forked from pymedphys/pymedphys
-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathsetup.py
360 lines (349 loc) · 18 KB
/
setup.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
# -*- coding: utf-8 -*-
# DO NOT EDIT THIS FILE!
# This file has been autogenerated by `poetry run pymedphys dev propagate`
from setuptools import setup
package_dir = {"": "lib"}
packages = [
"pymedphys",
"pymedphys._base",
"pymedphys._data",
"pymedphys._dev",
"pymedphys._dicom",
"pymedphys._dicom.anonymise",
"pymedphys._dicom.connect",
"pymedphys._dicom.constants",
"pymedphys._dicom.ct",
"pymedphys._dicom.delivery",
"pymedphys._dicom.rtplan",
"pymedphys._dicom.structure",
"pymedphys._dicom.utilities",
"pymedphys._electronfactors",
"pymedphys._experimental",
"pymedphys._experimental.autosegmentation",
"pymedphys._experimental.chartchecks",
"pymedphys._experimental.fileformats",
"pymedphys._experimental.fileformats.mapcheck",
"pymedphys._experimental.fileformats.mephysto",
"pymedphys._experimental.fileformats.profiler",
"pymedphys._experimental.film",
"pymedphys._experimental.paulking",
"pymedphys._experimental.pedromartinez",
"pymedphys._experimental.pedromartinez.oncentra",
"pymedphys._experimental.pedromartinez.utils",
"pymedphys._experimental.pinnacle",
"pymedphys._experimental.plancomplexity",
"pymedphys._experimental.pseudonymisation",
"pymedphys._experimental.quickcheck",
"pymedphys._experimental.serviceplans",
"pymedphys._experimental.streamlit",
"pymedphys._experimental.streamlit.apps",
"pymedphys._experimental.streamlit.apps.wlutz",
"pymedphys._experimental.streamlit.utilities",
"pymedphys._experimental.streamlit.utilities.dicom",
"pymedphys._experimental.streamlit.utilities.iview",
"pymedphys._experimental.vendor.pylinac_vendored",
"pymedphys._experimental.vendor.pylinac_vendored.core",
"pymedphys._experimental.wlutz",
"pymedphys._gamma",
"pymedphys._gamma.api",
"pymedphys._gamma.implementation",
"pymedphys._gamma.utilities",
"pymedphys._icom",
"pymedphys._imports",
"pymedphys._imports.slow",
"pymedphys._losslessjpeg",
"pymedphys._metersetmap",
"pymedphys._metersetmap.delivery",
"pymedphys._metersetmap.plt",
"pymedphys._mocks",
"pymedphys._monaco",
"pymedphys._mosaiq",
"pymedphys._streamlit",
"pymedphys._streamlit.apps",
"pymedphys._streamlit.apps.metersetmap",
"pymedphys._streamlit.server",
"pymedphys._streamlit.utilities",
"pymedphys._trf",
"pymedphys._trf.decode",
"pymedphys._trf.manage",
"pymedphys._utilities",
"pymedphys._utilities.algorithms",
"pymedphys._utilities.constants",
"pymedphys._utilities.filehash",
"pymedphys._utilities.transforms",
"pymedphys._vendor",
"pymedphys._vendor.apipkg",
"pymedphys.beta",
"pymedphys.cli",
"pymedphys.cli.experimental",
"pymedphys.docs",
"pymedphys.docs._build.html._static",
"pymedphys.docs.theme",
"pymedphys.experimental",
"pymedphys.tests",
"pymedphys.tests.coordinates",
"pymedphys.tests.delivery",
"pymedphys.tests.dicom",
"pymedphys.tests.dicom.rtplan",
"pymedphys.tests.dicom.structure",
"pymedphys.tests.e2e",
"pymedphys.tests.experimental",
"pymedphys.tests.experimental.film",
"pymedphys.tests.experimental.mapcheck",
"pymedphys.tests.experimental.mephysto",
"pymedphys.tests.experimental.paulking",
"pymedphys.tests.experimental.paulking.test_coll",
"pymedphys.tests.experimental.pinnacle",
"pymedphys.tests.experimental.profiler",
"pymedphys.tests.experimental.pseudonymisation",
"pymedphys.tests.experimental.wlutz",
"pymedphys.tests.gamma",
"pymedphys.tests.logfiles",
"pymedphys.tests.logging",
"pymedphys.tests.losslessjpeg",
"pymedphys.tests.metersetmap",
"pymedphys.tests.mocks",
"pymedphys.tests.monaco",
"pymedphys.tests.mosaiq",
"pymedphys.tests.mosaiq.data",
"pymedphys.tests.trf",
"pymedphys.tests.utilities",
]
package_data = {
"": ["*"],
"pymedphys._experimental": ["serviceplans/templates/*", "streamlit/apps/data/*"],
"pymedphys.docs": [
"_build/html/*",
"_build/html/_images/*",
"_build/html/_modules/*",
"_build/html/_modules/pymedphys/_dicom/*",
"_build/html/_modules/pymedphys/_experimental/*",
"_build/html/_modules/pymedphys/_experimental/pinnacle/*",
"_build/html/_modules/pymedphys/_mosaiq/*",
"_build/html/_modules/pymedphys/_trf/decode/*",
"_build/html/_modules/pymedphys/_trf/manage/*",
"_build/html/_panels_static/*",
"_build/html/_sources/*",
"_build/html/_sources/app/*",
"_build/html/_sources/app/ref/*",
"_build/html/_sources/cli/*",
"_build/html/_sources/cli/ref/*",
"_build/html/_sources/contrib/*",
"_build/html/_sources/contrib/other/*",
"_build/html/_sources/contrib/setups/*",
"_build/html/_sources/general/*",
"_build/html/_sources/lib/*",
"_build/html/_sources/lib/background/*",
"_build/html/_sources/lib/howto/*",
"_build/html/_sources/lib/howto/gamma/*",
"_build/html/_sources/lib/howto/tunnels/*",
"_build/html/_sources/lib/ref/*",
"_build/html/_sources/lib/ref/experimental/*",
"_build/html/_sources/lib/tutes/*",
"_build/html/_static/css/*",
"_build/html/_static/images/*",
"_build/html/_static/js/*",
"_build/html/_static/vendor/fontawesome/5.13.0/*",
"_build/html/_static/vendor/fontawesome/5.13.0/css/*",
"_build/html/_static/vendor/fontawesome/5.13.0/webfonts/*",
"_build/html/_static/vendor/lato_latin-ext/1.44.1/*",
"_build/html/_static/vendor/lato_latin-ext/1.44.1/files/*",
"_build/html/_static/vendor/open-sans_all/1.44.1/*",
"_build/html/_static/vendor/open-sans_all/1.44.1/files/*",
"_build/html/app/*",
"_build/html/app/ref/*",
"_build/html/cli/*",
"_build/html/cli/ref/*",
"_build/html/contrib/*",
"_build/html/contrib/other/*",
"_build/html/contrib/setups/*",
"_build/html/general/*",
"_build/html/lib/*",
"_build/html/lib/background/*",
"_build/html/lib/howto/*",
"_build/html/lib/howto/gamma/*",
"_build/html/lib/howto/tunnels/*",
"_build/html/lib/ref/*",
"_build/html/lib/ref/experimental/*",
"_build/html/lib/tutes/*",
"_static/*",
"app/*",
"app/ref/*",
"cli/*",
"cli/ref/*",
"contrib/*",
"contrib/other/*",
"contrib/setups/*",
"general/*",
"img/*",
"lib/*",
"lib/background/*",
"lib/howto/*",
"lib/howto/gamma/*",
"lib/howto/tunnels/*",
"lib/howto/tunnels/img/*",
"lib/ref/*",
"lib/ref/experimental/*",
"lib/tutes/*",
"trees/*",
],
"pymedphys.tests": [
"dicom/data/rtplan/*",
"dicom/scratch/*",
"e2e/cypress/*",
"e2e/cypress/fixtures/.gitignore",
"e2e/cypress/integration/streamlit/*",
"e2e/cypress/plugins/*",
"e2e/cypress/support/*",
"experimental/mephysto/data/baselines/*",
"experimental/mephysto/data/measurements/*",
],
}
install_requires = ["typing-extensions"]
extras_require = {
"comparables": ["flashgamma"],
"dev": [
"tqdm",
"attrs",
"watchdog",
"keyring",
"packaging",
"PyYAML",
"requests",
"python-dateutil",
"matplotlib",
"scipy",
"Pillow",
"imageio",
"xarray",
"pymssql",
"sqlalchemy",
"natsort",
"tomlkit",
"pynetdicom",
"dbfread",
"xmltodict",
"timeago",
"xlsxwriter",
"plotly",
"fsspec",
"dicompyler-core",
"scikit-learn",
"numpy>=1.20.2",
"pandas>=1.0.0",
"pydicom>=2.0.0",
"pylibjpeg-libjpeg",
"shapely>=1.7.0",
"scikit-image>=0.18.1",
"streamlit==0.81.1",
"streamlit-ace==0.0.4",
"pylinac==2.3.2",
"reportlab<=3.5.54",
"sphinx-argparse",
"sphinxcontrib-napoleon",
"sphinx-book-theme==0.0.42",
"networkx",
"jupyter-book>=0.8.3",
"pytest",
"pytest-sugar",
"hypothesis<6",
"psutil",
"pylint",
"pytest-rerunfailures",
"pre-commit",
"black>=20.8b1,<21.0",
"mypy",
"rope",
"doc8",
"readme-renderer",
"tabulate",
],
"dicom": ["pynetdicom", "pydicom>=2.0.0"],
"docs": [
"sphinx-argparse",
"sphinxcontrib-napoleon",
"sphinx-book-theme==0.0.42",
"networkx",
"jupyter-book>=0.8.3",
],
"doctests": [
"pylinac==2.3.2",
"sphinx-book-theme==0.0.42",
"black>=20.8b1,<21.0",
"tabulate",
],
"icom": ["numpy>=1.20.2"],
"mosaiq": ["pymssql", "sqlalchemy", "scikit-learn", "pandas>=1.0.0"],
"propagate": ["tomlkit", "black>=20.8b1,<21.0"],
"tests": [
"tqdm",
"python-dateutil",
"pytest",
"pytest-sugar",
"hypothesis<6",
"psutil",
"pylint",
"pytest-rerunfailures",
],
"user": [
"tqdm",
"attrs",
"watchdog",
"keyring",
"packaging",
"PyYAML",
"requests",
"python-dateutil",
"matplotlib",
"scipy",
"Pillow",
"imageio",
"xarray",
"pymssql",
"sqlalchemy",
"natsort",
"tomlkit",
"pynetdicom",
"dbfread",
"xmltodict",
"timeago",
"xlsxwriter",
"plotly",
"fsspec",
"dicompyler-core",
"scikit-learn",
"numpy>=1.20.2",
"pandas>=1.0.0",
"pydicom>=2.0.0",
"pylibjpeg-libjpeg",
"shapely>=1.7.0",
"scikit-image>=0.18.1",
"streamlit==0.81.1",
"streamlit-ace==0.0.4",
"pylinac==2.3.2",
"reportlab<=3.5.54",
],
}
entry_points = {
"console_scripts": ["pymedphys = pymedphys.__main__:main"],
"sphinx.html_themes": ["sphinx_pymedphys_theme = pymedphys.docs.theme"],
}
setup_kwargs = {
"name": "pymedphys",
"version": "0.37.0",
"description": "Medical Physics library",
"long_description": "|logo|\n\n.. |logo| image:: https://github.com/pymedphys/pymedphys/raw/ca501275227f190a77e641a75af925d9070952b6/lib/pymedphys/docs/_static/pymedphys_title.svg\n :target: https://docs.pymedphys.com/\n\n.. START_OF_DOCS_IMPORT\n\n**A community effort to develop an open standard library for Medical Physics\nin Python. We build high quality, transparent software together via peer review\nand open source distribution. Open code is better science.**\n\n|online-app| |build| |pypi| |python| |license|\n\n.. |online-app| image:: https://img.shields.io/github/workflow/status/pymedphys/pymedphys/OnlineApp?event=schedule&label=online-app\n :target: https://app.pymedphys.com\n\n.. |build| image:: https://img.shields.io/github/workflow/status/pymedphys/pymedphys/Library\n :target: https://github.com/pymedphys/pymedphys/actions\n\n.. |pypi| image:: https://img.shields.io/pypi/v/pymedphys\n :target: https://pypi.org/project/pymedphys/\n\n.. |python| image:: https://img.shields.io/pypi/pyversions/pymedphys\n :target: https://pypi.org/project/pymedphys/\n\n.. |license| image:: https://img.shields.io/pypi/l/pymedphys\n :target: https://choosealicense.com/licenses/apache-2.0/\n\n\nWhat is PyMedPhys?\n==================\n\nPyMedPhys is an open-source Medical Physics python library built by an open\ncommunity that values and prioritises code sharing, review, improvement, and\nlearning from each other. It is inspired by the collaborative work of our\nphysics peers in astronomy and the `Astropy Project`_. PyMedPhys is available\non `PyPI`_ and `GitHub`_.\n\n.. _`Astropy Project`: http://www.astropy.org/\n.. _`PyPI`: https://pypi.org/project/pymedphys/\n.. _`GitHub`: https://github.com/pymedphys/pymedphys\n\nBeta level of development\n*************************\n\nPyMedPhys is currently within the ``beta`` stage of its life-cycle. It will\nstay in this stage until the version number leaves ``0.x.x`` and enters\n``1.x.x``. While PyMedPhys is in ``beta`` stage, **no API is guaranteed to be\nstable from one release to the next.** In fact, it is very likely that the\nentire API will change multiple times before a ``1.0.0`` release. In practice,\nthis means that upgrading ``pymedphys`` to a new version will possibly break\nany code that was using the old version of pymedphys. We try to be abreast of\nthis by providing details of any breaking changes from one release to the next\nwithin the `Release Notes`_.\n\nCommunity\n**************\n\nPyMedPhys has a `Discourse community <https://pymedphys.discourse.group/>`_\nto both help you find your feet using PyMedPhys and to facilitate collaboration\nand general discussion. Please reach out over there and we'd love to get to\nknow you!\n\nDocumentation\n=============\n\nThe PyMedPhys documentation is split into five categories:\n\n1. `App Users Guide`_: for those who only wish to use ready-made PyMedPhys\n tools.\n2. `Library Users Guide`_: for those building their own Python apps, scripts\n and other tools who wish to incorporate elements of the PyMedPhys library.\n3. `CLI Users Guide`_: for those who wish to use PyMedPhys' ready-made command\n line interface (e.g. to help automate existing workflows with minimal\n programming).\n4. `Contributors Guide`_: for those who wish to make new contributions to\n either the PyMedPhys library or the PyMedPhys app.\n5. `General`_: Material that may apply to any visitor to PyMedPhys.\n\n\nOur Team\n========\n\nPyMedPhys is what it is today due to its maintainers and contributors, both past\nand present. Here is our team.\n\nMaintainers\n***********\n\n* `Simon Biggs`_\n * `Riverina Cancer Care Centre`_, Australia\n\n.. _`Simon Biggs`: https://github.com/SimonBiggs\n\n* `Stuart Swerdloff`_\n * `ELEKTA Pty Ltd`_: New Zealand\n\n.. _`Stuart Swerdloff`: https://github.com/sjswerdloff\n\n* `Matthew Jennings`_\n * `Royal Adelaide Hospital`_, Australia\n\n.. _`Matthew Jennings`: https://github.com/Matthew-Jennings\n\n\n|rccc| |sjs| |rah|\n\nActive contributors\n****************************\n\n* `Phillip Chlap`_\n * `University of New South Wales`_, Australia\n * `Ingham Institute`_, Australia\n\n.. _`Phillip Chlap`: https://github.com/pchlap\n\n* `Derek Lane`_\n * `ELEKTA AB`_, Houston TX\n\n.. _`Derek Lane`: https://github.com/dg1an3\n\n* `Jake Rembish`_\n * `UT Health San Antonio`_, USA\n\n.. _`Jake Rembish`: https://github.com/rembishj\n\n* `Matthew Cooper`_\n\n.. _`Matthew Cooper`: https://github.com/matthewdeancooper\n\n* `Pedro Martinez`_\n * `University of Calgary`_, Canada\n * `Tom Baker Cancer Centre`_, Canada\n\n.. _`Pedro Martinez`: https://github.com/peterg1t\n\n* `Rafael Ayala`_\n * `Hospital General Universitario Gregorio Marañón`_, Spain\n\n.. _`Rafael Ayala`: https://github.com/ayalalazaro\n\n\n|uth| |uoc| |hgugm|\n\n\nPast contributors\n****************************\n\n* `Matthew Sobolewski <https://github.com/msobolewski>`_\n* `Paul King <https://github.com/kingrpaul>`_\n* `Jacob McAloney <https://github.com/JacobMcAloney>`_\n\n\n.. |rccc| image:: https://github.com/pymedphys/pymedphys/raw/3f8d82fc3b53eb636a75336477734e39fa406110/docs/logos/rccc_200x200.png\n :target: `Riverina Cancer Care Centre`_\n\n.. |rah| image:: https://github.com/pymedphys/pymedphys/raw/3f8d82fc3b53eb636a75336477734e39fa406110/docs/logos/gosa_200x200.png\n :target: `Royal Adelaide Hospital`_\n\n.. |uoc| image:: https://github.com/pymedphys/pymedphys/raw/363b544281aab282a56b297dc8fdd521233c6a63/logos/uoc_200x200.png\n :target: `University of Calgary`_\n\n.. |uth| image:: https://github.com/pymedphys/pymedphys/raw/3f8d82fc3b53eb636a75336477734e39fa406110/docs/logos/UTHSA_logo.png\n :target: `UT Health San Antonio`_\n\n.. |hgugm| image:: https://github.com/pymedphys/pymedphys/raw/3f8d82fc3b53eb636a75336477734e39fa406110/docs/logos/HGUGM_200x200.png\n :target: `Hospital General Universitario Gregorio Marañón`_\n\n.. |sjs| image:: https://github.com/pymedphys/pymedphys/raw/7e9204656e0468b0843533472553a03a99387386/logos/swerdloff.png\n :target: `Swerdloff Family`_\n\n.. _`Riverina Cancer Care Centre`: https://www.riverinacancercare.com.au/\n\n.. _`ELEKTA Pty Ltd`: https://www.elekta.com/\n\n.. _`ELEKTA AB`: https://www.elekta.com/\n\n.. _`Royal Adelaide Hospital`: https://www.rah.sa.gov.au/\n\n.. _`University of New South Wales`: https://www.unsw.edu.au/\n\n.. _`South Western Sydney Local Health District`: https://www.swslhd.health.nsw.gov.au/\n\n.. _`Anderson Regional Cancer Center`: https://www.andersonregional.org/services/cancer-care/\n\n.. _`Northern Beaches Cancer Care`: https://www.northernbeachescancercare.com.au/\n\n.. _`University of Calgary`: https://www.ucalgary.ca/\n\n.. _`Tom Baker Cancer Centre`: https://www.ahs.ca/tbcc\n\n.. _`UT Health San Antonio`: https://www.uthscsa.edu/academics/biomedical-sciences/programs/radiological-sciences-phd\n\n.. _`Hospital General Universitario Gregorio Marañón`: https://www.comunidad.madrid/hospital/gregoriomaranon/\n\n.. _`Swerdloff Family`: https://github.com/sjswerdloff\n\n.. _`Ingham Institute`: https://inghaminstitute.org.au/\n\n.. END_OF_DOCS_IMPORT\n\n.. _`Release Notes`: ./CHANGELOG.md\n\n.. _`Library Users Guide`: https://docs.pymedphys.com/lib/index.html\n.. _`CLI Users Guide`: https://docs.pymedphys.com/cli/index.html\n.. _`App Users Guide`: https://docs.pymedphys.com/app/index.html\n.. _`Contributors Guide`: https://docs.pymedphys.com/contrib/index.html\n.. _`General`: https://docs.pymedphys.com/general/index.html\n",
"author": "PyMedPhys Contributors",
"author_email": "developers@pymedphys.com",
"maintainer": None,
"maintainer_email": None,
"url": "https://pymedphys.com",
"package_dir": package_dir,
"packages": packages,
"package_data": package_data,
"install_requires": install_requires,
"extras_require": extras_require,
"entry_points": entry_points,
"python_requires": ">=3.7,<4.0",
}
setup(**setup_kwargs)