Merge branch 'ci_fix' into 'master'

Ci fix

See merge request !11

.gitignore

@@ -19,3 +19,4 @@ build
 *.egg
 src/
 doc/html
+record.txt

.gitlab-ci.yml

-# This build file heavily uses template features from YAML so it is generic
-# enough for any Bob project. Don't modify it unless you know what you're
-# doing.
+# This build file uses template features from YAML so it is generic enough for
+# any Bob project. Don't modify it unless you know what you're doing.
 
+# Definition of global variables (all stages)
+variables:
+  CONDA_ROOT: "${CI_PROJECT_DIR}/miniconda"
 
-# Definition of our build pipeline
+
+# Definition of our build pipeline order
 stages:
   - build
-  - test
-  - docs
-  - wheels
   - deploy
+  - pypi
 
 
-# ---------
-# Templates
-# ---------
-
-# Template for the build stage
-# Needs to run on all supported architectures, platforms and python versions
+# Build targets
 .build_template: &build_job
   stage: build
   before_script:
-    - git clean -ffdx
     - mkdir _ci
     - curl --silent "https://gitlab.idiap.ch/bob/bob.admin/raw/master/gitlab/install.sh" > _ci/install.sh
     - chmod 755 _ci/install.sh
-    - ./_ci/install.sh _ci #updates
+    - ./_ci/install.sh _ci master #installs ci support scripts
     - ./_ci/before_build.sh
   script:
     - ./_ci/build.sh
   after_script:
     - ./_ci/after_build.sh
-  artifacts:
-    expire_in: 1 week
+  cache: &build_caches
     paths:
-      - _ci/
-      - dist/
-      - sphinx/
-
-
-# Template for the test stage - re-installs from uploaded wheels
-# Needs to run on all supported architectures, platforms and python versions
-.test_template: &test_job
-  stage: test
-  before_script:
-    - ./_ci/install.sh _ci #updates
-    - ./_ci/before_test.sh
-  script:
-    - ./_ci/test.sh
-  after_script:
-    - ./_ci/after_test.sh
-
-
-# Template for the wheel uploading stage
-# Needs to run against one supported architecture, platform and python version
-.wheels_template: &wheels_job
-  stage: wheels
-  environment: intranet
-  only:
-    - master
-    - /^v\d+\.\d+\.\d+([abc]\d*)?$/  # PEP-440 compliant version (tags)
-  before_script:
-    - ./_ci/install.sh _ci #updates
-    - ./_ci/before_wheels.sh
-  script:
-    - ./_ci/wheels.sh
-  after_script:
-    - ./_ci/after_wheels.sh
-
-
-# Template for (latest) documentation upload stage
-# Only one real job needs to do this
-.docs_template: &docs_job
-  stage: docs
-  environment: intranet
-  only:
-    - master
-  before_script:
-    - ./_ci/install.sh _ci #updates
-    - ./_ci/before_docs.sh
-  script:
-    - ./_ci/docs.sh
-  after_script:
-    - ./_ci/after_docs.sh
-
-
-# Template for the deployment stage - re-installs from uploaded wheels
-# Needs to run on a single architecture only
-# Will deploy your package to PyPI and other required services
-# Only runs for tags
-.deploy_template: &deploy_job
-  stage: deploy
-  environment: internet
-  only:
-    - /^v\d+\.\d+\.\d+([abc]\d*)?$/  # PEP-440 compliant version (tags)
-  except:
-    - branches
-  before_script:
-    - ./_ci/install.sh _ci #updates
-    - ./_ci/before_deploy.sh
-  script:
-    - ./_ci/deploy.sh
-  after_script:
-    - ./_ci/after_deploy.sh
-
+      - miniconda.sh
+      - ${CONDA_ROOT}/pkgs/*.tar.bz2
+      - ${CONDA_ROOT}/pkgs/urls.txt
 
-# -------------
-# Build Targets
-# -------------
 
-# Linux + Python 2.7: Builds, tests, uploads wheel and deploys (if needed)
-build_linux_27:
+.build_linux_template: &linux_build_job
   <<: *build_job
-  variables: &linux_27_build_variables
-    PYTHON_VERSION: "2.7"
-    WHEEL_TAG: "py27"
-  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
-  variables: *linux_27_build_variables
-  dependencies:
-    - build_linux_27
-  tags:
-    - conda-linux
-
-deploy_linux_27:
-  <<: *deploy_job
-  variables: *linux_27_build_variables
-  dependencies:
-    - build_linux_27
   tags:
-    - conda-linux
+    - docker
+  image: continuumio/conda-concourse-ci
+  artifacts:
+    expire_in: 1 week
+    paths:
+      - _ci/
+      - ${CONDA_ROOT}/conda-bld/linux-64/*.tar.bz2
+  cache:
+    <<: *build_caches
+    key: "linux-cache"
 
 
-# Linux + Python 3.5: Builds, tests and uploads wheel
-build_linux_35:
+.build_macosx_template: &macosx_build_job
   <<: *build_job
-  variables: &linux_35_build_variables
-    PYTHON_VERSION: "3.5"
-    WHEEL_TAG: "py3"
-  tags:
-    - conda-linux
-
-test_linux_35:
-  <<: *test_job
-  variables: *linux_35_build_variables
-  dependencies:
-    - build_linux_35
   tags:
-    - conda-linux
+    - macosx
+  artifacts:
+    expire_in: 1 week
+    paths:
+      - _ci/
+      - ${CONDA_ROOT}/conda-bld/osx-64/*.tar.bz2
+  cache:
+    <<: *build_caches
+    key: "macosx-cache"
 
-wheels_linux_35:
-  <<: *wheels_job
-  variables: *linux_35_build_variables
-  dependencies:
-    - build_linux_35
-  tags:
-    - conda-linux
 
-docs_linux_35:
-  <<: *docs_job
-  variables: *linux_35_build_variables
-  dependencies:
-    - build_linux_35
-  tags:
-    - conda-linux
+build_linux_27:
+  <<: *linux_build_job
+  variables:
+    PYTHON_VERSION: "2.7"
 
 
-# Linux + Python 3.6: Builds and tests
 build_linux_36:
-  <<: *build_job
-  variables: &linux_36_build_variables
+  <<: *linux_build_job
+  variables:
     PYTHON_VERSION: "3.6"
-    WHEEL_TAG: "py3"
-  tags:
-    - conda-linux
-
-test_linux_36:
-  <<: *test_job
-  variables: *linux_36_build_variables
-  dependencies:
-    - build_linux_36
-  tags:
-    - conda-linux
+    BUILD_EGG: "true"
+  artifacts:
+    expire_in: 1 week
+    paths:
+      - _ci/
+      - dist/*.zip
+      - sphinx
+      - ${CONDA_ROOT}/conda-bld/linux-64/*.tar.bz2
 
 
-# Mac OSX + Python 2.7: Builds and tests
 build_macosx_27:
-  <<: *build_job
-  variables: &macosx_27_build_variables
+  <<: *macosx_build_job
+  variables:
     PYTHON_VERSION: "2.7"
-    WHEEL_TAG: "py27"
-  tags:
-    - conda-macosx
 
-test_macosx_27:
-  <<: *test_job
-  variables: *macosx_27_build_variables
+
+build_macosx_36:
+  <<: *macosx_build_job
+  variables:
+    PYTHON_VERSION: "3.6"
+
+
+# Deploy targets
+.deploy_template: &deploy_job
+  stage: deploy
+  before_script:
+    - ./_ci/install.sh _ci master #updates ci support scripts
+  script:
+    - ./_ci/deploy.sh
   dependencies:
+    - build_linux_27
+    - build_linux_36
     - build_macosx_27
+    - build_macosx_36
   tags:
-    - conda-macosx
+    - deployer
 
 
-# Mac OSX + Python 3.5: Builds and tests
-build_macosx_35:
-  <<: *build_job
-  variables: &macosx_35_build_variables
-    PYTHON_VERSION: "3.5"
-    WHEEL_TAG: "py3"
-  tags:
-    - conda-macosx
+deploy_beta:
+  <<: *deploy_job
+  environment: beta
+  only:
+    - master
 
-test_macosx_35:
-  <<: *test_job
-  variables: *macosx_35_build_variables
-  dependencies:
-    - build_macosx_35
-  tags:
-    - conda-macosx
 
+deploy_stable:
+  <<: *deploy_job
+  environment: stable
+  only:
+    - /^v\d+\.\d+\.\d+([abc]\d*)?$/  # PEP-440 compliant version (tags)
+  except:
+    - branches
 
-# Mac OSX + Python 3.6: Builds and tests
-build_macosx_36:
-  <<: *build_job
-  variables: &macosx_36_build_variables
-    PYTHON_VERSION: "3.6"
-    WHEEL_TAG: "py3"
-  tags:
-    - conda-macosx
 
-test_macosx_36:
-  <<: *test_job
-  variables: *macosx_36_build_variables
+pypi:
+  stage: pypi
+  environment: pypi
+  only:
+    - /^v\d+\.\d+\.\d+([abc]\d*)?$/  # PEP-440 compliant version (tags)
+  except:
+    - branches
+  before_script:
+    - ./_ci/install.sh _ci master #updates ci support scripts
+  script:
+    - ./_ci/pypi.sh
   dependencies:
-    - build_macosx_36
+    - build_linux_36
   tags:
-    - conda-macosx
+    - deployer

MANIFEST.in

-include README.rst bootstrap-buildout.py buildout.cfg develop.cfg requirements.txt version.txt
+include README.rst buildout.cfg develop.cfg requirements.txt version.txt
 recursive-include doc *.py *.rst *.png *.ico
 recursive-include bob/ip/qualitymeasure/data *.mp4 *.jpg *.h5 *.hdf5 *.ppm

README.rst

 .. vim: set fileencoding=utf-8 :
-.. Sat  3 Dec 20:18:15 2016 CET
+.. Tue Feb 13 16:23:29 CET 2018
 
-.. image:: https://img.shields.io/badge/docs-stable-yellow.png
+.. image:: https://img.shields.io/badge/docs-stable-yellow.svg
    :target: https://www.idiap.ch/software/bob/docs/bob/bob.ip.qualitymeasure/stable/index.html
-.. image:: https://img.shields.io/badge/docs-latest-orange.png
+.. image:: https://img.shields.io/badge/docs-latest-orange.svg
    :target: https://www.idiap.ch/software/bob/docs/bob/bob.ip.qualitymeasure/master/index.html
 .. image:: https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure/badges/master/build.svg
    :target: https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure/commits/master
+.. image:: https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure/badges/master/coverage.svg
+   :target: https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure/commits/master
 .. image:: https://img.shields.io/badge/gitlab-project-0000c0.svg
    :target: https://gitlab.idiap.ch/bob/bob.ip.qualitymeasure
-.. image:: http://img.shields.io/pypi/v/bob.ip.qualitymeasure.png
+.. image:: https://img.shields.io/pypi/v/bob.ip.qualitymeasure.svg
    :target: https://pypi.python.org/pypi/bob.ip.qualitymeasure
 
 
@@ -23,14 +25,14 @@ for PAD experiments by different research groups. Image quality measures
 proposed by Galbally et al. (IEEE TIP 2014) and by Wen et al. (IEEE TIFS 2015)
 are implemented in this package.
 
+
 Installation
 ------------
 
-Follow our `installation`_ instructions. Then, using the Python interpreter
-provided by the distribution, bootstrap and buildout this package::
+Complete Bob's `installation`_ instructions. Then, to install this package,
+run::
 
-  $ python bootstrap-buildout.py
-  $ ./bin/buildout
+  $ conda install bob.ip.qualitymeasure
 
 
 Contact
@@ -42,5 +44,5 @@ 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
+.. _installation: https://www.idiap.ch/software/bob/install
+.. _mailing list: https://www.idiap.ch/software/bob/discuss

conda/meta.yaml

+{% set name = 'bob.ip.qualitymeasure' %}
+{% set project_dir = environ.get('RECIPE_DIR') + '/..' %}
+
+package:
+  name: {{ name }}
+  version: {{ environ.get('BOB_PACKAGE_VERSION', '0.0.1') }}
+
+build:
+  entry_points:
+    - compute_qualityfeatures.py = bob.ip.qualitymeasure.script.compute_qualitymeasures:main
+    - remove_highlights.py = bob.ip.qualitymeasure.script.remove_highlights:main
+  number: {{ environ.get('BOB_BUILD_NUMBER', 0) }}
+  run_exports:
+    - {{ pin_subpackage(name) }}
+  script:
+    - cd {{ project_dir }}
+    {% if environ.get('BUILD_EGG') %}
+    - python setup.py sdist --formats=zip
+    {% endif %}
+    - python setup.py install --single-version-externally-managed --record record.txt
+
+requirements:
+  build:
+    - {{ compiler('c') }}
+    - {{ compiler('cxx') }}
+  host:
+    - python {{ python }}
+    - setuptools {{ setuptools }}
+    - bob.extension
+    - bob.blitz
+    - bob.io.base
+    - bob.io.image
+    - bob.io.video
+    - bob.ip.base
+    - bob.ip.draw
+    - bob.ip.color
+    - numpy {{ numpy }}
+    - scipy {{ scipy }}
+    - libblitz {{ libblitz }}
+  run:
+    - python
+    - setuptools
+    - {{ pin_compatible('numpy') }}
+    - scipy
+
+test:
+  imports:
+    - {{ name }}
+  commands:
+    - nosetests --with-coverage --cover-package={{ name }} -sv {{ name }}
+    - sphinx-build -aEW {{ project_dir }}/doc {{ project_dir }}/sphinx
+    - sphinx-build -aEb doctest {{ project_dir }}/doc sphinx
+    - conda inspect linkages -p $PREFIX {{ name }}  # [not win]
+    - conda inspect objects -p $PREFIX {{ name }}  # [osx]
+  requires:
+    - bob-devel {{ bob_devel }}.*
+    - nose
+    - coverage
+    - sphinx
+    - sphinx_rtd_theme
+
+about:
+  home: https://www.idiap.ch/software/bob/
+  license: GNU General Public License v3 (GPLv3)
+  summary: Image-quality feature-extractors for PAD applications
+  license_family: GPL

doc/conf.py

@@ -25,16 +25,10 @@ extensions = [
     'sphinx.ext.intersphinx',
     'sphinx.ext.napoleon',
     'sphinx.ext.viewcode',
-    'matplotlib.sphinxext.plot_directive'
+    'sphinx.ext.mathjax',
+    #'matplotlib.sphinxext.plot_directive'
     ]
 
-import sphinx
-if sphinx.__version__ >= "1.4.1":
-    extensions.append('sphinx.ext.imgmath')
-    imgmath_image_format = 'svg'
-else:
-    extensions.append('sphinx.ext.pngmath')
-
 # Be picky about warnings
 nitpicky = True
 
@@ -132,7 +126,7 @@ pygments_style = 'sphinx'
 
 # Some variables which are useful for generated material
 project_variable = project.replace('.', '_')
-short_description = u'Extraction of image quality measures for face-PAD experiments.'
+short_description = u'Image-quality feature-extractors for PAD applications'
 owner = [u'Idiap Research Institute']
 
 
@@ -232,7 +226,6 @@ autodoc_member_order = 'bysource'
 autodoc_default_flags = [
   'members',
   'undoc-members',
-  'inherited-members',
   'show-inheritance',
   ]
 
@@ -240,9 +233,12 @@ autodoc_default_flags = [
 from bob.extension.utils import link_documentation, load_requirements
 sphinx_requirements = "extra-intersphinx.txt"
 if os.path.exists(sphinx_requirements):
-    intersphinx_mapping = link_documentation(additional_packages=['python', 'numpy']+load_requirements(sphinx_requirements))
+  intersphinx_mapping = link_documentation(
+      additional_packages=['python','numpy'] + \
+          load_requirements(sphinx_requirements)
+          )
 else:
-    intersphinx_mapping = link_documentation()
+  intersphinx_mapping = link_documentation()
 
 
 # We want to remove all private (i.e. _. or __.__) members

requirements.txt

 setuptools
-docopt
 bob.extension
 bob.blitz
 bob.io.base