pyemd | Fast EMD for Python : a wrapper for Pele and Werman 's C++ | Computer Vision library

by wmayner C++ Version: 1.0.0 License: MIT

X-Ray Key Features Code Snippets(8)Community Discussions(6)Vulnerabilities Install Support

kandi X-RAY | pyemd Summary

pyemd is a C++ library typically used in Artificial Intelligence, Computer Vision, Numpy applications. pyemd has no bugs, it has no vulnerabilities, it has a Permissive License and it has low support. You can download it from GitHub.

Fast EMD for Python: a wrapper for Pele and Werman's C++ implementation of the Earth Mover's Distance metric

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Support

pyemd has a low active ecosystem.

It has 438 star(s) with 61 fork(s). There are 14 watchers for this library.

It had no major release in the last 12 months.

There are 8 open issues and 39 have been closed. On average issues are closed in 101 days. There are 1 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of pyemd is 1.0.0

Quality

pyemd has no bugs reported.

Security

pyemd has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

License

pyemd is licensed under the MIT License. This license is Permissive.

Permissive licenses have the least restrictions, and you can use them in most projects.

Reuse

pyemd releases are available to install and integrate.

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pyemd Key Features

No Key Features are available at this moment for pyemd.

pyemd Examples and Code Snippets

how to apply the MSE and RMSE frequency indicators in the EMD method with Python

Python

Lines of Code : 3

License : Strong Copyleft (CC BY-SA 4.0)

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#IMF1
plt.plot(imfs[0])

Unable to install pycontractions

Python

Lines of Code : 5

License : Strong Copyleft (CC BY-SA 4.0)

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$ sudo apt install openjdk-8-jdk
$ sudo update-alternatives --set java /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java
$ pip install language-check
$ pip install pycontractions

Pip install error with pycontractions 'ERROR: Command errored out with exit status 1:'

Python

Lines of Code : 5

License : Strong Copyleft (CC BY-SA 4.0)

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sudo apt install openjdk-8-jdk
sudo update-alternatives --set java /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java
pip install language-check
pip install pycontractions

Text semantic similarity by analogy in the hypernym level using Python

Python

Lines of Code : 78

License : Strong Copyleft (CC BY-SA 4.0)

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from nltk import word_tokenize, pos_tag
from nltk.corpus import wordnet as wn
import numpy as np
from pyemd import emd

import nltk
nltk.download('punkt')
nltk.download('averaged_perceptron_tagger')
nltk.download('wordnet')

def penn_to_wn

How to calculate distance between two dihedral (periodic) angles distributions in python?

Python

Lines of Code : 16

License : Strong Copyleft (CC BY-SA 4.0)

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from pyemd import emd
from scipy.stats import wasserstein_distance
from scipy.spatial.distance import cdist

X= [-179.0,-177.0,-175.0,-173.0,-171.0,-169.0,-167.0,-165.0,-163.0,-161.0,-159.0,-157.0,-155.0,-153.0,-151.0,-149.0,-147.0,-145.0,

Getting an error to install pyemd even though I just installed it

Python

Lines of Code : 6

License : Strong Copyleft (CC BY-SA 4.0)

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from gensim.similarities import WmdSimilarity
from pyemd import emd

from pyemd import emd
from gensim.similarities import WmdSimilarity

Image Pixel Intensity and Measure of Colourfulness in Python

Python

Lines of Code : 47

License : Strong Copyleft (CC BY-SA 4.0)

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from pyemd import emd
import numpy as np
from PIL import Image
import skimage.color

im = Image.open("t4.jpg")
pix = im.load()

h1 = [1.0/64] * 64
h2 = [0.0] * 64
hist1 = np.array(h1)

w,h = im.size

for x in xrange(w):
    for y in xrange

Python - Earth Movers Distance

Python

Lines of Code : 28

License : Strong Copyleft (CC BY-SA 4.0)

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import numpy as np
import skimage
import os

from pyemd import emd, emd_samples
from scipy.stats import wasserstein_distance

# get some test images
img1 = skimage.io.imread(os.path.join(skimage.data_dir, 'astronaut.png'))
img2 = skimage.i

Community Discussions

Trending Discussions on pyemd

How to install optional components (anaconda, jupyter) in custom dataproc image

Pip install error with pycontractions 'ERROR: Command errored out with exit status 1:'

pip install pyemd error?

Python Earth Mover Distance of 2D arrays

How to calculate distance between two dihedral (periodic) angles distributions in python?

Earth movers distance in torch/lua (or how to use a criterion to just obtain a comparison)

QUESTION

How to install optional components (anaconda, jupyter) in custom dataproc image

Asked 2021-May-03 at 20:41

To speed up my cluster instantiation time, I've created a custom image with all the additional dependencies installed using miniconda3 available for dataproc image 1.5.34-debian10. (I followed the steps here: GCP Dataproc custom image Python environment to ensure I used the correct python environment).

However, when I start my cluster with --optional-components ANACONDA,JUPYTER my custom dependencies are removed and I'm left with a base installation of anaconda and jupyter. I assume the anaconda installation is overwriting my custom dependencies. Is there any way to ensure my dependencies aren't overwritten? If not, is it possible to install anaconda and jupyter as part of my custom dataproc image instead?

I've used the following command to create the custom image:

...

ANSWER

Answered 2021-May-03 at 20:41

The customize_conda.sh script is the recommended way of customizing Conda env for custom images.

If you need more than the script does, you can read the code and create your own script, but anyway you want to use the absolute path e.g., /opt/conda/anaconda/bin/conda, /opt/conda/anaconda/bin/pip, /opt/conda/miniconda3/bin/conda, /opt/conda/miniconda3/bin/pip to install/uninstall packages for the Anaconda/Miniconda env.

Source https://stackoverflow.com/questions/67357670

QUESTION

Pip install error with pycontractions 'ERROR: Command errored out with exit status 1:'

Asked 2021-Feb-26 at 16:43

I am trying to install pycontractions, but it fails with error as below, any idea how to fix this?

I tried with conda but it does not have this package

pip install pycontractions

...

ANSWER

Answered 2021-Feb-26 at 16:34

pycontractions relies on language-check and the installation of language-check needs a specific java version, because it doesn't properly figure out the version and fails.

You can try to install jdk8 and make it your default java programm, but since it's pretty old and we're already at java15 you might also run into problems doing that.

Assuming you're using some sort of Debian/Ubuntu you can try:

Source https://stackoverflow.com/questions/66389354

QUESTION

pip install pyemd error?

Asked 2020-Mar-03 at 05:08

I'm trying to install pyemd package in Python through pip and getting following error:

...

ANSWER

Answered 2017-Jul-06 at 09:13

The error you are receiving is: error: Microsoft Visual C++ 14.0 is required. Get it with "Microsoft Visual C++ Build Tools": http://landinghub.visualstudio.com/visual-cpp-build-tools. You need to read the error message carefully.

You just need to go to the link they have provided for you and follow the instructions: http://landinghub.visualstudio.com/visual-cpp-build-tools

Source https://stackoverflow.com/questions/44944249

QUESTION

Python Earth Mover Distance of 2D arrays

Asked 2020-Feb-13 at 17:18

I would like to compute the Earth Mover Distance between two 2D arrays (these are not images).

Right now I go through two libraries: scipy (https://docs.scipy.org/doc/scipy/reference/generated/scipy.stats.wasserstein_distance.html) and pyemd (https://pypi.org/project/pyemd/).

...

ANSWER

Answered 2020-Feb-13 at 17:18

So if I understand you correctly, you're trying to transport the sampling distribution, i.e. calculate the distance for a setup where all clusters have weight 1. In general, you can treat the calculation of the EMD as an instance of minimum cost flow, and in your case, this boils down to the linear assignment problem: Your two arrays are the partitions in a bipartite graph, and the weights between two vertices are your distance of choice. Assuming that you want to use the Euclidean norm as your metric, the weights of the edges, i.e. the ground distances, may be obtained using scipy.spatial.distance.cdist, and in fact SciPy provides a solver for the linear sum assignment problem as well in scipy.optimize.linear_sum_assignment (which recently saw huge performance improvements which are available in SciPy 1.4. This could be of interest to you, should you run into performance problems; the 1.3 implementation is a bit slow for 1000x1000 inputs).

In other words, what you want to do boils down to

Source https://stackoverflow.com/questions/57562613

QUESTION

How to calculate distance between two dihedral (periodic) angles distributions in python?

Asked 2019-Jul-16 at 12:40

I am searching for the correct and most straightforward way of handling periodicity when calculating the Earth Mover's Distance (EMD: https://en.wikipedia.org/wiki/Earth_mover%27s_distance) (also known as Wasserstein metric) between two distributions of dihedral angles.

The range of the dihedrals I get is [-180, 180] according to IUPAC dihedral angles definition.

I am not sure how to modify my input so that the EMD/Wasserstein will make sense. I feel like I can calculate the EMD on several different modified input and select the minimum, to avoid the periodic boundary issue. Could you please suggest any ideas ?

Here are some exemples of the inputs I have. For each of them, I want to use a single procedure that gets me the real, minimal EMD distance between pairwise distributions.

Thank you in advance for any input you may bring :)

Here is the code I'm currently using

...

ANSWER

Answered 2019-Jul-16 at 12:40

Now this works. I use pyemd and created a periodic distance matrix.

Source https://stackoverflow.com/questions/56939150

QUESTION

Earth movers distance in torch/lua (or how to use a criterion to just obtain a comparison)

Asked 2017-Jul-07 at 17:31

I'm trying to calculate the distance between two histograms in torch7, in order to do this I was thinking about using the earth mover's distance. Now I know it's not that hard to do this in python using something like https://github.com/garydoranjr/pyemd however I have my data in torch and need to execute this computation many times. As such moving the entire data between torch7 and python is not an option.

So my question is what is the fastest earth mover distance calculator in torch7? I have searched but could not find anything like a library and was hoping there is some better way to implement this then line by line translation of python code especially seeing as how torch is often better at handling things on the gpu.

Edit I have found this but am not sure how to use it.

I currently have the following code:

...

ANSWER

Answered 2017-Jul-07 at 17:31

It appears that EMDCriterion expects the input and target to be at least 2-dimensional. It also expects the points in your comparison to be laid out horizontally. Since the result of torch.histc is 1-dimensional, you can reshape it into 2-dimensional row tensor like so:

Source https://stackoverflow.com/questions/44869285

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

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Install pyemd

You can download it from GitHub.

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