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Commit d6f9f75f authored by André Anjos's avatar André Anjos 💬
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Package update for gitlab

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.gitlab-ci.yml 0 → 100644
View file @ d6f9f75f
# This build file is defined in two parts: 1) a generic set of instructions you
# probably **don't** need to change and 2) a part you may have to tune to your
# project. It heavily uses template features from YAML to help you in only
# changing a minimal part of it and avoid code duplication to a maximum while
# still providing a nice pipeline display on your package.
# 1) Generic instructions (only change if you know what you're doing)
# -------------------------------------------------------------------
# Definition of our build pipeline
stages:
- build
- test
- docs
- wheels
# Global variables
variables:
CONDA_PREFIX: env
# Template for the build stage
# Needs to run on all supported architectures, platforms and python versions
.build_template: &build_job
stage: build
before_script:
- git clean -ffdx
- curl --silent https://gitlab.idiap.ch/bob/bob/snippets/7/raw | tr -d '\r' > bootstrap-conda.sh
- chmod 755 ./bootstrap-conda.sh
- ./bootstrap-conda.sh ${CONDA_FOLDER} ${PYTHON_VER} ${CONDA_PREFIX}
variables: &build_variables
BOB_DOCUMENTATION_SERVER: "http://www.idiap.ch/software/bob/docs/latest/bob/%s/master/"
script:
- BOB_PREFIX_PATH=${CONDA_FOLDER}/envs/`cat ${CONDA_FOLDER}/envs/latest-devel-${PYTHON_VER}.txt` ./bin/buildout
- ./bin/sphinx-build doc sphinx
- ./bin/python setup.py bdist_wheel
after_script:
- rm -rf ${CONDA_PREFIX}
artifacts:
expire_in: 1 day
paths:
- bootstrap-conda.sh
- dist/
- sphinx/
# Template for building on a Linux machine
.build_linux_template: &linux_build_job
<<: *build_job
variables: &linux_build_variables
<<: *build_variables
CONDA_FOLDER: "/local/conda"
CFLAGS: "-coverage"
# Template for building on a Mac OSX machine
.build_mac_template: &macosx_build_job
<<: *build_job
variables: &macosx_build_variables
<<: *build_variables
CONDA_FOLDER: "/opt/conda"
MACOSX_DEPLOYMENT_TARGET: "10.9"
CFLAGS: "-pthread -coverage"
# Template for the test stage - re-install from uploaded wheels
# Needs to run on all supported architectures, platforms and python versions
.test_template: &test_job
stage: test
before_script:
- ./bootstrap-conda.sh ${CONDA_FOLDER} ${PYTHON_VER} ${CONDA_PREFIX}
- source ${CONDA_FOLDER}/bin/activate ${CONDA_PREFIX}
- pip install --use-wheel --no-index --pre dist/*.whl
script:
- cd ${CONDA_PREFIX}
- python -c "from ${CI_PROJECT_NAME} import get_config; print(get_config())"
- coverage run --source=${CI_PROJECT_NAME} ./bin/nosetests -sv ${CI_PROJECT_NAME}
- coverage report
- sphinx-build -b doctest ../doc ../sphinx
after_script:
- rm -rf ${CONDA_PREFIX}
# Template for the wheel uploading stage
# Needs to run against one combination of python 2.x and 3.x if it is a python
# only package, otherwise, needs to run in both pythons to all supported
# architectures (Linux and Mac OSX 64-bit)
.wheels_template: &wheels_job
stage: wheels
only:
- master
- tags
script:
- curl --silent --insecure --upload-file dist/*.whl https://${DOCUSER}:${DOCPASS}@www.idiap.ch/software/bob/wheels-upload/gitlab/
# Template for (latest) documentation upload stage
# Only one real job needs to do this
.docs_template: &docs_job
stage: docs
only:
- master
script:
- echo "repo=${CI_PROJECT_PATH}" > sphinx/.gitlab-ci.info
- echo "branch=${CI_BUILD_REF_NAME}" >> sphinx/.gitlab-ci.info
- echo "tag=${CI_BUILD_TAG}" >> sphinx/.gitlab-ci.info
- echo "build=${CI_BUILD_ID}" >> sphinx/.gitlab-ci.info
- echo "commit=${CI_BUILD_REF}" >> sphinx/.gitlab-ci.info
- echo "runner=${CI_RUNNER_DESCRIPTION}" >> sphinx/.gitlab-ci.info
- tar cfj ${CI_PROJECT_NAME}-${CI_BUILD_REF}.tar.bz2 sphinx
- curl --silent --insecure --upload-file *.tar.bz2 https://${DOCUSER}:${DOCPASS}@www.idiap.ch/software/bob/docs-upload/
# 2) Package specific instructions (you may tune this if needed)
# --------------------------------------------------------------
# Linux + Python 2.7: Builds and tests
build_linux_27:
<<: *linux_build_job
variables: &linux_27_build_variables
<<: *linux_build_variables
PYTHON_VER: "2.7"
tags:
- conda-linux
test_linux_27:
<<: *test_job
variables: *linux_27_build_variables
dependencies:
- build_linux_27
tags:
- conda-linux
wheels_linux_27:
<<: *wheels_job
dependencies:
- build_linux_27
tags:
- conda-linux
# Linux + Python 3.4: Builds and tests
build_linux_34:
<<: *linux_build_job
variables: &linux_34_build_variables
<<: *linux_build_variables
PYTHON_VER: "3.4"
tags:
- conda-linux
test_linux_34:
<<: *test_job
variables: *linux_34_build_variables
dependencies:
- build_linux_34
tags:
- conda-linux
wheels_linux_34:
<<: *wheels_job
dependencies:
- build_linux_34
tags:
- conda-linux
# Linux + Python 3.5: Builds and tests
build_linux_35:
<<: *linux_build_job
variables: &linux_35_build_variables
<<: *linux_build_variables
PYTHON_VER: "3.5"
tags:
- conda-linux
test_linux_35:
<<: *test_job
variables: *linux_35_build_variables
dependencies:
- build_linux_35
tags:
- conda-linux
wheels_linux_35:
<<: *wheels_job
dependencies:
- build_linux_35
tags:
- conda-linux
docs_linux_35:
<<: *docs_job
dependencies:
- build_linux_35
tags:
- conda-linux
# Mac OSX + Python 2.7: Builds, tests and uploads the wheel
build_macosx_27:
<<: *macosx_build_job
variables: &macosx_27_build_variables
<<: *macosx_build_variables
PYTHON_VER: "2.7"
tags:
- conda-macosx
test_macosx_27:
<<: *test_job
variables: *macosx_27_build_variables
dependencies:
- build_macosx_27
tags:
- conda-macosx
wheels_macosx_27:
<<: *wheels_job
dependencies:
- build_macosx_27
tags:
- conda-macosx
# Mac OSX + Python 3.4: Builds and tests
build_macosx_34:
<<: *macosx_build_job
variables: &macosx_34_build_variables
<<: *macosx_build_variables
PYTHON_VER: "3.4"
tags:
- conda-macosx
test_macosx_34:
<<: *test_job
variables: *macosx_34_build_variables
dependencies:
- build_macosx_34
tags:
- conda-macosx
wheels_macosx_34:
<<: *wheels_job
dependencies:
- build_macosx_34
tags:
- conda-macosx
# Mac OSX + Python 3.5: Builds, tests, uploads the wheel and the latest docs
build_macosx_35:
<<: *macosx_build_job
variables: &macosx_35_build_variables
<<: *macosx_build_variables
PYTHON_VER: "3.5"
tags:
- conda-macosx
test_macosx_35:
<<: *test_job
variables: *macosx_35_build_variables
dependencies:
- build_macosx_35
tags:
- conda-macosx
wheels_macosx_35:
<<: *wheels_job
dependencies:
- build_macosx_35
tags:
- conda-macosx
.travis.yml deleted 100644 → 0
View file @ 2fe2912a
language: python
env:
global:
- secure: U6PO13Ek4WGWqkx1g9nearxLiK9QEOp0/YcncDGtK1uTjH4poEfL4+Zdqdmusgz0ZPzEbpNdDjrVkPdzlHfMCLiD7b1F0ZXwZn8gZaQRljCFVN4gRxHHUSDuhqMCfByJe2dAai7G+NP7k2c4j+kjMMNt0L8Sg9kxPjk99ZH0EL4=
- secure: SPjDIc4Qs4FsnCUyHbsYKj8+7FmltTrFfoRBEqbYvSC6onRjfkauJEFSBkO2sTv/usa5AcKmCBjfMiqSya2/eSjJzti7d1AWHrtIe8CsU4/KtJkCT/3Y72HJk35CRpUyp/Pd3dhASjrAvI7aByU60EvRfxcwtNJEumwx0bM+OE8=
- BOB_UPLOAD_WHEEL=1
matrix:
include:
- python: 2.7
env:
- BOB_DOCUMENTATION_SERVER=https://www.idiap.ch/software/bob/docs/latest/bioidiap/%s/master
- python: 3.4
- python: 3.5
before_install:
- sudo add-apt-repository -y ppa:biometrics/bob
- sudo apt-get update -qq
- sudo apt-get install --force-yes libboost-all-dev libblitz1-dev libhdf5-serial-dev libatlas-dev libatlas-base-dev liblapack-dev texlive-latex-recommended texlive-latex-extra texlive-fonts-recommended
- pip install --upgrade pip
- pip install --find-links https://www.idiap.ch/software/bob/wheels/travis/ --use-wheel sphinx nose coverage cpp-coveralls
- pip install --find-links https://www.idiap.ch/software/bob/wheels/travis/ --use-wheel -r requirements.txt --pre coveralls
install:
- python bootstrap-buildout.py
- CPPFLAGS=--coverage LDFLAGS=--coverage ./bin/buildout buildout:debug=false buildout:develop=. buildout:extensions=bob.buildout buildout:auto-checkout=
script:
- ./bin/python -c 'import pkg_resources; from bob.measure import get_config; print(get_config())'
- ./bin/coverage run --source=bob.measure ./bin/nosetests -sv
- ./bin/sphinx-build -b doctest doc sphinx
- ./bin/sphinx-build -b html doc sphinx
after_success:
- cpp-coveralls --build-root=`pwd` --exclude=src --exclude-pattern=".*Compiler.*" --dump=cpp_cov.json
- coveralls --merge=cpp_cov.json
- wget https://raw.githubusercontent.com/bioidiap/bob.extension/master/scripts/upload-{sphinx,wheel}.sh
- chmod a+x upload-sphinx.sh upload-wheel.sh
- ./upload-sphinx.sh
- ./upload-wheel.sh
LICENSE
View file @ d6f9f75f
Copyright (c) 2013, Andre Anjos - Idiap Research Institute
All rights reserved.
Copyright (c) 2016 Idiap Research Institute, http://www.idiap.ch/
Written by Andre Anjos <andre.anjos@idiap.ch>
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer. Redistributions in binary
form must reproduce the above copyright notice, this list of conditions and the
following disclaimer in the documentation and/or other materials provided with
the distribution. Neither the name of the Idiap Research Institute nor the
names of its contributors may be used to endorse or promote products derived
from this software without specific prior written permission.
1. Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
2. Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
3. Neither the name of the copyright holder nor the names of its contributors
may be used to endorse or promote products derived from this software without
specific prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
......@@ -21,4 +24,4 @@ DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
\ No newline at end of file
MANIFEST.in
View file @ d6f9f75f
include LICENSE README.rst bootstrap-buildout.py buildout.cfg requirements.txt version.txt
include LICENSE README.rst bootstrap-buildout.py buildout.cfg develop.cfg requirements.txt version.txt
recursive-include doc conf.py *.rst
recursive-include bob *.h *.cpp
recursive-include bob/measure/data *.*
README.rst
View file @ d6f9f75f
.. vim: set fileencoding=utf-8 :
.. Andre Anjos <andre.anjos@idiap.ch>
.. Thu 29 Aug 2013 16:07:57 CEST
.. Thu 11 Aug 14:52:51 CEST 2016
.. image:: http://img.shields.io/badge/docs-stable-yellow.png
:target: http://pythonhosted.org/bob.measure/index.html
.. image:: http://img.shields.io/badge/docs-latest-orange.png
:target: https://www.idiap.ch/software/bob/docs/latest/bioidiap/bob.measure/master/index.html
.. image:: https://travis-ci.org/bioidiap/bob.measure.svg?branch=master
:target: https://travis-ci.org/bioidiap/bob.measure?branch=master
.. image:: https://coveralls.io/repos/bioidiap/bob.measure/badge.svg?branch=master
:target: https://coveralls.io/r/bioidiap/bob.measure?branch=master
.. image:: https://img.shields.io/badge/github-master-0000c0.png
:target: https://github.com/bioidiap/bob.measure/tree/master
.. image:: https://gitlab.idiap.ch/bob/bob.measure/badges/master/build.svg
:target: https://gitlab.idiap.ch/bob/bob.measure/commits/master
.. image:: https://img.shields.io/badge/gitlab-project-0000c0.svg
:target: https://gitlab.idiap.ch/bob/bob.measure
.. image:: http://img.shields.io/pypi/v/bob.measure.png
:target: https://pypi.python.org/pypi/bob.measure
.. image:: http://img.shields.io/pypi/dm/bob.measure.png
:target: https://pypi.python.org/pypi/bob.measure
=======================================
Experiment Evaluation Metrics for Bob
=======================================
This package contains Bob's measure packages and functionality.
This package is part of the signal-processing and machine learning toolbox
Bob_. It contains common routines for assessing performance of machine learning
experiments.
Installation
------------
To install this package -- alone or together with other `Packages of Bob <https://github.com/idiap/bob/wiki/Packages>`_ -- please read the `Installation Instructions <https://github.com/idiap/bob/wiki/Installation>`_.
For Bob_ to be able to work properly, some dependent packages are required to be installed.
Please make sure that you have read the `Dependencies <https://github.com/idiap/bob/wiki/Dependencies>`_ for your operating system.
Documentation
-------------
For further documentation on this package, please read the `Stable Version <http://pythonhosted.org/bob.measure/index.html>`_ or the `Latest Version <https://www.idiap.ch/software/bob/docs/latest/bioidiap/bob.measure/master/index.html>`_ of the documentation.
For a list of tutorials on this or the other packages ob Bob_, or information on submitting issues, asking questions and starting discussions, please visit its website.
Follow our `installation`_ instructions. Then, using the Python interpreter
provided by the distribution, bootstrap and buildout this package::
$ python bootstrap-buildout.py
$ ./bin/buildout
Contact
-------
For questions or reporting issues to this software package, contact our
development `mailing list`_.
.. Place your references here:
.. _bob: https://www.idiap.ch/software/bob
.. _installation: https://gitlab.idiap.ch/bob/bob/wikis/Installation
.. _mailing list: https://groups.google.com/forum/?fromgroups#!forum/bob-devel
bootstrap-buildout.py
View file @ d6f9f75f
......@@ -25,7 +25,10 @@ import tempfile
from optparse import OptionParser
tmpeggs = tempfile.mkdtemp()
__version__ = '2015-07-01'
# See zc.buildout's changelog if this version is up to date.
tmpeggs = tempfile.mkdtemp(prefix='bootstrap-')
usage = '''\
[DESIRED PYTHON FOR BUILDOUT] bootstrap.py [options]
......@@ -40,8 +43,9 @@ this script from going over the network.
'''
parser = OptionParser(usage=usage)
parser.add_option("-v", "--version", help="use a specific zc.buildout version")
parser.add_option("--version",
action="store_true", default=False,
help=("Return bootstrap.py version."))
parser.add_option("-t", "--accept-buildout-test-releases",
dest='accept_buildout_test_releases',
action="store_true", default=False,
......@@ -59,25 +63,33 @@ parser.add_option("-f", "--find-links",
parser.add_option("--allow-site-packages",
action="store_true", default=False,
help=("Let bootstrap.py use existing site packages"))
parser.add_option("--buildout-version",
help="Use a specific zc.buildout version")
parser.add_option("--setuptools-version",
help="use a specific setuptools version")
help="Use a specific setuptools version")
parser.add_option("--setuptools-to-dir",
help=("Allow for re-use of existing directory of "
"setuptools versions"))
options, args = parser.parse_args()
if options.version:
print("bootstrap.py version %s" % __version__)
sys.exit(0)
######################################################################
# load/install setuptools
try:
if options.allow_site_packages:
import setuptools
import pkg_resources
from urllib.request import urlopen
except ImportError:
from urllib2 import urlopen
ez = {}
exec(urlopen('https://bootstrap.pypa.io/ez_setup.py').read(), ez)
if os.path.exists('ez_setup.py'):
exec(open('ez_setup.py').read(), ez)
else:
exec(urlopen('https://bootstrap.pypa.io/ez_setup.py').read(), ez)
if not options.allow_site_packages:
# ez_setup imports site, which adds site packages
......@@ -88,12 +100,19 @@ if not options.allow_site_packages:
# We can't remove these reliably
if hasattr(site, 'getsitepackages'):
for sitepackage_path in site.getsitepackages():
sys.path[:] = [x for x in sys.path if sitepackage_path not in x]
# Strip all site-packages directories from sys.path that
# are not sys.prefix; this is because on Windows
# sys.prefix is a site-package directory.
if sitepackage_path != sys.prefix:
sys.path[:] = [x for x in sys.path
if sitepackage_path not in x]
setup_args = dict(to_dir=tmpeggs, download_delay=0)
if options.setuptools_version is not None:
setup_args['version'] = options.setuptools_version
if options.setuptools_to_dir is not None:
setup_args['to_dir'] = options.setuptools_to_dir
ez['use_setuptools'](**setup_args)
import setuptools
......@@ -110,7 +129,12 @@ for path in sys.path:
ws = pkg_resources.working_set
setuptools_path = ws.find(
pkg_resources.Requirement.parse('setuptools')).location
# Fix sys.path here as easy_install.pth added before PYTHONPATH
cmd = [sys.executable, '-c',
'import sys; sys.path[0:0] = [%r]; ' % setuptools_path +
'from setuptools.command.easy_install import main; main()',
'-mZqNxd', tmpeggs]
......@@ -123,11 +147,8 @@ find_links = os.environ.get(
if find_links:
cmd.extend(['-f', find_links])
setuptools_path = ws.find(
pkg_resources.Requirement.parse('setuptools')).location
requirement = 'zc.buildout'
version = options.version
version = options.buildout_version
if version is None and not options.accept_buildout_test_releases:
# Figure out the most recent final version of zc.buildout.
import setuptools.package_index
......@@ -167,7 +188,7 @@ if version:
cmd.append(requirement)
import subprocess
if subprocess.call(cmd, env=dict(os.environ, PYTHONPATH=setuptools_path)) != 0:
if subprocess.call(cmd) != 0:
raise Exception(
"Failed to execute command:\n%s" % repr(cmd)[1:-1])
......
buildout.cfg
View file @ d6f9f75f
; vim: set fileencoding=utf-8 :
; Andre Anjos <andre.anjos@idiap.ch>
; Mon 16 Apr 08:29:18 2012 CEST
; Thu 11 Aug 14:52:25 CEST 2016
[buildout]
parts = scripts
develop = .
eggs = bob.measure
extensions = bob.buildout
mr.developer
auto-checkout = *
develop = src/bob.extension
src/bob.blitz
src/bob.core
src/bob.math
src/bob.io.base
.
; options for bob.buildout extension
debug = true
verbose = true
newest = false
[sources]
bob.extension = git https://github.com/bioidiap/bob.extension
bob.blitz = git https://github.com/bioidiap/bob.blitz
bob.core = git https://github.com/bioidiap/bob.core
bob.math = git https://github.com/bioidiap/bob.math
bob.io.base = git https://github.com/bioidiap/bob.io.base
verbose = true
[scripts]
recipe = bob.buildout:scripts
recipe = bob.buildout:scripts
\ No newline at end of file
develop.cfg 0 → 100644
View file @ d6f9f75f
; vim: set fileencoding=utf-8 :
; Andre Anjos <andre.anjos@idiap.ch>
; Mon 16 Apr 08:29:18 2012 CEST
[buildout]
parts = scripts
eggs = bob.measure
extensions = bob.buildout
mr.developer
auto-checkout = *
develop = src/bob.extension
src/bob.blitz
src/bob.core
src/bob.math
src/bob.io.base
.
; options for bob.buildout extension
debug = true
verbose = true
newest = false
[sources]
bob.extension = git https://gitlab.idiap.ch/bob/bob.extension
bob.blitz = git https://gitlab.idiap.ch/bob/bob.blitz
bob.core = git https://gitlab.idiap.ch/bob/bob.core
bob.math = git https://gitlab.idiap.ch/bob/bob.math
bob.io.base = git https://gitlab.idiap.ch/bob/bob.io.base
[scripts]
recipe = bob.buildout:scripts
doc/conf.py
View file @ d6f9f75f
<
#!/usr/bin/env python
# vim: set fileencoding=utf-8 :
# Andre Anjos <andre.anjos@idiap.ch>
# Tue 15 Oct 16:37:18 2013 CEST
#
# Copyright (C) 2011-2014 Idiap Research Institute, Martigny, Switzerland
import os
import sys
import glob
import pkg_resources
# If extensions (or modules to document with autodoc) are in another directory,
# add these directories to sys.path here. If the directory is relative to the
# documentation root, use os.path.abspath to make it absolute, like shown here.
#sys.path.insert(0, os.path.abspath('.'))
# -- General configuration -----------------------------------------------------
# If your documentation needs a minimal Sphinx version, state it here.
#needs_sphinx = '1.0'
needs_sphinx = '1.3'
# Add any Sphinx extension module names here, as strings. They can be extensions
# coming with Sphinx (named 'sphinx.ext.*') or your custom ones.
extensions = [
'sphinx.ext.todo',
'sphinx.ext.coverage',
'sphinx.ext.pngmath',
'sphinx.ext.ifconfig',
'sphinx.ext.autodoc',
'sphinx.ext.autosummary',
'sphinx.ext.doctest',
'sphinx.ext.intersphinx',
'matplotlib.sphinxext.plot_directive',
]
'sphinx.ext.todo',
'sphinx.ext.coverage',
'sphinx.ext.ifconfig',
'sphinx.ext.autodoc',
'sphinx.ext.autosummary',