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
|
# vim ft=yaml
# Multiple lines can be made a single "virtual line" because of the way that
# Travis munges each line before executing it to print out the exit status.
# It's okay for it to be on multiple physical lines, so long as you remember:
# - There can't be any leading "-"s - All newlines will be removed, so use
# ";"s
sudo: false # To use travis container infrastructure
language: python
cache:
directories:
- $HOME/.cache/pip
addons:
apt:
packages:
- libhdf5-serial-dev
env:
global:
- DEPENDS="cython numpy matplotlib h5py nibabel cvxpy tqdm"
- VENV_ARGS="--python=python"
- INSTALL_TYPE="setup"
- PRE_WHEELS="https://pypi.anaconda.org/scipy-wheels-nightly/simple"
- EXTRA_PIP_FLAGS="--timeout=60 "
python:
- 3.6
- 3.7
- 3.8
matrix:
include:
- python: 3.7
dist: xenial
env:
- DEPENDS="$DEPENDS scipy"
# To test minimum dependencies for Python 3.6:
- python: 3.6
env:
# Check these values against requirements.txt and dipy/info.py
- DEPENDS="cython==0.29 numpy==1.12.0 scipy==1.0 nibabel==3.0.0 h5py==2.5.0 nose tqdm>=4.30.0"
# To test minimum dependencies for Python 3.7:
- python: 3.7
dist: xenial
env:
# Check these values against requirements.txt and dipy/info.py
- DEPENDS="cython==0.29 numpy==1.15.0 scipy==1.1 nibabel==3.0.0 h5py==2.8.0 tqdm>=4.30.0"
# Need to be uncomment when tensorflow and statsmodel available
#- python: 3.8
# dist: xenial
# env:
# - DEPENDS="$DEPENDS scikit_learn pandas statsmodels tables scipy tensorflow"
- python: 3.7
dist: xenial
env:
- COVERAGE=1
- DEPENDS="$DEPENDS scikit_learn pandas statsmodels tables scipy tensorflow"
# To test vtk functionality
- python: 3.7
dist: xenial
sudo: true # This is set to true for apt-get
services:
- xvfb
env:
- COVERAGE=1
- VTK=1
- TEST_WITH_XVFB=true
- MESA_GL_VERSION_OVERRIDE=3.3
- LIBGL_ALWAYS_INDIRECT=y
- DEPENDS="$DEPENDS scikit_learn vtk fury scipy"
- python: 3.7
dist: xenial
env:
- INSTALL_TYPE=sdist
- DEPENDS="$DEPENDS scipy"
- python: 3.7
dist: xenial
env:
- INSTALL_TYPE=pip
# Dependency checking should get all needed dependencies
- DEPENDS=""
- python: 3.7
dist: xenial
env:
- INSTALL_TYPE=wheel
- DEPENDS="$DEPENDS scipy"
- python: 3.7
dist: xenial
env:
- INSTALL_TYPE=requirements
- DEPENDS=""
- python: 3.7
dist: xenial
# Check against latest available pre-release version of all packages
env:
- USE_PRE=1
- DEPENDS="$DEPENDS scipy statsmodels pandas scikit_learn"
allow_failures:
- python: 3.7
dist: xenial
env:
- USE_PRE=1
- DEPENDS="$DEPENDS scipy statsmodels pandas scikit_learn"
before_install:
- PIPI="pip install $EXTRA_PIP_FLAGS"
- if [ -n "$USE_PRE" ]; then
PIPI="$PIPI --extra-index-url=$PRE_WHEELS --pre";
fi
- pip install --upgrade virtualenv
- virtualenv $VENV_ARGS venv
- source venv/bin/activate
- python --version # just to check
- $PIPI --upgrade pip "setuptools<50.0"
- $PIPI pytest
- $PIPI numpy
- if [ -n "$DEPENDS" ]; then $PIPI $DEPENDS; fi
- if [ "${COVERAGE}" == "1" ]; then pip install coverage coveralls codecov; fi
- if [ "${VTK}" == "1" ]; then
sudo apt-get update;
sudo apt-get install -y $VTK_VER;
sudo apt-get install -y xvfb;
sudo apt-get install -y python-tk;
sudo apt-get install -y python-imaging;
$PIPI xvfbwrapper;
fi
install:
- |
if [ "$INSTALL_TYPE" == "setup" ]; then
python setup.py install
elif [ "$INSTALL_TYPE" == "pip" ]; then
$PIPI .
elif [ "$INSTALL_TYPE" == "sdist" ]; then
python setup_egg.py egg_info # check egg_info while we're here
python setup_egg.py sdist
$PIPI dist/*.tar.gz
elif [ "$INSTALL_TYPE" == "wheel" ]; then
pip install wheel
python setup_egg.py bdist_wheel
$PIPI dist/*.whl
elif [ "$INSTALL_TYPE" == "requirements" ]; then
$PIPI -r requirements.txt
python setup.py install
fi
# command to run tests, e.g. python setup.py test
script:
# Change into an innocuous directory and find tests from installation
- mkdir for_testing
- cd for_testing
# We need the setup.cfg for the pytest settings
- cp ../setup.cfg .
# No figure windows for mpl; quote to hide : from travis-ci yaml parsing
- 'echo "backend : agg" > matplotlibrc'
- if [ "${COVERAGE}" == "1" ]; then
cp ../.coveragerc .;
cp ../.codecov.yml .;
COVER_CMD="coverage run -m ";
fi
- $COVER_CMD pytest -s --doctest-modules --verbose --durations=10 --pyargs dipy
after_success:
- if [ "${COVERAGE}" == "1" ]; then coveralls; codecov; fi
|