WSL の Ubuntu 18.04 に SciPy をインストールしてみました

広告

Jupyter Notebook と NumPy と pandas を個別にインストールしていたのですが、まとめて使いたいので SciPy をインストールしようと思いました。

環境

  • Ubuntu 18.04 LTS
  • Pipenv 2018.05.18
  • Jupyter Notebook 5.2.0
  • Matplotlib 2.2.2
  • NumPy 1.14.4
  • pandas 0.23.0
  • SciPy 1.1.0

SciPy

You can install packages via commands such as:

python -m pip install --user numpy scipy matplotlib ipython jupyter pandas sympy nose

Installing via pip

これを見ると、結局個別にインストールするのと変わらず、 pip でそれぞれインストールしてあげればいいみたいでした。

SciPy のトップのページを見ると、次のパッケージが主なものになっているようです。

  • NumPy
  • SciPy Libraly
  • Matplotlib
  • IPython
  • Sympy
  • pandas

pandas をインストールすると依存する NumPy も一緒にインストールされるのですけれども。

nose は知らなかったのですが、 Python のロギングに関するパッケージのようでした。

中途半端に Jupyter Notebook と pandas だけインストールしておくよりも、 SciPy まとめてインストールしておいた方がわかりやすいかなと思います。

install

以前、 Pipenv の環境を作ったので、 Pipenv でインストールしてみます。

$ pipenv install numpy scipy matplotlib ipython jupyter pandas sympy nose
Creating a virtualenv for this project…
Using /usr/bin/python3 (3.6.5) to create virtualenv…
⠋Already using interpreter /usr/bin/python3
Using base prefix '/usr'
New python executable in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/bin/python3
Also creating executable in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/bin/python
Installing setuptools, pip, wheel...done.

Virtualenv location: /home/user/.local/share/virtualenvs/scipy-aTjO8tFO
Creating a Pipfile for this project…                                                                                  Installing numpy…
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Installing collected packages: numpy
Successfully installed numpy-1.14.4

Adding numpy to Pipfile's [packages]…
Installing scipy…
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Requirement already satisfied: numpy>=1.8.2 in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/lib/python3.6/site-packages (from scipy) (1.14.4)
Installing collected packages: scipy
Successfully installed scipy-1.1.0

Adding scipy to Pipfile's [packages]…
Installing matplotlib…
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Installing collected packages: kiwisolver, pytz, six, cycler, python-dateutil, pyparsing, matplotlib
Successfully installed cycler-0.10.0 kiwisolver-1.0.1 matplotlib-2.2.2 pyparsing-2.2.0 python-dateutil-2.7.3 pytz-2018.4 six-1.11.0

Adding matplotlib to Pipfile's [packages]…
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Collecting pygments (from ipython)
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Collecting pexpect; sys_platform != "win32" (from ipython)
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Building wheels for collected packages: backcall, simplegeneric
  Running setup.py bdist_wheel for backcall: started
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  Stored in directory: /home/user/.cache/pip/wheels/98/b0/dd/29e28ff615af3dda4c67cab719dd51357597eabff926976b45
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  Stored in directory: /home/user/.cache/pip/wheels/a9/28/53/f24776b4c5bcbe91aaf1f1e247bd6fadd17191aa12fac63902
Successfully built backcall simplegeneric
Installing collected packages: pygments, backcall, ptyprocess, pexpect, simplegeneric, wcwidth, prompt-toolkit, pickleshare, decorator, ipython-genutils, traitlets, parso, jedi, ipython
Successfully installed backcall-0.1.0 decorator-4.3.0 ipython-6.4.0 ipython-genutils-0.2.0 jedi-0.12.0 parso-0.2.1 pexpect-4.6.0 pickleshare-0.7.4 prompt-toolkit-1.0.15 ptyprocess-0.5.2 pygments-2.2.0 simplegeneric-0.8.1 traitlets-4.3.2 wcwidth-0.1.7

Adding ipython to Pipfile's [packages]…
Installing jupyter…
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Collecting ipywidgets (from jupyter)
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  Running setup.py bdist_wheel for pandocfilters: started
  Running setup.py bdist_wheel for pandocfilters: finished with status 'done'
  Stored in directory: /home/user/.cache/pip/wheels/39/01/56/f1b08a6275acc59e846fa4c1e1b65dbc1919f20157d9e66c20
  Running setup.py bdist_wheel for tornado: started
  Running setup.py bdist_wheel for tornado: finished with status 'done'
  Stored in directory: /home/user/.cache/pip/wheels/29/8c/cf/6a5a8f6e35d877c0cb72b109d21c34981504897ce9a605e599
  Running setup.py bdist_wheel for MarkupSafe: started
  Running setup.py bdist_wheel for MarkupSafe: finished with status 'done'
  Stored in directory: /home/user/.cache/pip/wheels/33/56/20/ebe49a5c612fffe1c5a632146b16596f9e64676768661e4e46
Successfully built pandocfilters tornado MarkupSafe
Installing collected packages: pyzmq, jupyter-core, tornado, jupyter-client, ipykernel, jupyter-console, jsonschema, nbformat, terminado, MarkupSafe, jinja2, entrypoints, mistune, testpath, pandocfilters, webencodings, html5lib, bleach, nbconvert, Send2Trash, notebook, widgetsnbextension, ipywidgets, qtconsole, jupyter
Successfully installed MarkupSafe-1.0 Send2Trash-1.5.0 bleach-2.1.3 entrypoints-0.2.3 html5lib-1.0.1 ipykernel-4.8.2 ipywidgets-7.2.1 jinja2-2.10 jsonschema-2.6.0 jupyter-1.0.0 jupyter-client-5.2.3 jupyter-console-5.2.0 jupyter-core-4.4.0 mistune-0.8.3 nbconvert-5.3.1 nbformat-4.4.0 notebook-5.5.0 pandocfilters-1.4.2 pyzmq-17.0.0 qtconsole-4.3.1 terminado-0.8.1 testpath-0.3.1 tornado-5.0.2 webencodings-0.5.1 widgetsnbextension-3.2.1

Adding jupyter to Pipfile's [packages]…
Installing pandas…
                                                                                                                                                                                                                                                                                                                                                                                                                                                Collecting pandas
  Downloading https://files.pythonhosted.org/packages/69/ec/8ff0800b8594691759b78a42ccd616f81e7099ee47b167eb9bbd502c02b9/pandas-0.23.0-cp36-cp36m-manylinux1_x86_64.whl (11.7MB)
Requirement already satisfied: pytz>=2011k in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/lib/python3.6/site-packages (from pandas) (2018.4)
Requirement already satisfied: python-dateutil>=2.5.0 in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/lib/python3.6/site-packages (from pandas) (2.7.3)
Requirement already satisfied: numpy>=1.9.0 in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/lib/python3.6/site-packages (from pandas) (1.14.4)
Requirement already satisfied: six>=1.5 in /home/user/.local/share/virtualenvs/scipy-aTjO8tFO/lib/python3.6/site-packages (from python-dateutil>=2.5.0->pandas) (1.11.0)
Installing collected packages: pandas
Successfully installed pandas-0.23.0

Adding pandas to Pipfile's [packages]…
Installing sympy…
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Collecting sympy
  Downloading https://files.pythonhosted.org/packages/91/26/4e477dbd1f9260eb743d9f221af3044648a8fb2fcf3f2f23daee4dc831a4/sympy-1.1.1.tar.gz (4.6MB)
Collecting mpmath>=0.19 (from sympy)
  Downloading https://files.pythonhosted.org/packages/7a/05/b3d1472885d8dc0606936ea5da0ccb1b4785682e78ab15e34ada24aea8d5/mpmath-1.0.0.tar.gz (511kB)
Building wheels for collected packages: sympy, mpmath
  Running setup.py bdist_wheel for sympy: started
  Running setup.py bdist_wheel for sympy: finished with status 'done'
  Stored in directory: /home/user/.cache/pip/wheels/6d/47/7c/40a7cd9b9bd5bad329fcd21d8e50629700fcc6e5520a66a2de
  Running setup.py bdist_wheel for mpmath: started
  Running setup.py bdist_wheel for mpmath: finished with status 'done'
  Stored in directory: /home/user/.cache/pip/wheels/33/15/0f/9ca5f2ad88a5456803098daa189f382408a81556aa209e97ff
Successfully built sympy mpmath
Installing collected packages: mpmath, sympy
Successfully installed mpmath-1.0.0 sympy-1.1.1

Adding sympy to Pipfile's [packages]…
Installing nose…
                                                                       Collecting nose
  Downloading https://files.pythonhosted.org/packages/15/d8/dd071918c040f50fa1cf80da16423af51ff8ce4a0f2399b7bf8de45ac3d9/nose-1.3.7-py3-none-any.whl (154kB)
Installing collected packages: nose
Successfully installed nose-1.3.7

Adding nose to Pipfile's [packages]…
Pipfile.lock not found, creating…
Locking [dev-packages] dependencies…
Locking [packages] dependencies…
Updated Pipfile.lock (984317)!
Installing dependencies from Pipfile.lock (984317)…
  🐍   ▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉▉ 52/52 — 00:00:19
To activate this project's virtualenv, run the following:
 $ pipenv shell

Locking [packages] dependencies… (下から 6 行目)が表示されたのが開始から 6 分程度でした。 そこからまた時間がかかって、 $ pipenv shell (一番下)が表示されたのが開始から 17 分 45 秒程度でした。

$ ls -l
total 28
-rw-rw-rw- 1 user user   243 Jun 10 14:35 Pipfile
-rw-r--r-- 1 user user 26577 Jun 10 14:47 Pipfile.lock

そんなに大きくないみたいですけれども。

Jupyter Notebook

確認のために Jupyter Notebook を起動してみます。

$ pipenv run jupyter notebook --no-browser &

WSL の Ubuntu だとブラウザーがないので --no-browser のオプションをつけてブラウザーを起動しないようにしています。

それから、プロンプトが戻ってきてほしいので、 & をつけてバックグラウンドで実行しています。

[1] 555
[I 14:52:52.291 NotebookApp] Writing notebook server cookie secret to /home/user/.local/share/jupyter/runtime/notebook_cookie_secret
[I 14:52:52.979 NotebookApp] Serving notebooks from local directory: /home/user/scipy
[I 14:52:52.980 NotebookApp] 0 active kernels
[I 14:52:52.980 NotebookApp] The Jupyter Notebook is running at:
[I 14:52:52.981 NotebookApp] http://localhost:8888/?token=6f81ff1fae3aa523861284ae7a84bbf0f0b594c444e7943b
[I 14:52:52.981 NotebookApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation).
[C 14:52:52.983 NotebookApp]

    Copy/paste this URL into your browser when you connect for the first time,
    to login with a token:
        http://localhost:8888/?token=6f81ff1fae3aa523861284ae7a84bbf0f0b594c444e7943b&token=6f81ff1fae3aa523861284ae7a84bbf0f0b594c444e7943b

起動できたみたいです。

NumPy, pandas, Matplotlib

Jupyter Notebook で NumPy と pandas と Matplotlib を使ってみます。

matplotlib のマジックコマンドとモジュールを読み込みました。

%matplotlib inline
import numpy as np
import pandas as pd
import matplotlib.pyplot as plt

以前、最大ドローダウンを計算したときのサンプルのデータを作りました。

s = pd.Series(np.random.randn(1000))
s2 = s.cumsum()
s3 = s2.cummax()

グラフを表示してみました。

plt.plot(s2, label='cumsum')
plt.plot(s3, label='cummax')
plt.legend(loc='best')
plt.show()

結果です。

最大ドローダウンを表示してみました。

(s3 - s2).max()

結果です。

46.51264733206409

終わり

Pipenv の遅さが気になりました。 10 分以上もかかるなんて。 こういうものかな。

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