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Fix wrong description in README.md and a bug in the RMSD calc script. #14

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Thank you for your work. I tested this RMSD calculation script.

I found a wrong usage in README.md and corrected it.

Also, a variable ref_obj is defined after its use, which cause the NameError exception.
https://github.com/HWaymentSteele/AF_Cluster/compare/main...eunos-1128:AF_Cluster:dev/eunos-1128?expand=1#diff-04f9b82f2f1e0f99c4d6615d7de688ad564cc5fd455731cf07defbc744218b36L88

@eunos-1128 eunos-1128 changed the title Dev/eunos 1128 Fix wrong description in README.md and a bug in the RMSD calc script. Jan 25, 2024
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