added setup.py & pipenv for development

.gitignore

@@ -0,0 +1,5 @@
+.coverage
+.ipynb_checkpoints/
+build/
+dist/
+version.py

Pipfile

@@ -0,0 +1,16 @@
+[[source]]
+url = "https://pypi.org/simple"
+verify_ssl = true
+name = "pypi"
+
+[packages]
+pubmed-bibtex = {editable = true, path = "."}
+
+[dev-packages]
+pylint = ">=2.3.0,<3"
+pytest = "<5"
+pytest-cov = "<3,>=2"
+"autopep8" = "<2"
+
+[requires]
+python_version = "3"

Pipfile.lock

@@ -0,0 +1,260 @@
+{
+    "_meta": {
+        "hash": {
+            "sha256": "f8191d54023a8c443312e1733baf9515f018ea8fbdd6efe44968b8eb771221b9"
+        },
+        "pipfile-spec": 6,
+        "requires": {
+            "python_version": "3"
+        },
+        "sources": [
+            {
+                "name": "pypi",
+                "url": "https://pypi.org/simple",
+                "verify_ssl": true
+            }
+        ]
+    },
+    "default": {
+        "certifi": {
+            "hashes": [
+                "sha256:59b7658e26ca9c7339e00f8f4636cdfe59d34fa37b9b04f6f9e9926b3cece1a5",
+                "sha256:b26104d6835d1f5e49452a26eb2ff87fe7090b89dfcaee5ea2212697e1e1d7ae"
+            ],
+            "version": "==2019.3.9"
+        },
+        "chardet": {
+            "hashes": [
+                "sha256:84ab92ed1c4d4f16916e05906b6b75a6c0fb5db821cc65e70cbd64a3e2a5eaae",
+                "sha256:fc323ffcaeaed0e0a02bf4d117757b98aed530d9ed4531e3e15460124c106691"
+            ],
+            "version": "==3.0.4"
+        },
+        "idna": {
+            "hashes": [
+                "sha256:c357b3f628cf53ae2c4c05627ecc484553142ca23264e593d327bcde5e9c3407",
+                "sha256:ea8b7f6188e6fa117537c3df7da9fc686d485087abf6ac197f9c46432f7e4a3c"
+            ],
+            "version": "==2.8"
+        },
+        "pubmed-bibtex": {
+            "editable": true,
+            "path": "."
+        },
+        "requests": {
+            "hashes": [
+                "sha256:502a824f31acdacb3a35b6690b5fbf0bc41d63a24a45c4004352b0242707598e",
+                "sha256:7bf2a778576d825600030a110f3c0e3e8edc51dfaafe1c146e39a2027784957b"
+            ],
+            "version": "==2.21.0"
+        },
+        "urllib3": {
+            "hashes": [
+                "sha256:2393a695cd12afedd0dcb26fe5d50d0cf248e5a66f75dbd89a3d4eb333a61af4",
+                "sha256:a637e5fae88995b256e3409dc4d52c2e2e0ba32c42a6365fee8bbd2238de3cfb"
+            ],
+            "version": "==1.24.3"
+        }
+    },
+    "develop": {
+        "astroid": {
+            "hashes": [
+                "sha256:6560e1e1749f68c64a4b5dee4e091fce798d2f0d84ebe638cf0e0585a343acf4",
+                "sha256:b65db1bbaac9f9f4d190199bb8680af6f6f84fd3769a5ea883df8a91fe68b4c4"
+            ],
+            "version": "==2.2.5"
+        },
+        "atomicwrites": {
+            "hashes": [
+                "sha256:03472c30eb2c5d1ba9227e4c2ca66ab8287fbfbbda3888aa93dc2e28fc6811b4",
+                "sha256:75a9445bac02d8d058d5e1fe689654ba5a6556a1dfd8ce6ec55a0ed79866cfa6"
+            ],
+            "version": "==1.3.0"
+        },
+        "attrs": {
+            "hashes": [
+                "sha256:69c0dbf2ed392de1cb5ec704444b08a5ef81680a61cb899dc08127123af36a79",
+                "sha256:f0b870f674851ecbfbbbd364d6b5cbdff9dcedbc7f3f5e18a6891057f21fe399"
+            ],
+            "version": "==19.1.0"
+        },
+        "autopep8": {
+            "hashes": [
+                "sha256:4d8eec30cc81bc5617dbf1218201d770dc35629363547f17577c61683ccfb3ee"
+            ],
+            "index": "pypi",
+            "version": "==1.4.4"
+        },
+        "coverage": {
+            "hashes": [
+                "sha256:3684fabf6b87a369017756b551cef29e505cb155ddb892a7a29277b978da88b9",
+                "sha256:39e088da9b284f1bd17c750ac672103779f7954ce6125fd4382134ac8d152d74",
+                "sha256:3c205bc11cc4fcc57b761c2da73b9b72a59f8d5ca89979afb0c1c6f9e53c7390",
+                "sha256:465ce53a8c0f3a7950dfb836438442f833cf6663d407f37d8c52fe7b6e56d7e8",
+                "sha256:48020e343fc40f72a442c8a1334284620f81295256a6b6ca6d8aa1350c763bbe",
+                "sha256:5296fc86ab612ec12394565c500b412a43b328b3907c0d14358950d06fd83baf",
+                "sha256:5f61bed2f7d9b6a9ab935150a6b23d7f84b8055524e7be7715b6513f3328138e",
+                "sha256:68a43a9f9f83693ce0414d17e019daee7ab3f7113a70c79a3dd4c2f704e4d741",
+                "sha256:6b8033d47fe22506856fe450470ccb1d8ba1ffb8463494a15cfc96392a288c09",
+                "sha256:7ad7536066b28863e5835e8cfeaa794b7fe352d99a8cded9f43d1161be8e9fbd",
+                "sha256:7bacb89ccf4bedb30b277e96e4cc68cd1369ca6841bde7b005191b54d3dd1034",
+                "sha256:839dc7c36501254e14331bcb98b27002aa415e4af7ea039d9009409b9d2d5420",
+                "sha256:8f9a95b66969cdea53ec992ecea5406c5bd99c9221f539bca1e8406b200ae98c",
+                "sha256:932c03d2d565f75961ba1d3cec41ddde00e162c5b46d03f7423edcb807734eab",
+                "sha256:988529edadc49039d205e0aa6ce049c5ccda4acb2d6c3c5c550c17e8c02c05ba",
+                "sha256:998d7e73548fe395eeb294495a04d38942edb66d1fa61eb70418871bc621227e",
+                "sha256:9de60893fb447d1e797f6bf08fdf0dbcda0c1e34c1b06c92bd3a363c0ea8c609",
+                "sha256:9e80d45d0c7fcee54e22771db7f1b0b126fb4a6c0a2e5afa72f66827207ff2f2",
+                "sha256:a545a3dfe5082dc8e8c3eb7f8a2cf4f2870902ff1860bd99b6198cfd1f9d1f49",
+                "sha256:a5d8f29e5ec661143621a8f4de51adfb300d7a476224156a39a392254f70687b",
+                "sha256:aca06bfba4759bbdb09bf52ebb15ae20268ee1f6747417837926fae990ebc41d",
+                "sha256:bb23b7a6fd666e551a3094ab896a57809e010059540ad20acbeec03a154224ce",
+                "sha256:bfd1d0ae7e292105f29d7deaa9d8f2916ed8553ab9d5f39ec65bcf5deadff3f9",
+                "sha256:c62ca0a38958f541a73cf86acdab020c2091631c137bd359c4f5bddde7b75fd4",
+                "sha256:c709d8bda72cf4cd348ccec2a4881f2c5848fd72903c185f363d361b2737f773",
+                "sha256:c968a6aa7e0b56ecbd28531ddf439c2ec103610d3e2bf3b75b813304f8cb7723",
+                "sha256:df785d8cb80539d0b55fd47183264b7002077859028dfe3070cf6359bf8b2d9c",
+                "sha256:f406628ca51e0ae90ae76ea8398677a921b36f0bd71aab2099dfed08abd0322f",
+                "sha256:f46087bbd95ebae244a0eda01a618aff11ec7a069b15a3ef8f6b520db523dcf1",
+                "sha256:f8019c5279eb32360ca03e9fac40a12667715546eed5c5eb59eb381f2f501260",
+                "sha256:fc5f4d209733750afd2714e9109816a29500718b32dd9a5db01c0cb3a019b96a"
+            ],
+            "version": "==4.5.3"
+        },
+        "isort": {
+            "hashes": [
+                "sha256:c40744b6bc5162bbb39c1257fe298b7a393861d50978b565f3ccd9cb9de0182a",
+                "sha256:f57abacd059dc3bd666258d1efb0377510a89777fda3e3274e3c01f7c03ae22d"
+            ],
+            "version": "==4.3.20"
+        },
+        "lazy-object-proxy": {
+            "hashes": [
+                "sha256:159a745e61422217881c4de71f9eafd9d703b93af95618635849fe469a283661",
+                "sha256:23f63c0821cc96a23332e45dfaa83266feff8adc72b9bcaef86c202af765244f",
+                "sha256:3b11be575475db2e8a6e11215f5aa95b9ec14de658628776e10d96fa0b4dac13",
+                "sha256:3f447aff8bc61ca8b42b73304f6a44fa0d915487de144652816f950a3f1ab821",
+                "sha256:4ba73f6089cd9b9478bc0a4fa807b47dbdb8fad1d8f31a0f0a5dbf26a4527a71",
+                "sha256:4f53eadd9932055eac465bd3ca1bd610e4d7141e1278012bd1f28646aebc1d0e",
+                "sha256:64483bd7154580158ea90de5b8e5e6fc29a16a9b4db24f10193f0c1ae3f9d1ea",
+                "sha256:6f72d42b0d04bfee2397aa1862262654b56922c20a9bb66bb76b6f0e5e4f9229",
+                "sha256:7c7f1ec07b227bdc561299fa2328e85000f90179a2f44ea30579d38e037cb3d4",
+                "sha256:7c8b1ba1e15c10b13cad4171cfa77f5bb5ec2580abc5a353907780805ebe158e",
+                "sha256:8559b94b823f85342e10d3d9ca4ba5478168e1ac5658a8a2f18c991ba9c52c20",
+                "sha256:a262c7dfb046f00e12a2bdd1bafaed2408114a89ac414b0af8755c696eb3fc16",
+                "sha256:acce4e3267610c4fdb6632b3886fe3f2f7dd641158a843cf6b6a68e4ce81477b",
+                "sha256:be089bb6b83fac7f29d357b2dc4cf2b8eb8d98fe9d9ff89f9ea6012970a853c7",
+                "sha256:bfab710d859c779f273cc48fb86af38d6e9210f38287df0069a63e40b45a2f5c",
+                "sha256:c10d29019927301d524a22ced72706380de7cfc50f767217485a912b4c8bd82a",
+                "sha256:dd6e2b598849b3d7aee2295ac765a578879830fb8966f70be8cd472e6069932e",
+                "sha256:e408f1eacc0a68fed0c08da45f31d0ebb38079f043328dce69ff133b95c29dc1"
+            ],
+            "version": "==1.4.1"
+        },
+        "mccabe": {
+            "hashes": [
+                "sha256:ab8a6258860da4b6677da4bd2fe5dc2c659cff31b3ee4f7f5d64e79735b80d42",
+                "sha256:dd8d182285a0fe56bace7f45b5e7d1a6ebcbf524e8f3bd87eb0f125271b8831f"
+            ],
+            "version": "==0.6.1"
+        },
+        "more-itertools": {
+            "hashes": [
+                "sha256:2112d2ca570bb7c3e53ea1a35cd5df42bb0fd10c45f0fb97178679c3c03d64c7",
+                "sha256:c3e4748ba1aad8dba30a4886b0b1a2004f9a863837b8654e7059eebf727afa5a"
+            ],
+            "markers": "python_version > '2.7'",
+            "version": "==7.0.0"
+        },
+        "pluggy": {
+            "hashes": [
+                "sha256:25a1bc1d148c9a640211872b4ff859878d422bccb59c9965e04eed468a0aa180",
+                "sha256:964cedd2b27c492fbf0b7f58b3284a09cf7f99b0f715941fb24a439b3af1bd1a"
+            ],
+            "version": "==0.11.0"
+        },
+        "py": {
+            "hashes": [
+                "sha256:64f65755aee5b381cea27766a3a147c3f15b9b6b9ac88676de66ba2ae36793fa",
+                "sha256:dc639b046a6e2cff5bbe40194ad65936d6ba360b52b3c3fe1d08a82dd50b5e53"
+            ],
+            "version": "==1.8.0"
+        },
+        "pycodestyle": {
+            "hashes": [
+                "sha256:95a2219d12372f05704562a14ec30bc76b05a5b297b21a5dfe3f6fac3491ae56",
+                "sha256:e40a936c9a450ad81df37f549d676d127b1b66000a6c500caa2b085bc0ca976c"
+            ],
+            "version": "==2.5.0"
+        },
+        "pylint": {
+            "hashes": [
+                "sha256:5d77031694a5fb97ea95e828c8d10fc770a1df6eb3906067aaed42201a8a6a09",
+                "sha256:723e3db49555abaf9bf79dc474c6b9e2935ad82230b10c1138a71ea41ac0fff1"
+            ],
+            "index": "pypi",
+            "version": "==2.3.1"
+        },
+        "pytest": {
+            "hashes": [
+                "sha256:1a8aa4fa958f8f451ac5441f3ac130d9fc86ea38780dd2715e6d5c5882700b24",
+                "sha256:b8bf138592384bd4e87338cb0f256bf5f615398a649d4bd83915f0e4047a5ca6"
+            ],
+            "index": "pypi",
+            "version": "==4.5.0"
+        },
+        "pytest-cov": {
+            "hashes": [
+                "sha256:2b097cde81a302e1047331b48cadacf23577e431b61e9c6f49a1170bbe3d3da6",
+                "sha256:e00ea4fdde970725482f1f35630d12f074e121a23801aabf2ae154ec6bdd343a"
+            ],
+            "index": "pypi",
+            "version": "==2.7.1"
+        },
+        "six": {
+            "hashes": [
+                "sha256:3350809f0555b11f552448330d0b52d5f24c91a322ea4a15ef22629740f3761c",
+                "sha256:d16a0141ec1a18405cd4ce8b4613101da75da0e9a7aec5bdd4fa804d0e0eba73"
+            ],
+            "version": "==1.12.0"
+        },
+        "typed-ast": {
+            "hashes": [
+                "sha256:132eae51d6ef3ff4a8c47c393a4ef5ebf0d1aecc96880eb5d6c8ceab7017cc9b",
+                "sha256:18141c1484ab8784006c839be8b985cfc82a2e9725837b0ecfa0203f71c4e39d",
+                "sha256:2baf617f5bbbfe73fd8846463f5aeafc912b5ee247f410700245d68525ec584a",
+                "sha256:3d90063f2cbbe39177e9b4d888e45777012652d6110156845b828908c51ae462",
+                "sha256:4304b2218b842d610aa1a1d87e1dc9559597969acc62ce717ee4dfeaa44d7eee",
+                "sha256:4983ede548ffc3541bae49a82675996497348e55bafd1554dc4e4a5d6eda541a",
+                "sha256:5315f4509c1476718a4825f45a203b82d7fdf2a6f5f0c8f166435975b1c9f7d4",
+                "sha256:6cdfb1b49d5345f7c2b90d638822d16ba62dc82f7616e9b4caa10b72f3f16649",
+                "sha256:7b325f12635598c604690efd7a0197d0b94b7d7778498e76e0710cd582fd1c7a",
+                "sha256:8d3b0e3b8626615826f9a626548057c5275a9733512b137984a68ba1598d3d2f",
+                "sha256:8f8631160c79f53081bd23446525db0bc4c5616f78d04021e6e434b286493fd7",
+                "sha256:912de10965f3dc89da23936f1cc4ed60764f712e5fa603a09dd904f88c996760",
+                "sha256:b010c07b975fe853c65d7bbe9d4ac62f1c69086750a574f6292597763781ba18",
+                "sha256:c908c10505904c48081a5415a1e295d8403e353e0c14c42b6d67f8f97fae6616",
+                "sha256:c94dd3807c0c0610f7c76f078119f4ea48235a953512752b9175f9f98f5ae2bd",
+                "sha256:ce65dee7594a84c466e79d7fb7d3303e7295d16a83c22c7c4037071b059e2c21",
+                "sha256:eaa9cfcb221a8a4c2889be6f93da141ac777eb8819f077e1d09fb12d00a09a93",
+                "sha256:f3376bc31bad66d46d44b4e6522c5c21976bf9bca4ef5987bb2bf727f4506cbb",
+                "sha256:f9202fa138544e13a4ec1a6792c35834250a85958fde1251b6a22e07d1260ae7"
+            ],
+            "markers": "implementation_name == 'cpython'",
+            "version": "==1.3.5"
+        },
+        "wcwidth": {
+            "hashes": [
+                "sha256:3df37372226d6e63e1b1e1eda15c594bca98a22d33a23832a90998faa96bc65e",
+                "sha256:f4ebe71925af7b40a864553f761ed559b43544f8f71746c2d756c7fe788ade7c"
+            ],
+            "version": "==0.1.7"
+        },
+        "wrapt": {
+            "hashes": [
+                "sha256:4aea003270831cceb8a90ff27c4031da6ead7ec1886023b80ce0dfe0adf61533"
+            ],
+            "version": "==1.11.1"
+        }
+    }
+}

setup.py

@@ -0,0 +1,63 @@
+import os
+
+import setuptools
+
+import pubmed_bibtex
+
+
+LONG_DESCRIPTION = pubmed_bibtex.__doc__.lstrip()
+
+setuptools.setup(
+    name='pubmed-bibtex',
+    use_scm_version={
+        'write_to': os.path.join('pubmed_bibtex', 'version.py'),
+        # `version` triggers pylint C0103
+        'write_to_template': "__version__ = '{version}'\n",
+    },
+    description=LONG_DESCRIPTION.split(sep='\n', maxsplit=1)[0],
+    long_description=LONG_DESCRIPTION,
+    author='Fabian Peter Hammerle',
+    author_email='fabian@hammerle.me',
+    url='https://github.com/fphammerle/pubmed-bibtex',
+    # TODO add license
+    keywords=[
+        'article',
+        'bibtex',
+        'citation',
+        'journal',
+        'latex',
+        'publication',
+        'pubmed',
+        'reference',
+        'research',
+        'tex',
+    ],
+    classifiers=[
+        'Development Status :: 4 - Beta',
+        'Intended Audience :: Healthcare Industry',
+        'Intended Audience :: Science/Research',
+        'Programming Language :: Python :: 3.5',
+        'Programming Language :: Python :: 3.6',
+        'Programming Language :: Python :: 3.7',
+        'Topic :: Scientific/Engineering :: Medical Science Apps.',
+        'Topic :: Utilities',
+    ],
+    packages=setuptools.find_packages(),
+    entry_points={
+        'console_scripts': [
+            'pubmed-bibtex = pubmed_bibtex:_main',
+        ],
+    },
+    python_requires='>=3.5',
+    install_requires=[
+        'requests>=2,<3',
+    ],
+    setup_requires=[
+        'setuptools_scm',
+    ],
+    tests_require=[
+        'pylint>=2.3.0,<3',
+        'pytest<5',
+        'pytest-cov<3,>=2',
+    ],
+)

tests/test_bibtex_entry_from_pmid.py

@@ -1,6 +1,6 @@
 import unittest.mock
 
-from pubmed_bibtex import bibtex_entry_from_pmid, main
+from pubmed_bibtex import bibtex_entry_from_pmid, _main
 
 TEST_PMID = '31025164'
 TEST_BIBTEX_ENTRY = r"""@Article{pmid31025164,
@@ -20,7 +20,7 @@ def test_bibtex_entry_from_pmid():
 
 def test_main(capsys):
     with unittest.mock.patch('sys.argv', ['', TEST_PMID]):
-        main()
+        _main()
     out, err = capsys.readouterr()
     assert not err
     assert out == TEST_BIBTEX_ENTRY