esm | Evolutionary Scale Modeling (esm): Pretrained language models for proteins | Machine Learning library

by facebookresearch Python Version: v1.0.3 License: MIT

X-Ray Key Features Code Snippets(3)Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | esm Summary

esm is a Python library typically used in Artificial Intelligence, Machine Learning, Deep Learning, Pytorch, Tensorflow, Bert, Neural Network, Transformer applications. esm has no bugs, it has no vulnerabilities, it has build file available, it has a Permissive License and it has medium support. You can install using 'pip install esm' or download it from GitHub, PyPI.

This repository contains code and pre-trained weights for Transformer protein language models from Facebook AI Research, including our state-of-the-art ESM-1b and MSA Transformer. The models are described in detail in our paper, "Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences" (Rives et al., 2019), which first proposed protein language modeling with Transformers. ESM-1b outperforms all tested single-sequence protein language models across a range of structure prediction tasks. The MSA Transformer (ESM-MSA-1) can improve performance further by leveraging MSA information.

Support

Quality

Security

License

Reuse

Support

esm has a medium active ecosystem.

It has 2078 star(s) with 419 fork(s). There are 58 watchers for this library.

It had no major release in the last 12 months.

There are 51 open issues and 199 have been closed. On average issues are closed in 16 days. There are 3 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of esm is v1.0.3

Quality

esm has 0 bugs and 0 code smells.

Security

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

esm code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

esm 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

esm releases are available to install and integrate.

Deployable package is available in PyPI.

Build file is available. You can build the component from source.

Installation instructions, examples and code snippets are available.

esm saves you 501 person hours of effort in developing the same functionality from scratch.

It has 3778 lines of code, 237 functions and 31 files.

It has medium code complexity. Code complexity directly impacts maintainability of the code.

Top functions reviewed by kandi - BETA

kandi has reviewed esm and discovered the below as its top functions. This is intended to give you an instant insight into esm implemented functionality, and help decide if they suit your requirements.

Forward embedding
Calculate dihedrals
Calculate node features
Normalize tensor
Forward computation
Set the value of the given key
Get the value for the given key
Forward the forward computation
Normalize x along axis
Sample a sequence from a single chain
Compute the attention weights
Compute node embedding
Get the encoder output for the given chain
Load coordinates from a file
Compute the norm of x
Compute the score of the given sequence in the given chain
Forward features
Create argument parser
Perform forward attention
Compute the score of a sequence in a complex sequence
Computes the probability for a given wildtype
Create a batch of data from a list of coords
Score a single sequence backbone
Get the indices of the tokens in the sequence
Sample a sequence in complex coordinates
Sample a sequence of sequences

Get all kandi verified functions for this library.

esm Key Features

No Key Features are available at this moment for esm.

esm Examples and Code Snippets

ESM Potrace Wasm,Usage

Lines of Code : 31

License : Strong Copyleft (GPL-2.0)

Copy

import { potrace, init } from 'esm-potrace-wasm';

(async () => {
  // Initialize the module once.
  await init();

  /**
   * The `imageBitmapSource` parameter is an `ImageBitmapSource`, that is any of:
   * - `HTMLImageElement`
   * - `SVGImageE

ESM

npm

Lines of Code : 9

License : No License

Copy

import yargs from 'yargs'
import { hideBin } from 'yargs/helpers'

yargs(hideBin(process.argv))
  .command('curl ', 'fetch the contents of the URL', () => {}, (argv) => {
    console.info(argv)
  })
  .demandCommand(1)
  .parse()

ESM import

npm

Lines of Code : 4

License : No License

Copy

import bcrypt from "bcrypt";

// later
await bcrypt.compare(password, hash);

Community Discussions

Trending Discussions on esm

import SVG as React Components with webpack 5

Error: require() of ES modules is not supported when importing node-fetch

Apollo Client "Named export 'remove' not found"

react-chart-js-2 in combination with TypeScript for LineCharts: Uncaught Error: "point" is not a registered element

Module not found: Error: Can't resolve 'date-fns/addDays' in 'C:\Users\

Firebase web v9 upgrade breaks react-firebase-hooks "useCollectionData()"

Error [ERR_PACKAGE_PATH_NOT_EXPORTED]: Package subpath './lib/tokenize' is not defined by "exports" in the package.json of a module in node_modules

Error [ERR_UNSUPPORTED_ESM_URL_SCHEME]: Only file and data URLs are supported by the default ESM loader - Vue 3

Must use import to load ES Module .eslintrc.js

Yarn start not working | error `ERR_PACKAGE_PATH_NOT_EXPORTED'

QUESTION

import SVG as React Components with webpack 5

Asked 2022-Apr-10 at 20:36

I want to use SVG as a React Component in my app. I'm using: react 17.0.2, Webpack 5.57.1, @svgr/webpack 6.2.1.

I followed the steps on adding svgr in webpack.config file as in svgr documents svgr-doc but there is an Error in the console dev tools:

...

ANSWER

Answered 2022-Apr-10 at 20:36

From your webpack rules configuration, it looks like you’re having a name clash with the last rule with type: "asset/inline", which is handling svg as well according to your test case.

To fix this, you can either remove svg in the last rule so that it becomes

Source https://stackoverflow.com/questions/71820229

QUESTION

Error: require() of ES modules is not supported when importing node-fetch

Asked 2022-Mar-28 at 07:04

I'm creating a program to analyze security camera streams and got stuck on the very first line. At the moment my .js file has nothing but the import of node-fetch and it gives me an error message. What am I doing wrong?

Running Ubuntu 20.04.2 LTS in Windows Subsystem for Linux.

Node version:

...

ANSWER

Answered 2022-Feb-25 at 00:00

Use ESM syntax, also use one of these methods before running the file.

specify "type":"module" in package.json
Or use this flag --input-type=module when running the file
Or use .mjs file extension

Source https://stackoverflow.com/questions/69041454

QUESTION

Apollo Client "Named export 'remove' not found"

Asked 2022-Mar-12 at 09:45

I'm attempting to create an apollo client plugin for a Nuxt 3 application. It's currently throwing an error regarding a package called ts-invariant:

...

ANSWER

Answered 2022-Jan-07 at 01:52

Solved by including @apollo/client and ts-invariant/process into the nuxt build transpile like so:

Source https://stackoverflow.com/questions/70615613

QUESTION

react-chart-js-2 in combination with TypeScript for LineCharts: Uncaught Error: "point" is not a registered element

Asked 2022-Mar-10 at 19:44

I am currently trying to build a LineChart via react-chartjs-2. To do that I am using TypeScript. I do not get any errors while implementing. The webiste renders normal, but when I try to open the component that renders the LineChart I get the following error in the browser:

My LineChart component looks like this:

...

ANSWER

Answered 2022-Mar-10 at 19:44

This is because chart.js v3 is treeshakable so you will need to register everyhting you are using. In your case you dont have the pointElement registered. You can do that like this:

Source https://stackoverflow.com/questions/71429342

QUESTION

Module not found: Error: Can't resolve 'date-fns/addDays' in 'C:\Users\

Asked 2022-Feb-08 at 17:19

I want to use Date picker from MUI but I get this error and I don't know what exactly is wrong. here is my code:

...

ANSWER

Answered 2022-Feb-08 at 17:19

You need to install the date-fns package from NPM using npm install --save date-fns.

Source https://stackoverflow.com/questions/71037974

QUESTION

Firebase web v9 upgrade breaks react-firebase-hooks "useCollectionData()"

Asked 2022-Feb-05 at 13:22

I'm trying to update some Firebase code in a React project to the new modular web v9 sdk that Firebase released recently. The project being upgraded uses the react-firebase-hooks hook useCollectionData(), which fails upon changing to the new sdk. I get the following error output in my console 3 times when I try to run my ported code.

index.esm.js:101 Uncaught TypeError: v1.isEqual is not a function

A minimal example of working web v8 code:

...

ANSWER

Answered 2021-Nov-03 at 11:52

Update 3 Nov 2021:

React Firebase Hooks v4 has been released which supports v9 and also requires React 16.8.0 or later and Firebase v9.0.0 or later.

The React Firebase Hooks library doesn't seem to support Firebase Modular SDK yet (last release April 2021). You might have to use compat version which allows to use older name-spaced syntax even in v9.0.0+ and does not have benefits of tree-shaking :

Source https://stackoverflow.com/questions/69242511

QUESTION

Error [ERR_PACKAGE_PATH_NOT_EXPORTED]: Package subpath './lib/tokenize' is not defined by "exports" in the package.json of a module in node_modules

Asked 2022-Jan-31 at 17:22

This is a React web app. When I run

...

ANSWER

Answered 2021-Nov-13 at 18:36

I am also stuck with the same problem because I installed the latest version of Node.js (v17.0.1).

Just go for node.js v14.18.1 and remove the latest version just use the stable version v14.18.1

Source https://stackoverflow.com/questions/69693907

QUESTION

Error [ERR_UNSUPPORTED_ESM_URL_SCHEME]: Only file and data URLs are supported by the default ESM loader - Vue 3

Asked 2022-Jan-02 at 09:38

I get the following error when i want to start my vue 3 typescript project:

...

ANSWER

Answered 2021-Nov-21 at 18:01

That actually is a bug.

See, they use import() function on a string, that is the result of path.resolve() call. As you have already noticed, the import() function only works with file:// and data:// URLs, but path.resolve() only returns an absolute path (not a URL), which on Windows environment usually starts with the name of the local disk (e.g., C:).

Source https://stackoverflow.com/questions/69665780

QUESTION

Must use import to load ES Module .eslintrc.js

Asked 2021-Dec-26 at 18:59

I am trying to fix this problem for hours. I've read nearly every post about this, but still, I came to no solution.

I am trying to deploy a firebase-function with the "https got-library" dependency, but no matter what I do, nothing works. I am not the best with node-js or typescript (usually a kotlin frontend-dev), so I have no clue what the error wants from me.

Tsconfig.json ...

ANSWER

Answered 2021-Dec-26 at 16:13

Just try this one

add this into your package.json

"type": "module"

as I did below don't forget to restart the typescript server

Source https://stackoverflow.com/questions/70487806

QUESTION

Yarn start not working | error `ERR_PACKAGE_PATH_NOT_EXPORTED'

Asked 2021-Dec-09 at 14:17

I have been trying to make this React App, but when I try to do yarn start it shows the following error message:

...

ANSWER

Answered 2021-Dec-09 at 11:31

removed /node_modules and yarn.lock file. 2.then reinstalled deleted packages/file using yarn install .

Source https://stackoverflow.com/questions/70288653

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

Vulnerabilities

No vulnerabilities reported

Install esm

As a prerequisite, you must have PyTorch 1.5 or later installed to use this repository.

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For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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