| 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/GY94.mdl
    
        
    
 | text/plain | root:root | 0o644 | 7.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94GY94xREV_PARRIS_syn3.mdl
    
        
    
 | text/plain | root:root | 0o644 | 8.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREV.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate.mdl
    
        
    
 | text/plain | root:root | 0o644 | 3.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate_Multirate.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M1.def
    
        
    
 | text/plain | root:root | 0o644 | 327 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M2.def
    
        
    
 | text/plain | root:root | 0o644 | 490 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M3.def
    
        
    
 | text/plain | root:root | 0o644 | 558 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_syn3.def
    
        
    
 | text/plain | root:root | 0o644 | 758 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_synvar.def
    
        
    
 | text/plain | root:root | 0o644 | 611 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGenerator.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGeneratorNoPS.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma1.def
    
        
    
 | text/plain | root:root | 0o644 | 532 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2+Inv.def
    
        
    
 | text/plain | root:root | 0o644 | 929 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2.def
    
        
    
 | text/plain | root:root | 0o644 | 521 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/454.bf
    
        
    
 | text/plain | root:root | 0o644 | 14.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AAModelComparison.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AddABias.ibf
    
        
    
 | text/plain | root:root | 0o644 | 8.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonData.bf
    
        
    
 | text/x-c | root:root | 0o644 | 1.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonDataMPI.bf
    
        
    
 | text/x-c | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeDiNucData.bf
    
        
    
 | text/x-c | root:root | 0o644 | 661 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq.bf
    
        
    
 | text/x-c | root:root | 0o644 | 933 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq2.bf
    
        
    
 | text/x-c | root:root | 0o644 | 1.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData.bf
    
        
    
 | text/plain | root:root | 0o644 | 868 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData2.bf
    
        
    
 | text/x-c | root:root | 0o644 | 2.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BGM.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BS2007.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BUSTED-SRV.bf
    
        
    
 | text/plain | root:root | 0o644 | 24.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BUSTED.bf
    
        
    
 | text/plain | root:root | 0o644 | 22.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BivariateCodonRateAnalysis.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BranchClassDNDS.bf
    
        
    
 | text/plain | root:root | 0o644 | 11.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BranchSiteREL.bf
    
        
    
 | text/plain | root:root | 0o644 | 38.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BranchSiteRELMultiModel.bf
    
        
    
 | text/plain | root:root | 0o644 | 20.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/BranchSwap.bf
    
        
    
 | text/x-c | root:root | 0o644 | 9.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CleanGaps.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CleanStopCodons.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ClusterAnalysis.bf
    
        
    
 | text/x-c | root:root | 0o644 | 10.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ClusterByDistanceRange.bf
    
        
    
 | text/plain | root:root | 0o644 | 15.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CodonBivariateRateProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 11.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CodonModelCompare.bf
    
        
    
 | text/plain | root:root | 0o644 | 25.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CodonToProtein.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CodonUsageBias.bf
    
        
    
 | text/x-c | root:root | 0o644 | 17.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CompareSelectivePressure.bf
    
        
    
 | text/x-c | root:root | 0o644 | 26.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/CompareSelectivePressureIVL.bf
    
        
    
 | text/x-c | root:root | 0o644 | 27.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ConvertDataFile.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/DatedTipsMolecularClock.bf
    
        
    
 | text/plain | root:root | 0o644 | 16.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/DirectionalREL.bf
    
        
    
 | text/x-c | root:root | 0o644 | 16.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/DirectionalREL_MF.bf
    
        
    
 | text/x-c | root:root | 0o644 | 14.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/DistanceMatrix.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/DistanceMatrix_Splits.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools.def
    
        
    
 | text/x-c | root:root | 0o644 | 303 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools2.def
    
        
    
 | text/x-c | root:root | 0o644 | 639 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/CodonToolsMain.def
    
        
    
 | text/plain | root:root | 0o644 | 9.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/JC69
    
        
    
 | text/plain | root:root | 0o644 | 648 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/K2P
    
        
    
 | text/plain | root:root | 0o644 | 1011 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/K2P_RV
    
        
    
 | text/plain | root:root | 0o644 | 1.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/Modified_Nei_Gojobori
    
        
    
 | text/plain | root:root | 0o644 | 3.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/Nei_Gojobori
    
        
    
 | text/plain | root:root | 0o644 | 3.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/PC
    
        
    
 | text/plain | root:root | 0o644 | 530 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/PC_MH
    
        
    
 | text/plain | root:root | 0o644 | 663 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/PC_RV
    
        
    
 | text/plain | root:root | 0o644 | 797 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/T3P
    
        
    
 | text/plain | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/TN84
    
        
    
 | text/plain | root:root | 0o644 | 1.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/TN93
    
        
    
 | text/plain | root:root | 0o644 | 2.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/TN93_RV
    
        
    
 | text/plain | root:root | 0o644 | 1.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ
    
        
    
 | text/plain | root:root | 0o644 | 779 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ_FR
    
        
    
 | text/plain | root:root | 0o644 | 2.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance
    
        
    
 | text/plain | root:root | 0o644 | 478 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_aa
    
        
    
 | text/plain | root:root | 0o644 | 564 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_binary
    
        
    
 | text/plain | root:root | 0o644 | 426 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_codon
    
        
    
 | text/plain | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR.bf
    
        
    
 | text/plain | root:root | 0o644 | 12.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_1.bf
    
        
    
 | text/plain | root:root | 0o644 | 888 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_2.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_3.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_4.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_PHASE_5.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FUBAR_HBL/FUBAR_tools.ibf
    
        
    
 | text/plain | root:root | 0o644 | 13.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/F_ST.bf
    
        
    
 | text/plain | root:root | 0o644 | 19.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/FitnessAAModels.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GADatedClock.bf
    
        
    
 | text/x-c | root:root | 0o644 | 18.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GADatedClock.ibf
    
        
    
 | text/plain | root:root | 0o644 | 7.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GADatedClockProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GADatedClockProcessorM.bf
    
        
    
 | text/plain | root:root | 0o644 | 12.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GARD.bf
    
        
    
 | text/plain | root:root | 0o644 | 34.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GARDProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 18.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GARD_GA_CHC.ibf
    
        
    
 | text/plain | root:root | 0o644 | 11.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GARecomb.bf
    
        
    
 | text/plain | root:root | 0o644 | 21.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GA_CHC.ibf
    
        
    
 | text/plain | root:root | 0o644 | 11.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GA_CHC_Binary.ibf
    
        
    
 | text/plain | root:root | 0o644 | 14.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GA_CHC_kernel.ibf
    
        
    
 | text/plain | root:root | 0o644 | 10.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GUI/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GUI/crayolaColors.def
    
        
    
 | text/plain | root:root | 0o644 | 17 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Gateaux.bf
    
        
    
 | text/plain | root:root | 0o644 | 8.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Gateaux2.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/GateauxMR.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/KHTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Kernel_PCA.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Kernel_k_means.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Kernel_support.ibf
    
        
    
 | text/plain | root:root | 0o644 | 3.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/LHT.bf
    
        
    
 | text/plain | root:root | 0o644 | 6.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/LRTRecombTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/LZ_Complexity.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/LocalBranchSiteTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 11.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/LocalMolClock.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MEDS.bf
    
        
    
 | text/plain | root:root | 0o644 | 18.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MEME_mf.bf
    
        
    
 | text/plain | root:root | 0o644 | 27.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MFPSreader.def
    
        
    
 | text/plain | root:root | 0o644 | 2.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MFPositiveSelection.bf
    
        
    
 | text/plain | root:root | 0o644 | 29.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MFPositiveSelectionPooled.bf
    
        
    
 | text/plain | root:root | 0o644 | 23.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MGvsGY.bf
    
        
    
 | text/plain | root:root | 0o644 | 17.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MaxChi2.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MergeSequences.bf
    
        
    
 | text/plain | root:root | 0o644 | 958 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MergeSites.bf
    
        
    
 | text/plain | root:root | 0o644 | 966 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorAAProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorBranch.bf
    
        
    
 | text/plain | root:root | 0o644 | 19.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodon.bf
    
        
    
 | text/plain | root:root | 0o644 | 26.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodon.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorCodonProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 25.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorRNA.bf
    
        
    
 | text/plain | root:root | 0o644 | 14.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelSelectorRNA_1.bf
    
        
    
 | text/plain | root:root | 0o644 | 18.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ModelTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 19.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MolClockAllRoots.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/MolecularClock.bf
    
        
    
 | text/x-c | root:root | 0o644 | 3.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/NeighborJoining.bf
    
        
    
 | text/x-c | root:root | 0o644 | 4.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/NielsenYang.bf
    
        
    
 | text/x-c | root:root | 0o644 | 31.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/NucModelCompare.bf
    
        
    
 | text/plain | root:root | 0o644 | 24.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PARRIS.bf
    
        
    
 | text/x-c | root:root | 0o644 | 41.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRate.bf
    
        
    
 | text/x-c | root:root | 0o644 | 7.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRatio.bf
    
        
    
 | text/x-c | root:root | 0o644 | 9.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PairwiseSiteDiversity.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PartitionDataFile.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PartitionRateComparison.bf
    
        
    
 | text/x-c | root:root | 0o644 | 20.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Phylohandbook.bf
    
        
    
 | text/plain | root:root | 0o644 | 99 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Plato.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/PositiveSelectionLI.bf
    
        
    
 | text/plain | root:root | 0o644 | 55.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/QuickSelectionDetection.bf
    
        
    
 | text/x-c | root:root | 0o644 | 63.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/QuickSelectionDetectionMF.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/RELAX.bf
    
        
    
 | text/plain | root:root | 0o644 | 29.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/RateClassCounter.bf
    
        
    
 | text/plain | root:root | 0o644 | 21.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf
    
        
    
 | text/x-c | root:root | 0o644 | 8.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/RelativeRate.bf
    
        
    
 | text/x-c | root:root | 0o644 | 3.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/RelativeRateL.bf
    
        
    
 | text/x-c | root:root | 0o644 | 7.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/RelativeRatio.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SGASimProcessor.bf
    
        
    
 | text/x-c | root:root | 0o644 | 12.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SGEmulator.bf
    
        
    
 | text/x-c | root:root | 0o644 | 22.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SGEmulator_MF.bf
    
        
    
 | text/x-c | root:root | 0o644 | 19.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SGIvL.bf
    
        
    
 | text/x-c | root:root | 0o644 | 18.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SSRatesTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SampleProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 36.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Samplers/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Samplers/lhc.bf
    
        
    
 | text/x-c | root:root | 0o644 | 6.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Samplers/lhc_supp.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Samplers/sir.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Samplers/srs.ibf
    
        
    
 | text/plain | root:root | 0o644 | 8.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SelectionLRT.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
    
        
    
 | text/plain | root:root | 0o644 | 83.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignment.bf
    
        
    
 | text/x-c | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodon.bf
    
        
    
 | text/plain | root:root | 0o644 | 169 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodonShared.ibf
    
        
    
 | text/plain | root:root | 0o644 | 7.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNuc.bf
    
        
    
 | text/plain | root:root | 0o644 | 18.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNucShared.ibf
    
        
    
 | text/plain | root:root | 0o644 | 7.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentProt.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SeqAlignmentTop75.bf
    
        
    
 | text/plain | root:root | 0o644 | 50.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SequentialAddition.bf
    
        
    
 | text/x-c | root:root | 0o644 | 5.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SequentialAddition.ibf
    
        
    
 | text/x-c | root:root | 0o644 | 15.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SimilarityPlot.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SimmondsAI.bf
    
        
    
 | text/plain | root:root | 0o644 | 8.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SimpleMutationCounter.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb-2.bf
    
        
    
 | text/plain | root:root | 0o644 | 17.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb.bf
    
        
    
 | text/plain | root:root | 0o644 | 28.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SiteRates.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SiteRates2.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SlatkinMaddison-2parts.bf
    
        
    
 | text/plain | root:root | 0o644 | 8.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SlatkinMaddison.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SlidingNucWindow.bf
    
        
    
 | text/x-c | root:root | 0o644 | 2.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SlidingWindowAnalysis.bf
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SplitSequencesByPattern.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/StarDecomposition.bf
    
        
    
 | text/x-c | root:root | 0o644 | 13.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/StrandGRMTest.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/StripStopCodons.bf
    
        
    
 | text/x-c | root:root | 0o644 | 2.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/SubtreeSelectionComparison.bf
    
        
    
 | text/x-c | root:root | 0o644 | 9.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/190
    
        
    
 | text/plain | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/BranchSiteTemplate.mdl
    
        
    
 | text/plain | root:root | 0o644 | 6.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/CF3x4.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 3.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA_empirical.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 4.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 33.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 33.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Default
    
        
    
 | text/plain | root:root | 0o644 | 867 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F+omega.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F3x4.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+MLFREQS.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 4.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM.mdl
    
        
    
 | text/plain | root:root | 0o644 | 4.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAA.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAAFreq.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 2.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.dat
    
        
    
 | text/plain | root:root | 0o644 | 2.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 33.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/BLOSUM62
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/Dayhoff
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/H5N1
    
        
    
 | text/plain | root:root | 0o644 | 7.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVBetween
    
        
    
 | text/plain | root:root | 0o644 | 3.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVWithin
    
        
    
 | text/plain | root:root | 0o644 | 3.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/IAV
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/JTT
    
        
    
 | text/plain | root:root | 0o644 | 7.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LCAP
    
        
    
 | text/plain | root:root | 0o644 | 35.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LG
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/MtArt
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/VT
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/WAG
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/cpREV
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/modellist.ibf
    
        
    
 | text/plain | root:root | 0o644 | 9.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtMAM
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtREV24
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/rtREV
    
        
    
 | text/plain | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECM
    
        
    
 | text/plain | root:root | 0o644 | 37.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECMu
    
        
    
 | text/plain | root:root | 0o644 | 37.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81_binary.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 2.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84P.mdl
    
        
    
 | text/plain | root:root | 0o644 | 3.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/GRM.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.ibf
    
        
    
 | text/plain | root:root | 0o644 | 4.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94customF3x4.mdl
    
        
    
 | text/plain | root:root | 0o644 | 7.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94w9.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 2.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween+F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 355 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.ibf
    
        
    
 | text/x-c | root:root | 0o644 | 3.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 597 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin+F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 351 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.ibf
    
        
    
 | text/x-c | root:root | 0o644 | 4.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 490 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/HKY85.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69_binary.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 34.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 33.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/K2P.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/K3ST.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/LCAP.mdl
    
        
    
 | text/plain | root:root | 0o644 | 9.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MEC.mdl
    
        
    
 | text/plain | root:root | 0o644 | 7.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94custom.mdl
    
        
    
 | text/plain | root:root | 0o644 | 9.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customCF3x4.mdl
    
        
    
 | text/plain | root:root | 0o644 | 9.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customF1x4.mdl
    
        
    
 | text/plain | root:root | 0o644 | 9.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customFreqs.mdl
    
        
    
 | text/plain | root:root | 0o644 | 8.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAA.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61multiple.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAFreqs.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAUserFreqs.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wEX.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94with9freqs.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 6.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94x2.mdl
    
        
    
 | text/plain | root:root | 0o644 | 10.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGFreqsEstimator.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwAA.ibf
    
        
    
 | text/plain | root:root | 0o644 | 3.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwEX.ibf
    
        
    
 | text/plain | root:root | 0o644 | 2.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM+Freqs.mdl
    
        
    
 | text/plain | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM.mdl
    
        
    
 | text/plain | root:root | 0o644 | 1.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/PCH
    
        
    
 | text/plain | root:root | 0o644 | 867 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 5.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16A
    
        
    
 | text/plain | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16SvH.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 3.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAEqualInput
    
        
    
 | text/plain | root:root | 0o644 | 549 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAF81
    
        
    
 | text/plain | root:root | 0o644 | 916 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAMuse95.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 3.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV
    
        
    
 | text/plain | root:root | 0o644 | 809 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV_1
    
        
    
 | text/plain | root:root | 0o644 | 785 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/S4
    
        
    
 | text/plain | root:root | 0o644 | 866 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/STGRM.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/TrN.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/UniversalCode.def
    
        
    
 | text/plain | root:root | 0o644 | 5.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 27.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 27.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/Yang2000Distributions.def
    
        
    
 | text/plain | root:root | 0o644 | 10.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def
    
        
    
 | text/plain | root:root | 0o644 | 16.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/custm4x4.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 9.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineGamma.mdl
    
        
    
 | text/plain | root:root | 0o644 | 10.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineHM.mdl
    
        
    
 | text/plain | root:root | 0o644 | 10.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/fitness.mdl
    
        
    
 | text/plain | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters.mdl
    
        
    
 | text/plain | root:root | 0o644 | 800 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters2.mdl
    
        
    
 | text/plain | root:root | 0o644 | 546 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters3.mdl
    
        
    
 | text/plain | root:root | 0o644 | 659 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters4.mdl
    
        
    
 | text/plain | root:root | 0o644 | 1.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters5.mdl
    
        
    
 | text/plain | root:root | 0o644 | 660 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/models.lst
    
        
    
 | text/plain | root:root | 0o644 | 10.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 16.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 15.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 27.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 27.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/reducedREV.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 3.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 28.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV_F.mdl
    
        
    
 | text/x-c | root:root | 0o644 | 27.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TestBranchDNDS.bf
    
        
    
 | text/plain | root:root | 0o644 | 12.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TestClade.bf
    
        
    
 | text/plain | root:root | 0o644 | 23.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TestCladeMeans.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TopologySearch.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TopologySearchConstrained.bf
    
        
    
 | text/plain | root:root | 0o644 | 8.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TreeCorrelationCoefficients.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/TreeTools.ibf
    
        
    
 | text/plain | root:root | 0o644 | 20.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/UpperBound.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/AncestralMapper.bf
    
        
    
 | text/plain | root:root | 0o644 | 23.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/BranchLengthFitters.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/CoalescentPostProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 12.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/CodonTools.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/DBTools.ibf
    
        
    
 | text/plain | root:root | 0o644 | 4.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/DescriptiveStatistics.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/GrabBag.bf
    
        
    
 | text/plain | root:root | 0o644 | 22.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/HXB2Mapper.bf
    
        
    
 | text/plain | root:root | 0o644 | 20.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREV.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREVMLFreqs.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/MPITools.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/NJ.bf
    
        
    
 | text/plain | root:root | 0o644 | 6.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/PS_Plotters.bf
    
        
    
 | text/plain | root:root | 0o644 | 50.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/PostScript.bf
    
        
    
 | text/plain | root:root | 0o644 | 11.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/ProbabilityDistributions.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/ReadDelimitedFiles.bf
    
        
    
 | text/plain | root:root | 0o644 | 11.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/TreeFunctions.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/Utility/WriteDelimitedFiles.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/WANC.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/WebUpdate.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/YangNielsenBranchSite2005.bf
    
        
    
 | text/plain | root:root | 0o644 | 15.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/_BMS_Aux.ibf
    
        
    
 | text/plain | root:root | 0o644 | 4.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/_CMS_Aux.ibf
    
        
    
 | text/plain | root:root | 0o644 | 8.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/_MFReader_.ibf
    
        
    
 | text/plain | root:root | 0o644 | 6.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/_MSCOneStep.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/_tipDater.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/bayesgraph.ibf
    
        
    
 | text/plain | root:root | 0o644 | 20.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/binomial.ibf
    
        
    
 | text/plain | root:root | 0o644 | 1.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/branchSwappingFunctions.bf
    
        
    
 | text/plain | root:root | 0o644 | 8.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/categoryEcho.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/chooseDistanceFormula.def
    
        
    
 | text/plain | root:root | 0o644 | 3.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis.bf
    
        
    
 | text/plain | root:root | 0o644 | 21.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis_CompareDS.bf
    
        
    
 | text/plain | root:root | 0o644 | 21.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparison.bf
    
        
    
 | text/x-c | root:root | 0o644 | 28.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparisonPartitions.bf
    
        
    
 | text/x-c | root:root | 0o644 | 26.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis.bf
    
        
    
 | text/plain | root:root | 0o644 | 26.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis_MF.bf
    
        
    
 | text/x-c | root:root | 0o644 | 21.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dNdSResultProcessor.bf
    
        
    
 | text/plain | root:root | 0o644 | 37.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/dSdNTreeTools.ibf
    
        
    
 | text/plain | root:root | 0o644 | 2.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/distanceMethodNPBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/distanceRMethodNPBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/doNNISwap.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/doSPRSwap.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/files.lst
    
        
    
 | text/plain | root:root | 0o644 | 13.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/globalChecker.ibf
    
        
    
 | text/plain | root:root | 0o644 | 511 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/heuristicMethodNPBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/last.date
    
        
    
 | text/plain | root:root | 0o644 | 15 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/IOFunctions.bf
    
        
    
 | text/plain | root:root | 0o644 | 6.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/UtilityFunctions.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/DNA/GTR.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/codon/MG_REV.bf
    
        
    
 | text/plain | root:root | 0o644 | 6.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/frequencies.bf
    
        
    
 | text/plain | root:root | 0o644 | 10.1 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/model_functions.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/parameters.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/rate_variation.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.6 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/models/terms.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/tasks/
    
        
    
 |  | root:root | 0o755 |  | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/lib2014/tasks/estimators.bf
    
        
    
 | text/plain | root:root | 0o644 | 14.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/molclockBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 5.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimator.ibf
    
        
    
 | text/plain | root:root | 0o644 | 10.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimatorCounter.ibf
    
        
    
 | text/plain | root:root | 0o644 | 180 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/partitionSequences.ibf
    
        
    
 | text/plain | root:root | 0o644 | 2.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_ancestors.bf
    
        
    
 | text/plain | root:root | 0o644 | 661 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_counting.bf
    
        
    
 | text/x-c | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_covariance.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.5 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_dNdS.bf
    
        
    
 | text/x-c | root:root | 0o644 | 2.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_lfprofile.bf
    
        
    
 | text/plain | root:root | 0o644 | 352 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_npbs.bf
    
        
    
 | text/plain | root:root | 0o644 | 359 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_pbs.bf
    
        
    
 | text/plain | root:root | 0o644 | 324 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_sampler.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.7 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_saveResults.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_sns.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_variance.bf
    
        
    
 | text/plain | root:root | 0o644 | 3.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/post_viewResults.bf
    
        
    
 | text/plain | root:root | 0o644 | 1.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/postprocessors.lst
    
        
    
 | text/plain | root:root | 0o644 | 880 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper1.ibf
    
        
    
 | text/plain | root:root | 0o644 | 22.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper1_mf.ibf
    
        
    
 | text/x-c | root:root | 0o644 | 7.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper2.ibf
    
        
    
 | text/plain | root:root | 0o644 | 13.2 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper2_mf.ibf
    
        
    
 | text/plain | root:root | 0o644 | 13.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper3.ibf
    
        
    
 | text/plain | root:root | 0o644 | 4.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/qndhelper4.ibf
    
        
    
 | text/plain | root:root | 0o644 | 4.3 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/queryTree.bf
    
        
    
 | text/plain | root:root | 0o644 | 2.8 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/readIndexFile.bf
    
        
    
 | text/plain | root:root | 0o644 | 447 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/relrateBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 9.9 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/relrateBootstrapL.bf
    
        
    
 | text/plain | root:root | 0o644 | 7.0 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/relratioBootstrap.bf
    
        
    
 | text/plain | root:root | 0o644 | 4.4 KB | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/selectModelParameters.bf
    
        
    
 | text/plain | root:root | 0o644 | 438 bytes | 
        
            
                | 
    
        
    
    
    /usr/share/hyphy/TemplateBatchFiles/simpleBootstrap.bf
    
        
    
 | text/x-c | root:root | 0o644 | 9.7 KB |