InFilePrefix /projects/compbio/lib/alphabet/ ReadAlphabet hbonds.alphabet ReadAlphabet str4.alphabet ReadAlphabet strand_sep.alphabet ReadBackgroundProbs dunbrack-in-scop.backgrounds InFilePrefix CreateCombinedNNet n_sep_t2k single T0378.t2k.n_sep.rdb CreateCombinedNNet n_sep_t04 single T0378.t04.n_sep.rdb CreateCombinedNNet n_sep_t06 single T0378.t06.n_sep.rdb CreateCombinedNNet n_sep_wmean mean T0378.t2k.n_sep.rdb 0.2 T0378.t04.n_sep.rdb 0.4 T0378.t06.n_sep.rdb 0.4 CreateCombinedNNet n_sep_back background n_sep mean T0378.t2k.n_sep.rdb 0.2 T0378.t04.n_sep.rdb 0.4 T0378.t06.n_sep.rdb 0.4 CreatePredHbondCost pred_n_sep_t2k n_sep n_sep_t2k CreatePredHbondCost pred_n_sep_t04 n_sep n_sep_t04 CreatePredHbondCost pred_n_sep_t06 n_sep n_sep_t06 CreatePredHbondCost pred_n_sep_wmean n_sep n_sep_wmean CreatePredHbondCost pred_n_sep_back n_sep n_sep_back CreateCombinedNNet o_sep_t2k single T0378.t2k.o_sep.rdb CreateCombinedNNet o_sep_t04 single T0378.t04.o_sep.rdb CreateCombinedNNet o_sep_t06 single T0378.t06.o_sep.rdb CreateCombinedNNet o_sep_wmean mean T0378.t2k.o_sep.rdb 0.2 T0378.t04.o_sep.rdb 0.4 T0378.t06.o_sep.rdb 0.4 CreateCombinedNNet o_sep_back background o_sep mean T0378.t2k.o_sep.rdb 0.2 T0378.t04.o_sep.rdb 0.4 T0378.t06.o_sep.rdb 0.4 CreatePredHbondCost pred_o_sep_t2k o_sep o_sep_t2k CreatePredHbondCost pred_o_sep_t04 o_sep o_sep_t04 CreatePredHbondCost pred_o_sep_t06 o_sep o_sep_t06 CreatePredHbondCost pred_o_sep_wmean o_sep o_sep_wmean CreatePredHbondCost pred_o_sep_back o_sep o_sep_back CreateCombinedNNet n_notor2_t2k single T0378.t2k.n_notor2.rdb CreateCombinedNNet n_notor2_t04 single T0378.t04.n_notor2.rdb CreateCombinedNNet n_notor2_t06 single T0378.t06.n_notor2.rdb CreateCombinedNNet n_notor2_wmean mean T0378.t2k.n_notor2.rdb 0.2 T0378.t04.n_notor2.rdb 0.4 T0378.t06.n_notor2.rdb 0.4 CreateCombinedNNet n_notor2_back background n_notor2 mean T0378.t2k.n_notor2.rdb 0.2 T0378.t04.n_notor2.rdb 0.4 T0378.t06.n_notor2.rdb 0.4 CreatePredHbondCost pred_n_notor2_t2k n_notor2 n_notor2_t2k CreatePredHbondCost pred_n_notor2_t04 n_notor2 n_notor2_t04 CreatePredHbondCost pred_n_notor2_t06 n_notor2 n_notor2_t06 CreatePredHbondCost pred_n_notor2_wmean n_notor2 n_notor2_wmean CreatePredHbondCost pred_n_notor2_back n_notor2 n_notor2_back CreateCombinedNNet o_notor2_t2k single T0378.t2k.o_notor2.rdb CreateCombinedNNet o_notor2_t04 single T0378.t04.o_notor2.rdb CreateCombinedNNet o_notor2_t06 single T0378.t06.o_notor2.rdb CreateCombinedNNet o_notor2_wmean mean T0378.t2k.o_notor2.rdb 0.2 T0378.t04.o_notor2.rdb 0.4 T0378.t06.o_notor2.rdb 0.4 CreateCombinedNNet o_notor2_back background o_notor2 mean T0378.t2k.o_notor2.rdb 0.2 T0378.t04.o_notor2.rdb 0.4 T0378.t06.o_notor2.rdb 0.4 CreatePredHbondCost pred_o_notor2_t2k o_notor2 o_notor2_t2k CreatePredHbondCost pred_o_notor2_t04 o_notor2 o_notor2_t04 CreatePredHbondCost pred_o_notor2_t06 o_notor2 o_notor2_t06 CreatePredHbondCost pred_o_notor2_wmean o_notor2 o_notor2_wmean CreatePredHbondCost pred_o_notor2_back o_notor2 o_notor2_back CreateCombinedNNet n_notor_t2k single T0378.t2k.n_notor.rdb CreateCombinedNNet n_notor_t04 single T0378.t04.n_notor.rdb CreateCombinedNNet n_notor_t06 single T0378.t06.n_notor.rdb CreateCombinedNNet n_notor_wmean mean T0378.t2k.n_notor.rdb 0.2 T0378.t04.n_notor.rdb 0.4 T0378.t06.n_notor.rdb 0.4 CreateCombinedNNet n_notor_back background n_notor mean T0378.t2k.n_notor.rdb 0.2 T0378.t04.n_notor.rdb 0.4 T0378.t06.n_notor.rdb 0.4 CreatePredHbondCost pred_n_notor_t2k n_notor n_notor_t2k CreatePredHbondCost pred_n_notor_t04 n_notor n_notor_t04 CreatePredHbondCost pred_n_notor_t06 n_notor n_notor_t06 CreatePredHbondCost pred_n_notor_wmean n_notor n_notor_wmean CreatePredHbondCost pred_n_notor_back n_notor n_notor_back CreateCombinedNNet o_notor_t2k single T0378.t2k.o_notor.rdb CreateCombinedNNet o_notor_t04 single T0378.t04.o_notor.rdb CreateCombinedNNet o_notor_t06 single T0378.t06.o_notor.rdb CreateCombinedNNet o_notor_wmean mean T0378.t2k.o_notor.rdb 0.2 T0378.t04.o_notor.rdb 0.4 T0378.t06.o_notor.rdb 0.4 CreateCombinedNNet o_notor_back background o_notor mean T0378.t2k.o_notor.rdb 0.2 T0378.t04.o_notor.rdb 0.4 T0378.t06.o_notor.rdb 0.4 CreatePredHbondCost pred_o_notor_t2k o_notor o_notor_t2k CreatePredHbondCost pred_o_notor_t04 o_notor o_notor_t04 CreatePredHbondCost pred_o_notor_t06 o_notor o_notor_t06 CreatePredHbondCost pred_o_notor_wmean o_notor o_notor_wmean CreatePredHbondCost pred_o_notor_back o_notor o_notor_back CreateCombinedNNet str4_t2k single T0378.t2k.str4.rdb CreateCombinedNNet str4_t04 single T0378.t04.str4.rdb CreateCombinedNNet str4_t06 single T0378.t06.str4.rdb CreateCombinedNNet str4_wmean mean T0378.t2k.str4.rdb 0.2 T0378.t04.str4.rdb 0.4 T0378.t06.str4.rdb 0.4 CreateCombinedNNet str4_back background str4 mean T0378.t2k.str4.rdb 0.2 T0378.t04.str4.rdb 0.4 T0378.t06.str4.rdb 0.4 CreatePredHbondCost pred_str4_t2k str4 str4_t2k CreatePredHbondCost pred_str4_t04 str4 str4_t04 CreatePredHbondCost pred_str4_t06 str4 str4_t06 CreatePredHbondCost pred_str4_wmean str4 str4_wmean CreatePredHbondCost pred_str4_back str4 str4_back CreateCombinedNNet strand_sep_t2k single T0378.t2k.strand_sep.rdb CreateCombinedNNet strand_sep_t04 single T0378.t04.strand_sep.rdb CreateCombinedNNet strand_sep_t06 single T0378.t06.strand_sep.rdb CreateCombinedNNet strand_sep_wmean mean T0378.t2k.strand_sep.rdb 0.2 T0378.t04.strand_sep.rdb 0.4 T0378.t06.strand_sep.rdb 0.4 CreateCombinedNNet strand_sep_back background strand_sep mean T0378.t2k.strand_sep.rdb 0.2 T0378.t04.strand_sep.rdb 0.4 T0378.t06.strand_sep.rdb 0.4 CreatePredHbondCost pred_strand_sep_t2k strand_sep strand_sep_t2k CreatePredHbondCost pred_strand_sep_t04 strand_sep strand_sep_t04 CreatePredHbondCost pred_strand_sep_t06 strand_sep strand_sep_t06 CreatePredHbondCost pred_strand_sep_wmean strand_sep strand_sep_wmean CreatePredHbondCost pred_strand_sep_back strand_sep strand_sep_back SetCost pred_n_sep_t2k 5 \ pred_n_sep_t04 5 \ pred_n_sep_t06 5 \ pred_n_sep_wmean 5 \ pred_n_sep_back 5 \ pred_o_sep_t2k 5 \ pred_o_sep_t04 5 \ pred_o_sep_t06 5 \ pred_o_sep_wmean 5 \ pred_o_sep_back 5 \ pred_n_notor2_t2k 5 \ pred_n_notor2_t04 5 \ pred_n_notor2_t06 5 \ pred_n_notor2_wmean 5 \ pred_n_notor2_back 5 \ pred_o_notor2_t2k 5 \ pred_o_notor2_t04 5 \ pred_o_notor2_t06 5 \ pred_o_notor2_wmean 5 \ pred_o_notor2_back 5 \ pred_n_notor_t2k 5 \ pred_n_notor_t04 5 \ pred_n_notor_t06 5 \ pred_n_notor_wmean 5 \ pred_n_notor_back 5 \ pred_o_notor_t2k 5 \ pred_o_notor_t04 5 \ pred_o_notor_t06 5 \ pred_o_notor_wmean 5 \ pred_o_notor_back 5 \ pred_str4_t2k 5 \ pred_str4_t04 5 \ pred_str4_t06 5 \ pred_str4_wmean 5 \ pred_str4_back 5 \ pred_strand_sep_t2k 5 \ pred_strand_sep_t04 5 \ pred_strand_sep_t06 5 \ pred_strand_sep_wmean 5 \ pred_strand_sep_back 5