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Added prefixes for running KIMMDY on HPC Clusters that require srun/mpirun for gromacs binaries #517

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added fixes for bugs that casued error due to no integrated prefix fo…

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Added prefixes for running KIMMDY on HPC Clusters that require srun/mpirun for gromacs binaries #517

added fixes for bugs that casued error due to no integrated prefix fo…
63dec74
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