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"Please check .gitignore file of your project and make sure that it excludes node_modules from the files to track"

Some dependencies might use "isArray" or "leftPad", that is the reason why I commit my node_modules, it's stupid but I don't want to lose anything when someone decides to remove his code from npm or github...

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I guess that is a problem with npm. Past versions should be immutable.

Absolutely, a package manager server should state in their license file that when you submit a package you consent to it being cached on said server.

Having someone remove a package and breaking a ton of other packages is nonsensical.

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