Reply To: input secondary structure prediction to AbinitioRelax

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August 10, 2010 at 7:19 pm #4566
Anonymous

    > Hi,
    >
    > how do you give/provide a secondary structure prediction to AbinitioRelax.linuxgccrelease? it is not obvious from online manual nor “-help” command option.
    >
    > Thanks!

    This command line flag is used to provide a prediction during AbinitioRelax, but its only used for some of the filters.

    -in::file::psipred_ss2 psipred_ss2 file

    The secondary structure prediction is primarily used to generate the fragments, and the fragments themselves are responsible for enforcing that prediction.