{
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        "author": "Matteo Manica",
        "author_email": "drugilsberg@gmail.com",
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            "License :: OSI Approved :: MIT License",
            "Programming Language :: Python :: 3",
            "Programming Language :: Python :: 3.6",
            "Programming Language :: Python :: 3.7",
            "Topic :: Software Development :: Libraries :: Python Modules"
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        "description": "[![Build Status](https://travis-ci.org/drugilsberg/uniprot_fasta_parser.svg?branch=master)](https://travis-ci.org/drugilsberg/uniprot_fasta_parser)\n[![codecov](https://codecov.io/gh/drugilsberg/uniprot_fasta_parser/branch/master/graph/badge.svg)](https://codecov.io/gh/drugilsberg/uniprot_fasta_parser)\n[![Updates](https://pyup.io/repos/github/drugilsberg/uniprot_fasta_parser/shield.svg)](https://pyup.io/repos/github/drugilsberg/uniprot_fasta_parser/)\n[![License: MIT](https://img.shields.io/badge/License-MIT-yellow.svg)](https://opensource.org/licenses/MIT)\n[![PyPI version](https://badge.fury.io/py/upfp.svg)](https://badge.fury.io/py/upfp)\n# uniprot_fasta_parser\n\nUniProt FASTA parser written in pure python.\n\n## Development setup\n\nCreate a `venv`:\n\n```sh\npython -m venv venv\n```\n\nActivate it:\n\n```sh\nsource venv/bin/activate\n```\n\nInstall dependencies:\n\n```sh\npip install -r requirements.txt\n```\n\nInstall the package in editable mode:\n\n```sh\npip install -e .\n```\n\nInstall `jupiter` playground:\n\n```sh\npip install jupyter\nipython kernel install --user --name=uniprot_fasta_parser\n```\n\n## Tutorial on converting FASTA sequences into CSV format\n\nGet the latest FASTA from UniProt SwissProt:\n\n```sh\nwget ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/complete/uniprot_sprot.fasta.gz\n```\n\nThe script `upfp-fasta-to-csv` (installed with `upfp`) can be used.\n\n```console\nuser@host $ upfp-fasta-to-csv -h\nusage: upfp-fasta-to-csv [-h] [-g] [-c CHUNK_SIZE] fasta_filepath csv_filepath\n\npositional arguments:\n  fasta_filepath        path to the FASTA file\n  csv_filepath          path where to store the CSV file\n\noptional arguments:\n  -h, --help            show this help message and exit\n  -g, --gzipped         flag to indicate whether the FASTA is gzipped.\n                        Defaults to False.\n  -c CHUNK_SIZE, --chunk_size CHUNK_SIZE\n                        size of the chunks us\n```\n\nProvide as input the downloaded gzipped FASTA file and convert it to CSV:\n\n```sh\nupfp-fasta-to-csv uniprot_sprot.fasta.gz /path/to/file.csv -g\n```\n\n\n",
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