Upgrade to Pro
— share decks privately, control downloads, hide ads and more …
Speaker Deck
Features
Speaker Deck
PRO
Sign in
Sign up for free
Search
Search
Testing Research Software
Search
Nikoleta
March 14, 2017
Programming
0
310
Testing Research Software
Slides for the talk Writing tests for research software for PyCon Namibia 2017
Nikoleta
March 14, 2017
Tweet
Share
More Decks by Nikoleta
See All by Nikoleta
A trip to earth science with python as a companion
nikoletav3
0
47
Arcas: Using Python to access open research literature
nikoletav3
1
180
Optimisation of short memory strategies in the Iterated Prisoners Dilemma
nikoletav3
0
55
Arcas
nikoletav3
0
450
SSI Selection Day
nikoletav3
0
400
SWORDS-03-10-2016
nikoletav3
0
49
PyCon UK 2016
nikoletav3
0
160
Other Decks in Programming
See All in Programming
ソフトウェア設計の実践的な考え方
masuda220
PRO
4
610
CSC509 Lecture 06
javiergs
PRO
0
260
『毎日の移動』を支えるGoバックエンド内製開発
yutautsugi
2
250
なぜあの開発者はDevRelに伴走し続けるのか / Why Does That Developer Keep Running Alongside DevRel?
nrslib
3
410
デミカツ切り抜きで面倒くさいことはPythonにやらせよう
aokswork3
0
250
overlayPreferenceValue で実現する ピュア SwiftUI な AdMob ネイティブ広告
uhucream
0
190
The Past, Present, and Future of Enterprise Java
ivargrimstad
0
450
Devoxx BE - Local Development in the AI Era
kdubois
0
130
bootcamp2025_バックエンド研修_WebAPIサーバ作成.pdf
geniee_inc
0
120
ALL CODE BASE ARE BELONG TO STUDY
uzulla
25
6.4k
Go Conference 2025: Goで体感するMultipath TCP ― Go 1.24 時代の MPTCP Listener を理解する
takehaya
9
1.7k
Leading Effective Engineering Teams in the AI Era
addyosmani
7
480
Featured
See All Featured
Principles of Awesome APIs and How to Build Them.
keavy
127
17k
Faster Mobile Websites
deanohume
310
31k
Measuring & Analyzing Core Web Vitals
bluesmoon
9
620
No one is an island. Learnings from fostering a developers community.
thoeni
21
3.5k
Done Done
chrislema
185
16k
Designing Experiences People Love
moore
142
24k
"I'm Feeling Lucky" - Building Great Search Experiences for Today's Users (#IAC19)
danielanewman
230
22k
Automating Front-end Workflow
addyosmani
1371
200k
4 Signs Your Business is Dying
shpigford
185
22k
Making the Leap to Tech Lead
cromwellryan
135
9.6k
Leading Effective Engineering Teams in the AI Era
addyosmani
7
480
What’s in a name? Adding method to the madness
productmarketing
PRO
24
3.7k
Transcript
Writing tests for research software @NikoletaGlyn
None
TESTING
0, 1, 1, 2, 3, 5, 8, 13, 21, 34
...
F0 = 0 F1 = 1 Fn = Fn−1 +
Fn−2
main.py def fib(n): if n == 0: return 0 if
n == 1: return 1 return 2 * fib(n - 1)
n 2 3 4 . . . 16 17 18
Fn 1 2 3 . . . 987 1597 2584 Fn−1 1 1 2 . . . 610 987 1597 Fn Fn−1 1.000 2.000 1.500 . . . 1.618 1.618 1.618
n 2 3 4 . . . 16 17 18
Fn 1 2 3 . . . 987 1597 2584 Fn−1 1 1 2 . . . 610 987 1597 Fn Fn−1 1.000 2.000 1.500 . . . 1.618 1.618 1.618 φ 1.61803...
. |-- main.py |-- golden.py
golden.py import main for n in range(10, 100000): golden_ratio =
fib(n) / fib(n - 1) print(golden_ratio)
golden.py import main for n in range(10, 100000): golden_ratio =
fib(n) / fib(n - 1) print(golden_ratio) 2.0 2.0 2.0 2.0 2.0 2.0 2.0 2.0 2.0 ...
golden.py import main for n in range(10, 100000): golden_ratio =
fib(n) / fib(n - 1) print(golden_ratio) 2.0 2.0 2.0 2.0 2.0 2.0 2.0 2.0 2.0 ... Glynatsi 2017, “SOLVES THE FIBONACCI MYSTERY”
WRITE REVIEW PUBLISH
20% OF GENETIC RESEARCH IS WRONG Gene name errors are
widespread in the scientific literature by Mark Ziemann, Yotam Eren and Assam El-Osta
INDUSTRY
INDUSTRY AMAZON
. |-- main.py |-- golden.py |-- test_main.py
test main.py import unittest import main class TestExample(unittest.TestCase): def test_initial(self):
self.assertEqual(fib(0), 0) self.assertEqual(fib(1), 1) def test_fib(self): self.assertEqual(fib(2), 1) self.assertEqual(fib(3), 2)
test main.py import unittest import main class TestExample(unittest.TestCase): def test_initial(self):
self.assertEqual(fib(0), 0) self.assertEqual(fib(1), 1) def test_fib(self): self.assertEqual(fib(2), 1) self.assertEqual(fib(3), 2) python -m unittest test_main.py
test main.py import unittest import main class TestExample(unittest.TestCase): def test_initial(self):
self.assertEqual(fib(0), 0) self.assertEqual(fib(1), 1) def test_fib(self): self.assertEqual(fib(2), 1) self.assertEqual(fib(3), 2) python -m unittest test_main.py self.assertEqual(fib(2), 1) AssertionError: 2 != 1 ----------------------------- Ran 2 tests in 0.000s FAILED (failures=1)
main.py def fib(n): if n == 0: return 0 if
n == 1: return 1 return 2 * fib(n - 1)
main.py def fib(n): if n == 0: return 0 if
n == 1: return 1 return fib(n - 1) + fib(n - 2)
main.py def fib(n): if n == 0: return 0 if
n == 1: return 1 return fib(n - 1) + fib(n - 2) python -m unittest test_main.py ------------------------------- Ran 2 tests in 0.000s OK
main.py def fib(n): if n == 0: return 0 if
n == 1: return 1 return fib(n - 1) + fib(n - 2) python -m unittest test_main.py ------------------------------- Ran 2 tests in 0.000s OK Glynatsi 2017, “TRYING TO RECLAIM REPUTATION”
Doc Testing
main.py import unittest def fib(n): """Returns the n th fibonacci
number. For example: >>> fib(5) 5 >>> fib(6) 8 >>> fib(5) + fib(6) 13 >>> fib(7) 10 """ if n == 0: return 0 elif n == 1: return 1 else: return fib(n - 1) + fib(n - 2)
python -m doctest main.py Failed example: fib(7) Expected: 10 Got:
13 **************************** 1 items had failures: 1 of 4 in main.fib ***Test Failed*** 1 failures.
main.py import unittest def fib(n): """Returns the n th fibonacci
number. For example: >>> fib(5) 5 >>> fib(6) 8 >>> fib(5) + fib(6) 13 >>> fib(7) 13 """ if n == 0: return 0 elif n == 1: return 1 else: return fib(n - 1) + fib(n - 2)
Property Based Testing
from hypothesis import given from hypothesis.strategies import integers class TestFib(unittest.TestCase):
@given(k=integers(min_value=2)) def test_fib(self, k): self.assertTrue(fib(k), fib(k - 1) + fib(k - 2)) https://github.com/HypothesisWorks @DRMacIver
It’s impossible to conduct research without software, say 7 out
of 10 UK researchers Simon Hettrick uk/blog/2016-09-12-its-impossible-conduct-research-without-out-10-uk- researchers
USE 92%
IMPOSSIBLE 69%
DEVELOP 56%
TRAINING 79%
USE 92% IMPOSSIBLE 69% DEVELOP 56% TRAINING 79%
Axelrod : https://github.com/Axelrod-Python/Axelrod Arcas: https://github.com/Nikoleta-v3/Arcas Ciw: https://github.com/CiwPython/Ciw Pandas: https://github.com/pandas-dev/pandas Skleanr:
http://scikit-learn.org/stable/ Numpy: https://github.com/numpy/numpy cryptography: https://github.com/pyca/cryptography fastnumbers: https://github.com/SethMMorton/fastnumbers yacluster: https://github.com/KrzysiekJ/yacluster binaryornot: https://github.com/audreyr/binaryornot . . .
None
@NikoletaGlyn https://github.com/Nikoleta-v3 @SoftwateSaved @PhoenixCUni