Dear All,
I have some queries on the workings of NEMO. Can I seek the help of the community to correct me if I’m wrong in the understanding below:

I was trying to create a twolayer setup. It created the domain cfg fine, however, the
bathy_meter
variable are showing double the depth from the original bathy_meter file. Please refer to the parameters in the namelist_cfg below. 
If we try to edit the initial and boundary conditions with a constant T & S, and turn off the model parameters in the namelist that will control the generation/dissipation, theoretically we could emulate a barotropic mode if only the tides are used as forcing. Agree? In this sense it does not matter how many layers is used.
&namcfg ! parameters of the configuration
!
!
ln_e3_dep = .true. ! =T : e3=dk[depth] in discret sens.
! ! ===>>> will become the only possibility in v4.0
! ! =F : e3 analytical derivative of depth function
! ! only there for backward compatibility test with v3.6
! !
cp_cfg = "oifs" ! name of the configuration
jp_cfg = 029 ! resolution of the configuration
jpidta = 1942 ! 1st lateral dimension ( >= jpi )
jpjdta = 1222 ! 2nd " " ( >= jpj )
jpkdta = 2 ! number of levels ( >= jpk )
jpiglo = 1942 ! 1st dimension of global domain > i =jpidta
jpjglo = 1222 ! 2nd   > j =jpjdta
jpizoom = 1 ! left bottom (i,j) indices of the zoom
jpjzoom = 1 ! in data domain indices
jperio = 0 ! lateral cond. type (between 0 and 6)
/
&namzgr_sco ! scoordinate or hybrid zscoordinate (default F)
!
ln_s_sh94 = .true. ! Song & Haidvogel 1994 hybrid Ssigma (T)
ln_s_sf12 = .false. ! Siddorn & Furner 2012 hybrid Szsigma (T) if both are false the NEMO tanh stretching is applied
ln_sigcrit = .false. ! use sigma coordinates below critical depth (T) or Z coordinates (F) for Siddorn & Furner stretch
! stretching coefficients for all functions
rn_sbot_min = 10.0 ! minimum depth of sbottom surface (>0) (m)
rn_sbot_max = 10200.0 ! maximum depth of sbottom surface (= ocean depth) (>0) (m)
rn_hc = 0.0 ! critical depth for transition to stretched coordinates
!!!!!!! Envelop bathymetry
rn_rmax = 1.0 ! maximum cutoff rvalue allowed (0<r_max<1)
!!!!!!! SH94 stretching coefficients (ln_s_sh94 = .true.)
rn_theta = 0.0 ! surface control parameter (0<=theta<=20)
rn_bb = 0.8 ! stretching with SH94 ssigma
!!!!!!! SF12 stretching coefficient (ln_s_sf12 = .true.)
rn_alpha = 4.4 ! stretching with SF12 ssigma
rn_efold = 0.0 ! efold length scale for transition to stretched coord
rn_zs = 1.0 ! depth of surface grid box
! bottom cell depth (Zb) is a linear function of water depth Zb = H*a + b
rn_zb_a = 0.024 ! bathymetry scaling factor for calculating Zb
rn_zb_b = 0.2 ! offset for calculating Zb
!!!!!!!! Other stretching (not SH94 or SF12) [also uses rn_theta above]
rn_thetb = 1.0 ! bottom control parameter (0<=thetb<= 1)
/