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Update README.md to include note on git submodule 'gotcha' #144

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Oct 16, 2024
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Update README.md to include note on git submodule 'gotcha' #144

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96041da
Update README.md to include note on git submodule 'gotcha'
TeaganKing Oct 15, 2024
530fe92
Update README.md to include 'init'
TeaganKing Oct 16, 2024
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Expand Up @@ -37,6 +37,7 @@ It still feels slower than running `mamba` directly, hence the recommendation to
If you do not have `mamba` installed, you can still use `conda`... it will just be significantly slower.
(To see what version of conda you have installed, run `conda --version`.)
1. If the subdirectories in `externals/` are all empty, run `git submodule update --init` to clone the submodules.
1. For existing users who cloned `CUPiD` prior to the switch from manage externals to git submodule, we recommend removing `externals/` before checking out main, running `git submodule update --init`, and removing `manage_externals` (if it is still present after `git submodule update --init`).
1. If `which cupid-run` returned the error `which: no cupid-run in ($PATH)`, then please run the following:

``` bash
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