This is EMC flake model (#164)

* This is EMC flake model
* Updated .gitmodules file under ufs-weather-model and tests/rt.conf
* Updated .gitmodules file under usf-weather-model
* Point to fv3 flake branch
* Updated ccpp_gfs_v16_flake_run.IN to use the new oro data for flake test
* Updated the following files and directories
* update to  the latest ccpp/physics branch
* Updated compile and regression test log files
* Updated ccpp-physics
* point to NOAA-EMC fv3 repo

parm/ccpp_v16beta_flake_c96.nml.IN

@@ -0,0 +1,338 @@
+&amip_interp_nml
+ interp_oi_sst = .true.
+ use_ncep_sst = .true.
+ use_ncep_ice = .false.
+ no_anom_sst = .false.
+ data_set = 'reynolds_oi'
+ date_out_of_range = 'climo'
+/
+
+&atmos_model_nml
+ blocksize = 32
+ chksum_debug = .false.
+ dycore_only = .false.
+ fdiag = 1
+ fhmax = 384
+ fhout = 3
+ fhmaxhf = 120
+ fhouthf = 1
+ ccpp_suite = 'FV3_GFS_v16beta_flake'
+/
+
+&diag_manager_nml
+ prepend_date = .false.
+/
+
+&fms_io_nml
+ checksum_required = .false.
+ max_files_r = 100
+ max_files_w = 100
+/
+
+&mpp_io_nml
+shuffle=1
+deflate_level=1
+/
+
+&fms_nml
+ clock_grain = 'ROUTINE'
+ domains_stack_size = 3000000
+ print_memory_usage = .false.
+/
+
+&fv_core_nml
+ layout = 3,8
+ io_layout = 1,1
+ npx = 97
+ npy = 97
+ ntiles = 6
+ npz = 64
+ grid_type = -1
+ make_nh = .false.
+ fv_debug = .false.
+ range_warn = .false.
+ reset_eta = .false.
+ n_sponge = 10
+ nudge_qv = .true.
+ nudge_dz = .false.
+ tau = 10.
+ rf_cutoff = 7.5e2
+ d2_bg_k1 = 0.20
+ d2_bg_k2 = 0.0
+ kord_tm = -9
+ kord_mt = 9
+ kord_wz = 9
+ kord_tr = 9
+ hydrostatic = .false.
+ phys_hydrostatic = .false.
+ use_hydro_pressure = .false.
+ beta = 0.
+ a_imp = 1.
+ p_fac = 0.1
+ k_split = 2
+ n_split = 6
+ nwat = 6
+ na_init = 0
+ d_ext = 0.
+ dnats = 1
+ fv_sg_adj = 450
+ d2_bg = 0.
+ nord = 2
+ dddmp = 0.1
+ d4_bg = 0.12
+ vtdm4 = 0.02
+ delt_max = 0.002
+ ke_bg = 0.
+ do_vort_damp = .true.
+ external_ic = .true.
+ external_eta = .true.
+ gfs_phil = .false.
+ nggps_ic = .true.
+ mountain = .false.
+ ncep_ic = .false.
+ d_con = 1.
+ hord_mt = 5
+ hord_vt = 5
+ hord_tm = 5
+ hord_dp = -5
+ hord_tr = 8
+ adjust_dry_mass = .false.
+ consv_te = 1.
+ do_sat_adj = .true.
+ consv_am = .false.
+ fill = .true.
+ dwind_2d = .false.
+ print_freq = 6
+ warm_start = .false.
+ no_dycore = .false.
+ z_tracer = .true.
+ agrid_vel_rst = .true.
+ read_increment = .false.
+ res_latlon_dynamics = ""
+/
+
+&external_ic_nml
+ filtered_terrain = .true.
+ levp = 65
+ gfs_dwinds = .true.
+ checker_tr = .false.
+ nt_checker = 0
+/
+
+&gfs_physics_nml
+ fhzero = 6
+ h2o_phys = .true.
+ ldiag3d = .false.
+ fhcyc = 24
+ use_ufo = .true.
+ pre_rad = .false.
+ ncld = 5
+ imp_physics = 11
+ pdfcld = .false.
+ fhswr = 3600.
+ fhlwr = 3600.
+ ialb = 1
+ iems = 1
+ iaer = 5111
+ icliq_sw = 2
+ iovr_lw = 3
+ iovr_sw = 3
+ ico2 = 2
+ isubc_sw = 2
+ isubc_lw = 2
+ isol = 2
+ lwhtr = .true.
+ swhtr = .true.
+ cnvgwd = .true.
+ shal_cnv = .true.
+ cal_pre = .false.
+ redrag = .true.
+ dspheat = .true.
+ hybedmf = .false.
+ satmedmf = .true.
+ isatmedmf = 1
+ lheatstrg = .true.
+ random_clds = .false.
+ trans_trac = .true.
+ cnvcld = .true.
+ imfshalcnv = 2
+ imfdeepcnv = 2
+ cdmbgwd = 4.0,0.15,1.0,1.0
+ prslrd0 = 0.
+ ivegsrc = 1
+ isot = 1
+ lsoil = 4
+ lsm = 1
+ iopt_dveg = 1
+ iopt_crs = 1
+ iopt_btr = 1
+ iopt_run = 1
+ iopt_sfc = 1
+ iopt_frz = 1
+ iopt_inf = 1
+ iopt_rad = 1
+ iopt_alb = 2
+ iopt_snf = 4
+ iopt_tbot = 2
+ iopt_stc = 1
+ debug = .false.
+ oz_phys = .F.
+ oz_phys_2015 = .T.
+ nstf_name = 2,1,0,0,0
+ nst_anl = .true.
+ psautco = 0.0008,0.0005
+ prautco = 0.00015,0.00015
+ lgfdlmprad = .true.
+ effr_in = .true.
+ ldiag_ugwp = .false.
+ do_ugwp = .false.
+ do_tofd = .true.
+ do_sppt = .true.
+ do_shum = .true.
+ do_skeb = .true.
+ do_sfcperts = .false.
+/
+
+&gfdl_cloud_microphysics_nml
+ sedi_transport = .true.
+ do_sedi_heat = .false.
+ rad_snow = .true.
+ rad_graupel = .true.
+ rad_rain = .true.
+ const_vi = .F.
+ const_vs = .F.
+ const_vg = .F.
+ const_vr = .F.
+ vi_max = 1.
+ vs_max = 2.
+ vg_max = 12.
+ vr_max = 12.
+ qi_lim = 1.
+ prog_ccn = .false.
+ do_qa = .true.
+ fast_sat_adj = .true.
+ tau_l2v = 225.
+ tau_v2l = 150.
+ tau_g2v = 900.
+ rthresh = 10.e-6 ! This is a key parameter for cloud water
+ dw_land = 0.16
+ dw_ocean = 0.10
+ ql_gen = 1.0e-3
+ ql_mlt = 1.0e-3
+ qi0_crt = 8.0E-5
+ qs0_crt = 1.0e-3
+ tau_i2s = 1000.
+ c_psaci = 0.05
+ c_pgacs = 0.01
+ rh_inc = 0.30
+ rh_inr = 0.30
+ rh_ins = 0.30
+ ccn_l = 300.
+ ccn_o = 100.
+ c_paut = 0.5
+ c_cracw = 0.8
+ use_ppm = .false.
+ use_ccn = .true.
+ mono_prof = .true.
+ z_slope_liq = .true.
+ z_slope_ice = .true.
+ de_ice = .false.
+ fix_negative = .true.
+ icloud_f = 1
+ mp_time = 150.
+ reiflag = 2
+/
+
+&interpolator_nml
+ interp_method = 'conserve_great_circle'
+/
+
+&namsfc
+ FNGLAC = 'global_glacier.2x2.grb'
+ FNMXIC = 'global_maxice.2x2.grb'
+ FNTSFC = 'RTGSST.1982.2012.monthly.clim.grb'
+ FNSNOC = 'global_snoclim.1.875.grb'
+ FNZORC = 'igbp'
+ FNALBC = 'global_snowfree_albedo.bosu.t126.384.190.rg.grb'
+ FNALBC2 = 'global_albedo4.1x1.grb'
+ FNAISC = 'CFSR.SEAICE.1982.2012.monthly.clim.grb'
+ FNTG3C = 'global_tg3clim.2.6x1.5.grb'
+ FNVEGC = 'global_vegfrac.0.144.decpercent.grb'
+ FNVETC = 'global_vegtype.igbp.t126.384.190.rg.grb'
+ FNSOTC = 'global_soiltype.statsgo.t126.384.190.rg.grb'
+ FNSMCC = 'global_soilmgldas.t126.384.190.grb'
+ FNMSKH = 'seaice_newland.grb'
+ FNTSFA = ''
+ FNACNA = ''
+ FNSNOA = ''
+ FNVMNC = 'global_shdmin.0.144x0.144.grb'
+ FNVMXC = 'global_shdmax.0.144x0.144.grb'
+ FNSLPC = 'global_slope.1x1.grb'
+ FNABSC = 'global_mxsnoalb.uariz.t126.384.190.rg.grb'
+ LDEBUG = .false.
+ FSMCL(2) = 99999
+ FSMCL(3) = 99999
+ FSMCL(4) = 99999
+ LANDICE = .true.
+ FTSFS = 90
+ FAISL = 99999
+ FAISS = 99999
+ FSNOL = 99999
+ FSNOS = 99999
+ FSICL = 99999
+ FSICS = 99999
+ FTSFL = 99999
+ FVETL = 99999
+ FSOTL = 99999
+ FvmnL = 99999
+ FvmxL = 99999
+ FSLPL = 99999
+ FABSL = 99999
+/
+
+&fv_grid_nml
+ grid_file = 'INPUT/grid_spec.nc'
+/
+
+&nam_stochy
+ ntrunc = 766
+ lon_s = 1536
+ lat_s = 768
+ skeb = 0.3
+ iseed_skeb = 2019102712451
+ iseed_shum = 2019102712452
+ iseed_sppt = 2019102712453
+ skeb_tau = 21600.
+ skeb_lscale = 500000.
+ skebnorm = 0
+ skeb_npass = 30
+ skeb_vdof = 5
+ shum = 0.005
+ shum_tau = 21600.
+ shum_lscale = 500000.
+ sppt = 0.5
+ sppt_tau = 21600.
+ sppt_lscale = 500000.
+ sppt_logit = .true.
+ sppt_sfclimit = .true.
+ use_zmtnblck = .true.
+/
+
+&nam_sfcperts
+/
+
+&cires_ugwp_nml
+ knob_ugwp_solver = 2
+ knob_ugwp_source = 1,1,0,0
+ knob_ugwp_wvspec = 1,25,25,25
+ knob_ugwp_azdir = 2,4,4,4
+ knob_ugwp_stoch = 0,0,0,0
+ knob_ugwp_effac = 1,1,1,1
+ knob_ugwp_doaxyz = 1
+ knob_ugwp_doheat = 1
+ knob_ugwp_dokdis = 1
+ knob_ugwp_ndx4lh = 1
+ knob_ugwp_version = 0
+ launch_level = 27
+/
+