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e680389
[travis] changing travis to test in mac
lasofivec Nov 27, 2019
416be9f
update in travis done
lasofivec Nov 28, 2019
9e44fd9
merged with devel
lasofivec Nov 28, 2019
4b6901e
merge version number
lasofivec Nov 28, 2019
604bf03
added deploy on test.pypi if on devel
lasofivec Nov 28, 2019
d121e41
added deploy on test.pypi if on deploy-test
lasofivec Nov 28, 2019
5646259
[pypi deploy] took out apt get, named osx jobs
lasofivec Dec 1, 2019
a2b22b0
[travis] took out ldd version
lasofivec Dec 1, 2019
9c42de2
[pypi] naming linux jobs
lasofivec Dec 1, 2019
800a14d
[pypi] bionic 3.7
lasofivec Dec 1, 2019
2a8fe2e
[pypi] bionic 3.8
lasofivec Dec 1, 2019
f68a9be
[pypi] took out bionic 3.8
lasofivec Dec 1, 2019
da1cbf8
[pypi] install conda-verify
lasofivec Dec 1, 2019
49c9213
[pypi] cleaning some more
lasofivec Dec 1, 2019
7ceedca
[pypi] using pip instead of conda install
lasofivec Dec 1, 2019
566ccff
[pypi] befor deploy
lasofivec Dec 1, 2019
98b6fd8
[pypi] exported path correctly
lasofivec Dec 2, 2019
26abdf7
[pypi] no need to deploy if not tagged
lasofivec Dec 2, 2019
1c5f658
echoing path
lasofivec Dec 2, 2019
28544ed
echoing path
lasofivec Dec 2, 2019
2589c57
shouldnt be deploying to conda
lasofivec Dec 2, 2019
1887798
set anaconda upload to false
lasofivec Dec 2, 2019
c38d0ae
going back to conda for local install
lasofivec Dec 2, 2019
f435a5d
installing conda build
lasofivec Dec 2, 2019
c20ae68
trying install local before
lasofivec Dec 2, 2019
3b4947b
debugging
lasofivec Dec 2, 2019
bc29ce6
[deploy] for conda install local needs condabuild before
lasofivec Dec 2, 2019
b73badc
[deploy] commenting all other deploy
lasofivec Dec 2, 2019
266f02b
[deploy] version with space transformed to point
lasofivec Dec 2, 2019
75107bc
[deployment] corrected travis yml
lasofivec Dec 2, 2019
b186ea8
[deployment] on tags, branch
lasofivec Dec 4, 2019
5c69105
[deployment] skipping exisiting
lasofivec Dec 4, 2019
3105e7c
merged with devel
lasofivec Dec 4, 2019
3d79749
update in version update (setup)
lasofivec Dec 4, 2019
889acb5
put back all deploy methods
lasofivec Dec 4, 2019
038bf34
[test pypi] trying with new token
lasofivec Dec 4, 2019
f0af1a4
[test pypi] took out automatically added matrix
lasofivec Dec 4, 2019
f1e768c
[debugging] debugging mac vol <= 0.
lasofivec Dec 4, 2019
2548de5
[deploy] trying only one deployment no tags
lasofivec Dec 4, 2019
e2c28f7
[deploy] new token and user is __token__
lasofivec Dec 4, 2019
83457f9
[deploy] added other deployments (different order)
lasofivec Dec 4, 2019
83fb8be
merged with remote
lasofivec Dec 10, 2019
f1da521
trying automatic CI with new name, to be reverted
lasofivec Dec 14, 2019
f0a4a89
trying automatic CI with new name, to be reverted
lasofivec Dec 15, 2019
9170084
put back right project name
lasofivec Jan 9, 2020
4d0df8f
[merge] merged with devel
lasofivec Jan 9, 2020
f12b758
[travis] adding branch specification and tag flag
lasofivec Jan 9, 2020
4c77656
[travis] correct travis file
lasofivec Jan 9, 2020
579eb71
correct version number
lasofivec Jan 9, 2020
2b9cb55
trying to correct version number
lasofivec Jan 9, 2020
5bff9e5
updated version number
lasofivec Jan 9, 2020
2918fdb
updated version number
lasofivec Jan 9, 2020
b44ea31
updated version number
lasofivec Jan 10, 2020
6f7b944
updated version number
lasofivec Jan 10, 2020
e8560d1
testing
lasofivec Jan 10, 2020
99e8092
testing
lasofivec Jan 10, 2020
2228cda
new version
lasofivec Jan 10, 2020
e246d32
with new key
lasofivec Jan 10, 2020
40d1ac1
with perso key
lasofivec Jan 10, 2020
4158777
new version
lasofivec Jan 10, 2020
08eeb45
added bdsit wheel
lasofivec Jan 20, 2020
c8e02ca
new version
lasofivec Jan 20, 2020
5da95ce
corrected travis file
lasofivec Jan 20, 2020
810ec8c
new version
lasofivec Jan 20, 2020
61c6165
all deployments done
lasofivec Jan 20, 2020
f6971f5
new version
lasofivec Jan 20, 2020
806f817
new version
lasofivec Jan 20, 2020
5e47a9e
[deployment] added back anacaonda upload, black
lasofivec Jan 21, 2020
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132 changes: 95 additions & 37 deletions .travis.yml
Original file line number Diff line number Diff line change
@@ -1,69 +1,127 @@
language: python
python:
- '3.6'
- '3.7-dev'

git:
depth: 200
sudo: required
dist: trusty
matrix:
include:
- name: Bionic python 3.7
os: linux
dist: bionic
python: 3.7
env:
- REPO=https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
- OS=linux-64
- name: trusty python 3.6
os: linux
dist: trusty
python: 3.6
env:
- REPO=https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
- OS=linux-64
- name: xenial python 3.7
os: linux
dist: xenial
python: 3.7
env:
- REPO=https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
- OS=linux-64
- name: xenial python 3.6
os: linux
dist: xenial
python: 3.6
env:
- REPO=https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
- OS=linux-64
- name: osx python 3.7
os: osx
language: generic
env:
- REPO=https://repo.anaconda.com/miniconda/Miniconda3-latest-MacOSX-x86_64.sh
- TRAVIS_PYTHON_VERSION=3.7
- OS=osx-64
- name: osx python 3.6
os: osx
language: generic
env:
- REPO=https://repo.anaconda.com/miniconda/Miniconda3-latest-MacOSX-x86_64.sh
- TRAVIS_PYTHON_VERSION=3.6
- OS=osx-64
before_install:
- sudo apt-get update
- ldd --version
- gcc --version
- export START=$(pwd)
- gcc --version
- export START=$(pwd)
install:
- if [[ "$TRAVIS_PYTHON_VERSION" == "3.7-dev" ]]; then export VADD="py37"; else export VADD="py36"; fi
- wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
-O miniconda.sh
- wget "$REPO" -O miniconda.sh
- bash miniconda.sh -b -p $HOME/miniconda
- export PATH="$HOME/miniconda/bin:$PATH"
- hash -r
- conda config --set always_yes yes --set changeps1 no
- conda install conda-build
- conda update -q conda
- conda update -n root conda-build
- conda config --set anaconda_upload no
- conda config --append channels conda-forge
- conda config --append channels tofuproject
- conda info -a
- if [[ "$TRAVIS_PYTHON_VERSION" == "3.7-dev" ]]; then export THIS_PY_VERSION="3.7";
else THIS_PY_VERSION=$TRAVIS_PYTHON_VERSION;
fi
- conda install -q python=$THIS_PY_VERSION conda-build anaconda-client nose
nose-timer coverage codecov
- conda install -q python="$TRAVIS_PYTHON_VERSION" conda-verify nose nose-timer coverage
codecov
- export REV=$(python -c "import _updateversion as up; out=up.updateversion(); print(out)")
- export VERSION=$(echo $REV | tr - .)
- echo $REV
- conda build conda_recipe
- export PKG_DIR=$HOME/miniconda/conda-bld/linux-64/
- conda install tofu --use-local
- pip install -e ".[dev]"
script:
- cd $HOME
- nosetests tofu.tests --nocapture -v --with-id --with-timer --with-coverage
--cover-package=tofu
- nosetests tofu.tests --nocapture -v --with-id --with-timer --with-coverage --cover-package=tofu
after_success:
- codecov
- chmod +x $START/anaconda_upload.sh
- echo $TRAVIS_TAG
before_deploy:
- echo "BEFORE DEPLOY START........"
- ls $START
- cd $START
- conda config --set anaconda_upload no
- conda install anaconda-client conda-build
- conda build conda_recipe
- export PKG_REAL=$(conda build . --output | tail -1)
- echo "BEFORE DEPLOY END.........."
deploy:
- provider: script
Comment thread
lasofivec marked this conversation as resolved.
user: "ToFuProject"
script: $START/anaconda_upload.sh
- provider: pypi
distributions: sdist
user: __token__
skip_existing: true
on:
tags: true
all_branches: true
skip_cleanup: true
branch: deploy-test
server: https://test.pypi.org/legacy/
password:
secure: 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
- provider: pypi
distributions: bdist_wheel
user: __token__
skip_existing: true
on:
condition: $OS = osx-64
tags: true
branch: deploy-test
server: https://test.pypi.org/legacy/
password:
secure: 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
- provider: pypi
distributions: sdist
user: "Didou09"
distributions: "sdist"
skip_cleanup: true
skip_existing: true
on:
tags: true
all_branches: true
branch: master
password:
secure: 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
- provider: pypi
distributions: bdist_wheel
user: "Didou09"
skip_existing: true
on:
condition: $OS = osx-64
tags: true
branch: master
password:
secure: JNEDTDJVx/2fXNfHntNQ99iDRNuQ4uB3y+DBWVIBycCT95+UCb36YPtKzmruEk/UUS29Xgq4IYCGdfCSWE9smKqG8tV1PcHiw705m+AzcpKy77YtzbVECFBxqY4W36O2pHrkwEUzP/7acjFwNsnUFzArqEzsBJ+KdLaa4OPHJXCh30GA0GyqlrXYbBKG+DA9hX5vtsGo4C6w9noALYF3fS7pKPiI6ipKFnAlzGgHQ7Ke0uQME8N3IAFhmh+Z5xMtIIDWxlnqv+KszdG4DIaGV/W6NIJNAbRhzkqUd+Chu6LoPAd/XkHDTeirR/MBkNUc5UcRJxRnP9rUTRo1gCO/buTYuNRgFkMvqhV5a033+x9edWgtUiKNJIMPLXOxe0RJvc5GWji+Co77HtHxRmGRM2rnYqWMtZeYZlFbUdvHu/8jf0d6I8jyUgAoJYdlMA2u/ipENP3S6by4epE9qycUPXiIVh6r3DZbf3vPTMFvTZYAjBrA0NOzihv1xgcXwemmNUFOQSpe0io4UcFxtS9lLMo+30UMQjCHSnbEVM3zSlZmbMOKpkVOlKlt8Lz5NxwVgWtu9FuW2pGukLtE8AWbqvY9urXAPZCQqZlOIklIjJQIqOITnuw9LEV09cgvPHXfdvNni3ldbMlIQ89zryM6dYvhYryTiEZGK4JDR3wAKJA=
- provider: script
user: "ToFuProject"
script: $START/anaconda_upload.sh
on:
tags: true
branch: master
skip_cleanup: true
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anaconda deployment being done here

67 changes: 43 additions & 24 deletions Notebooks/Cython_speedup_notes.ipynb
Original file line number Diff line number Diff line change
Expand Up @@ -94,20 +94,20 @@
"output_type": "stream",
"text": [
"For L = 1000\n",
"0.360000 μs, using the untyped_func\n",
"0.123000 μs, using the somewhat_typed_func\n",
"0.113000 μs, using the typed_func\n",
"0.029000 μs, using the inline_typed_func\n",
"0.798000 μs, using the untyped_func\n",
"0.027000 μs, using the somewhat_typed_func\n",
"0.017000 μs, using the typed_func\n",
"0.008000 μs, using the inline_typed_func\n",
"For L = 10000\n",
"5.174000 μs, using the untyped_func\n",
"0.024000 μs, using the somewhat_typed_func\n",
"0.012000 μs, using the typed_func\n",
"0.015000 μs, using the inline_typed_func\n",
"8.871000 μs, using the untyped_func\n",
"0.027000 μs, using the somewhat_typed_func\n",
"0.014000 μs, using the typed_func\n",
"0.014000 μs, using the inline_typed_func\n",
"For L = 100000\n",
"43.197000 μs, using the untyped_func\n",
"0.151000 μs, using the somewhat_typed_func\n",
"0.025000 μs, using the typed_func\n",
"0.024000 μs, using the inline_typed_func\n"
"81.221000 μs, using the untyped_func\n",
"0.148000 μs, using the somewhat_typed_func\n",
"0.010000 μs, using the typed_func\n",
"0.015000 μs, using the inline_typed_func\n"
]
}
],
Expand Down Expand Up @@ -200,7 +200,7 @@
},
{
"cell_type": "code",
"execution_count": 6,
"execution_count": 4,
"metadata": {},
"outputs": [
{
Expand All @@ -210,19 +210,19 @@
"\n",
"-------- TESTS -------\n",
"Running numpy buffers\n",
"0.020667 0.009333 0.098333 0.882333 6.571667 58.261333 670.627333 μs\n",
"0.010667 0.027000 0.108667 0.926667 11.027667 95.586333 1118.653333 μs\n",
"Running cpython.array buffer\n",
"0.327333 0.090000 0.323333 0.742333 7.339333 70.054000 1853.809000 μs\n",
"0.074667 0.091667 0.351667 3.606667 25.803333 230.891000 2605.097000 μs\n",
"Running cpython.array memoryview\n",
"0.890333 0.785000 1.215667 1.305667 6.270667 44.810333 538.815667 μs\n",
"0.325333 0.398667 1.079000 1.887667 7.430000 79.003667 1005.866000 μs\n",
"Running cpython.array raw C type with trick\n",
"0.044000 0.048667 0.380000 1.419333 10.037000 100.486667 2541.475333 μs\n",
"0.035000 0.041667 0.119667 0.787667 8.991000 93.519667 1401.235667 μs\n",
"Running C pointers\n",
"0.006000 0.006333 0.023667 0.159000 2.129667 25.866667 363.967667 μs\n",
"0.005000 0.006667 0.057333 0.563333 5.081000 35.753000 887.650667 μs\n",
"Running malloc memoryview\n",
"0.588667 0.630333 0.663667 1.224333 2.392333 23.987667 379.138667 μs\n",
"0.482333 1.043333 0.778000 1.127333 6.685000 53.277667 798.593333 μs\n",
"Running argument memoryview\n",
"0.011667 0.016333 0.112000 0.722667 5.305000 45.683333 525.975333 μs\n"
"0.008000 0.019000 0.156000 1.217000 10.740000 96.713667 1305.644333 μs\n"
]
}
],
Expand Down Expand Up @@ -391,7 +391,7 @@
},
{
"cell_type": "code",
"execution_count": 16,
"execution_count": 5,
"metadata": {},
"outputs": [],
"source": [
Expand All @@ -402,9 +402,28 @@
},
{
"cell_type": "code",
"execution_count": 17,
"execution_count": 6,
"metadata": {},
"outputs": [],
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"For L = 1000\n",
"10.211000 μs, using the sequential loop\n",
"58.846000 μs, using the parallel 1 loop\n",
"25.343000 μs, using the parallel 2 loop\n",
"For L = 10000\n",
"53.134000 μs, using the sequential loop\n",
"180.918000 μs, using the parallel 1 loop\n",
"49.014000 μs, using the parallel 2 loop\n",
"For L = 100000\n",
"827.005000 μs, using the sequential loop\n",
"601.007000 μs, using the parallel 1 loop\n",
"132.242000 μs, using the parallel 2 loop\n"
]
}
],
"source": [
"%%cython --compile=-fopenmp --link-args=-fopenmp\n",
"\n",
Expand Down Expand Up @@ -650,7 +669,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.7.2"
"version": "3.7.5"
}
},
"nbformat": 4,
Expand Down
11 changes: 6 additions & 5 deletions _updateversion.py
Original file line number Diff line number Diff line change
Expand Up @@ -6,20 +6,21 @@

_HERE = os.path.abspath(os.path.dirname(__file__))


def updateversion(path=_HERE):
# Fetch version from git tags, and write to version.py
# Also, when git is not available (PyPi package), use stored version.py
version_py = os.path.join(path, 'tofu', 'version.py')
try:
version_git = subprocess.check_output(["git",
"describe"]).rstrip().decode()
except:
with open(version_py,'r') as fh:
version_git = fh.read().strip().split("=")[-1].replace("'",'')
version_git = version_git.lower().replace('v','')
except subprocess.CalledProcessError:
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catching right exception

with open(version_py, 'r') as fh:
version_git = fh.read().strip().split("=")[-1].replace("'", '')
version_git = version_git.lower().replace('v', '').replace(' ', '')

version_msg = "# Do not edit, pipeline versioning governed by git tags!"
with open(version_py,"w") as fh:
with open(version_py, "w") as fh:
msg = "{0}__version__ = '{1}'{0}".format(os.linesep, version_git)
fh.write(version_msg + msg)
return version_git
14 changes: 0 additions & 14 deletions conda_recipe/conda_upload.sh
Original file line number Diff line number Diff line change
@@ -1,20 +1,6 @@
# Only need to change these two variables
PKG_NAME=tofu
USER=ToFuProject
OS=linux-64

#mkdir ~/conda-bld
#conda config --set anaconda_upload no
#conda update -n root conda-build
#conda config --append channels conda-forge
#conda config --append channels tofuproject
#export CONDA_BLD_PATH=~/conda-bld
#export VERSION=`date +%Y.%m.%d`
#export VERSION=$(head -n 1 version.txt)

#conda build conda_recipe
echo "Available conda packages:"
echo $(find $CONDA_BLD_PATH/$OS/ -type f -name $PKG_NAME*.tar.bz2)
PKG_REAL=$(find $CONDA_BLD_PATH/$OS/ -type f -name $PKG_NAME-$VERSION-$VADD*.tar.bz2)
echo $PKG_REAL
anaconda -t $CONDA_UPLOAD_TOKEN upload -u $USER -l main $PKG_REAL --force
8 changes: 2 additions & 6 deletions conda_recipe/meta.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -4,24 +4,20 @@ package:

source:
git_url: https://github.com/ToFuProject/tofu.git
#git_branch: {{ environ['TRAVIS_BRANCH'] }}
git_rev: {{ environ['REV'] }}
# "patches:" might be the answer for clang compilers ?

build:
script_env:
# - REV
- VERSION
- PKG_REAL
- TRAVIS_BRANCH
- CONDA_BLD_PATH

requirements:

# build: necessary for build.sh
# here same as run, as we are using cython
build:
- python
- setuptools
- setuptools >=40.8.0
- setuptools_scm
- numpy
- scipy
Expand Down
2 changes: 1 addition & 1 deletion examples/tutorials/tuto_plot_custom_emissivity.py
Original file line number Diff line number Diff line change
Expand Up @@ -95,4 +95,4 @@ def project_to_2D(xyz):
t=time_vector)

sig.plot(ntMax=1)
plt.show(block=False)
plt.show(block=True)
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