812eb89c2fe8337caa2860fc0d71a5bc8b4b9/pyega3-3.0.28.tar.gz"
            }
        ],
        "3.0.29": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "e82a1ccf6ae4a5358b992408932197e1",
                    "sha256": "ea23361b0b9bd758e486df8d59dbecd8fa8e12336cc6d3fd5b8d1e152cd87bb2"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.29.tar.gz",
                "has_sig": false,
                "md5_digest": "e82a1ccf6ae4a5358b992408932197e1",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14547,
                "upload_time": "2019-02-01T16:31:37",
                "url": "https://files.pythonhosted.org/packages/06/b3/df0a4ce9880361f22975942d4143f6bf191c48ba14cca705689a377e3819/pyega3-3.0.29.tar.gz"
            }
        ],
        "3.0.30": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "8662812eeb07a00d0a2c462adf20a3fc",
                    "sha256": "10e0996fd5388667424ccdfd232c8de026e8a119aff276a542f3870fdc96b6d7"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.30.tar.gz",
                "has_sig": false,
                "md5_digest": "8662812eeb07a00d0a2c462adf20a3fc",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14557,
                "upload_time": "2019-02-01T16:31:33",
                "url": "https://files.pythonhosted.org/packages/df/da/e71ef620b60263cd1cac9739121508cea49244399d54c143e6bd40dc5b4b/pyega3-3.0.30.tar.gz"
            }
        ],
        "3.0.31": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "8c7d5957bfa217c40b02879082a2f2ef",
                    "sha256": "4981b31a45507ecab09f7594e48e4d87fedefe998c78d288d2a95dcaa15bf6c4"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.31.tar.gz",
                "has_sig": false,
                "md5_digest": "8c7d5957bfa217c40b02879082a2f2ef",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14626,
                "upload_time": "2019-04-08T15:20:03",
                "url": "https://files.pythonhosted.org/packages/d0/0e/dc0435e49326f01179e7fcc53a935953094be710cf7bc0afb9d2900f4fc3/pyega3-3.0.31.tar.gz"
            }
        ],
        "3.0.32": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "9ed6f52f4aa39f3279304867d2c143ac",
                    "sha256": "7f6d79e195b8ac70196f122a2aeca4412c6d80a2da1db4d538b7d9825aeeca56"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.32.tar.gz",
                "has_sig": false,
                "md5_digest": "9ed6f52f4aa39f3279304867d2c143ac",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 14816,
                "upload_time": "2019-04-11T14:47:38",
                "url": "https://files.pythonhosted.org/packages/9c/0c/6c752bcaaa0577e842f4758581caa978c97ac153ba9a3c1b837002353b92/pyega3-3.0.32.tar.gz"
            }
        ],
        "3.0.33": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "73ea5fa36b2a8bc087d203f2f027a319",
                    "sha256": "9e8ca2c5727f704d2d0302df5e2201c6756606831fe3098847769e4cabda8b2d"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.33.tar.gz",
                "has_sig": false,
                "md5_digest": "73ea5fa36b2a8bc087d203f2f027a319",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 15221,
                "upload_time": "2019-04-15T14:47:51",
                "url": "https://files.pythonhosted.org/packages/12/be/2144273ef0805f8546d7acbd63147f66b8ac5c1810e0b5549eb1ebcf542f/pyega3-3.0.33.tar.gz"
            }
        ],
        "3.0.36": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "8cc02e8c0048dbf49dbafa82cb65aff8",
                    "sha256": "6b227619747e3157b031d0b7e0d54489f40302d0ffb36a82832f0596460d4665"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.36.tar.gz",
                "has_sig": false,
                "md5_digest": "8cc02e8c0048dbf49dbafa82cb65aff8",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 15337,
                "upload_time": "2019-06-05T16:21:23",
                "url": "https://files.pythonhosted.org/packages/7e/29/acc03d2cb33610c624cc7dcc454b71e1cc591ae480d1bbef34b09951e496/pyega3-3.0.36.tar.gz"
            }
        ],
        "3.0.37": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "a93b6f3b611461012fb3523c22dbdb2e",
                    "sha256": "ab08fab41760f183dfc00ef8b57064e073ae9ef7a678da9a6b03634dad8c3ebf"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.37.tar.gz",
                "has_sig": false,
                "md5_digest": "a93b6f3b611461012fb3523c22dbdb2e",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 15593,
                "upload_time": "2019-06-17T08:56:28",
                "url": "https://files.pythonhosted.org/packages/05/8c/2f8bbecc149df3d5de5dbe188ba55555c0300fa8143c318b48449e0c9f9e/pyega3-3.0.37.tar.gz"
            }
        ],
        "3.0.38": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "6fb8c9794330225d1cf333980a6f4abe",
                    "sha256": "07e6e37fd50f63478810d406ea2beb78cbbbd1be68b14bd8ee61669977438542"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.38.tar.gz",
                "has_sig": false,
                "md5_digest": "6fb8c9794330225d1cf333980a6f4abe",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 15606,
                "upload_time": "2019-06-17T09:09:08",
                "url": "https://files.pythonhosted.org/packages/22/c2/6c4c7b7b982310d831436cda467bd33709a9af36ca6679ee3a56bc4db60a/pyega3-3.0.38.tar.gz"
            }
        ],
        "3.0.39": [
            {
                "comment_text": "",
                "digests": {
                    "md5": "c49ffdab9c709bed2af2f16d477f6337",
                    "sha256": "6e3ffe038ce8efe0087f6e1bd92f12566b2a424366412670f3c5f01eb430694e"
                },
                "downloads": -1,
                "filename": "pyega3-3.0.39.tar.gz",
                "has_sig": false,
                "md5_digest": "c49ffdab9c709bed2af2f16d477f6337",
                "packagetype": "sdist",
                "python_version": "source",
                "requires_python": null,
                "size": 15710,
                "upload_time": "2019-08-21T13:07:50",
                "url": "https://files.pythonhosted.org/packages/f9/29/65c7e19b06b0aa8e3359558227f52703927afa531cfeffcdc27c13bac8c6/pyega3-3.0.39.tar.gz"
            }
        ]
    },
    "urls": [
        {
            "comment_text": "",
            "digests": {
                "md5": "c49ffdab9c709bed2af2f16d477f6337",
                "sha256": "6e3ffe038ce8efe0087f6e1bd92f12566b2a424366412670f3c5f01eb430694e"
            },
            "downloads": -1,
            "filename": "pyega3-3.0.39.tar.gz",
            "has_sig": false,
            "md5_digest": "c49ffdab9c709bed2af2f16d477f6337",
            "packagetype": "sdist",
            "python_version": "source",
            "requires_python": null,
            "size": 15710,
            "upload_time": "2019-08-21T13:07:50",
            "url": "https://files.pythonhosted.org/packages/f9/29/65c7e19b06b0aa8e3359558227f52703927afa531cfeffcdc27c13bac8c6/pyega3-3.0.39.tar.gz"
        }
    ]
}