== Release v3.2 ==
[[BR]]


=== content  ===

 - New Physics : tidal mixing ; RGB light penetration + ocean color ; 

 - Cleaning of lib_mpp

 - IOM for the output

 - achievement of the coupled interface

 - VVL reactivation

 - Improved time-stepping achitecture

 ...

[[BR]]

=== Minor bug fixes / enhancements ===

Ticket in '''bold''' includes some severe BUGs that have to be corrected in the release v3.2.[[BR]]


 - '''AGRIF''' [[BR]]
||#443|| Coordinates cannot be read under AGRIF || || ||
||#415|| runtime array allocation error with AGRIF || || ||
||#341 || Interpolation on the fly with AGRIF||'''Rachid ?'''||   ||
||#261|| AGRIF syntax problem with allocation of FLD arrays || || ||
||#108|| AGRIF with ice || || ||
||#107|| AGRIF with time-splitting || || ||
||#106|| AGRIF with time-splitting || || ||
||#73|| tradmp.F90 never called when using AGRIF ... || || ||




 - '''ENV'''ironment [[BR]]
||#409|| ins_make [ -t "target host" ] || '''Done''' || ||

||#407|| alias and csh || '''Done''' || ||

||#396|| Add a first guess of ORCA2_LIM_PISCES configuration in libIGCM || || ||

||#240|| setting up and running NVTK on new target || '''Done''' || NVTK ||



 - '''LIM2''' [[BR]]
||#194|| LIM-2 damping option || true identified bug. No real pressure to solve it urgently || limdmp_2.F90  '''==> v3.3''' or later ||

||'''#364'''|| wrong sign in lbc_lnk for gradients in limadv.F90|| '''Done''' ||  ||



 - '''LIM3''' [[BR]]
||#464|| Hard coded number of ice categories || true identified bug. No simple solution. || limdia.F90 '''==> v3.3''' or later ||

||'''#439'''|| Array index out of bounds in limsbc.F90 || '''Done''' ||  ||

||#400|| LIM3 : useless akappa and alambd arrays ?||We agree, a cleaning of useless array is required. Should be done latter, when introducing EVP rheology in LIM2.  || '''==> v3.3''' ||

||'''#364'''|| wrong sign in lbc_lnk for gradients in limadv.F90|| '''Done''' ||  ||

||#354|| ORCA-LIM3 MPI problem? || Apparently, it was a user error. The ticket can be closed. '''Rachid''', do you agree? ||  invalid ||
||#243|| simplification of computation of snow-ice energy in limthd_ent || I (Gurvan) don't understand this ticket. Ask Martin for further info. ||  postponed form v3.3 ||

||#195|| LIM-3 a damping option should be added for regional configurations || pending issue, can be included in '''Brice''' timetable || '''==> v3.3''' or later ||



 - '''OFF''' [[BR]]
||#320|| update modules of the off-line || '''Christian''', off-line should be OK for v3.2, no? || OFF ||



 - '''OPA''' [[BR]]
Physics[[BR]]
||#462|| Bug in zdftmx when using zdfddm || change the order of the call in step. '''Done'''  || step.F90 ||

||#459|| RGB light penetration + ocean color: paper documentation||'''Gurvan'''|| DOC ||

||#458|| tidal mixing: paper documentation||'''Gurvan'''|| DOC ||

||#457|| tidal mixing: optimisation|| '''Done'''|| zdftmx.F90 ||

||'''#435'''|| wrong index in ldfslp.F90|| '''Done'''  || ldfslp.F90 ||

||'''#371'''|| Mixed laplacian and bilaplacian operators || Lap-bilap option, code provided and checked through the NVTK. '''Gurvan''' for code review: as provided it does not work, waiting for a reply from ed.blockley. '''probably not in v3.2'''  || dynldf.F90 , ldfdyn.F90 , ldfdyn_oce.F90 ||

||'''#361'''|| Proposal for diaptr || Required for IPPC runs, routines provided. '''Claude + Gurvan''' ? || diaptr.F90 + namelist ||

||'''#239'''|| diaptr code duplication / deficiencies|| clearly a problem to be solved...  '''who? Claude/Sebastian?'''|| diaptr.F90 ||

||#356|| eosbn2: should we update the equation of state ? || This should be added in the roadmap 2010 together with an option for P instead of z in eos || '''==> v3.4''' or later ||

||#331|| No bottom friction if mbathy=2 || to be solved together with #233. See Andrew work || ||

||'''#233'''|| bottom friction issue... || true identified bug. A clean solution is under development by Andrew.  To be done in v3.2 || ||



Vertical coordinate[[BR]]
||'''#434'''|| mesh_zgr inconsistency when using zps || I (Gurvan) think that JMM is right, we should return back to 3D arrays and recompute the e3tp etc  after the check of the bathymetry ! '''Sebastian+Gurvan''' ? || domain, domzgr.F90, domwri.F90||

||#381|| bugs in "subroutine zgr_sco" || to be checked || domzgr.F90 ||

||#366|| sbot_min not properly used in hybrid coordinate option (zgr_sco module in domzgr)||  small true identified bug. easy to fix. To be done in v3.2 ('''Gurvan''')  || domzgr.F90 ||



VVL re-activation [[BR]]
||'''#382'''|| bugs in "subroutine dom_vvl" fse3w computation || Already corrected see domzgr_substitute.h90 || '''ticket to be closed''' ||
||#337|| partial cells and vvl || This contains an improvement to the hydrostatic pressure gradient correction in vvl case. To be checked by '''Rachid + Gurvan'''. In the trunk, we are currently using the sco correction which works || '''==> v3.2 or v3.3''' ||

||'''#232'''|| Optimization of dynspg_ts with key_vvl || Already included in the trunk (see dynspg_ts).  || '''ticket to be closed''' ||

||'''#329'''|| vvl and time splitting || 2 points here: (1) correct thickness timestep : should be OK in Rachid's latest version of dynspg_ts ; to be checked in '''v3.2'''. (2) removal of asselin filter on the barotropic part in dynnxt.F90 : I (Gurvan) don't think it is a good idea. || dynspg_ts.F90||

||'''#328'''|| vertical velocity and key_vvl || We agree. In the current trunk, the call to wzv (now ssh_wzv) is done at the begining of step. The vertical velocity has to be removed from the restart file To be done in v3.2 '''Rachid + Gurvan''' || restart.F90 ||

||#209|| Bug in domvvl : wrong e3u e3v and e3f scale factors + change name of mut to ee_t || partly solved in the trunk (see domvvl). The suppression of 3D arrays (mut, muu, muv, muf) does not work, we don't understand why (it will not be done in v3.2). The change in trazdf_imp and exp are still a pending issue to be solved in v3.2 ('''Rachid + Gurvan''') || trazdf_imp.F90 , trazdf_exp.F90 ||


Surface module (SBC)[[BR]]
||#436|| Implementation of CICE and UM coupling code as part of S0.1 and S0.3 || On-going work. Waiting for Exeter input|| '''==> v3.3''' or later||

||#406|| optimize sbcssr.F90 routine || '''Done''' || sbcssr.F90 ||


Bugs[[BR]]
||#433 #363|| potential non initialized value in trazdf_imp || '''Done''' ||  ||

||#424|| missing lbc_lnk in sbcmod || Sebastian answer properly to this ticket. Don't think we need to do something  || '''invalid''' ||

||#419|| Bug in dynvor_een when flux form is activated || add to CALL lbc_lnk( zwz, 'F', 1. ), '''Done'''  || dynvor.F90 ||

||#403|| Calculation of avmb in zdf_tke_init || '''Done''' ||  ||

||'''#377'''|| SBC fldread additions || Improvment to SBC, code provided and checked through the NVTK. '''Sebastian''' for code review? || fldread.F90 , iom.F90 , bdydta.F90 , sbcblk_clio.F90 , sbcflx.F90 , sbcice_if.F90 , sbcrnf.F90 , sbc_ssr.F90 , domain.F90 , in_out_manager.F90 ||

||#375|| fldread and Interpolation on the Fly||Seem easy to do,  waiting for '''steven''' feedback... || fldread.F90 ||

||'''#365'''|| wrong scale factors used in bdyvol || '''Done''' || ||

||'''#368'''|| bug in calendar of lim and top outputs || done for lim. status of top? '''Christian'''?|| to be closed if '''Christian''' is ok ||

||#342 #468|| wrong computation of the heat contain ||  done + associated with a full review for mld diag... || done  ||
||'''#332'''|| Mistake in comment in nam_dynvor||  '''Invalid''' ||  ||

||#244|| tradmp || A priori, this was done intentionally by Gurvan. '''Gurvan''' check it again! || no action? ||

||#129|| Use of F95 signed zero causes incorrect results || True identified problem. Specific compiler option added to circumvent it. A cleaner solution is to remove all SIGN instruction from the code, especially in sea-ice. ||  '''==> v3.3''' or later ||

||'''#127'''|| Arrays go out of bounds || true identified bug. rather easy to fix but using a other technique than the one proposed in the ticket. To be done in v3.2 (for '''diafwb.F90''', see gm's comments and routines attached to the ticket. There is 2 other bug corrected in diafwb. For '''cla.F90''', there is several other bugs, so at the end I completely re-wrote the module, merging cla, cla_div and cla_dynspg. See gm's comments and routines attached to the ticket. ) || cla.F90 , diafwb.F90 suppress cla_div, cla_dynspg ||

IO issues[[BR]]
||#437||Distribution of "CALL iom_put" in NEMO-TOP || '''Brice, Christian'''. On going work in the trunk. To be achieved in v3.2 || whole NEMO ||

||#410|| PGF90-F-0004-Unable to open MODULE file netcdf.mod (fliocom.f90: 5) || '''???''' || ||

||#405|| bug in diawri_dimg.h90 ||  '''Done'''  || ||

||#374|| Addition of clobber and chunksize when opening NetCDF files || Done. Wait for ioipsl improvement to extent modifications to all NetCDF files created in the code, and really close the ticket || wait for ioipsl ||

||#372|| problem with netcdf syncing|| Invalid bug report '''Closed''' || closed ||

||#359|| cleaning of calendar variables || '''Sebastian + Gurvan''' action? || phycst.F90 and others...||

||#343|| no more runoff in outputs... || keep runoff in the output only with IOM outputs, no more with standard one. '''Done''' || done in changeset:1482 ||

||#314|| wrong name of trends output file : key_trdmld, key_trmld_trc||  '''Christian''' : Done for trdmld_trc.F90 ; for trdmld, we need to re-organize the initialization part || '''==> v3.3''' ||

||#296|| obcdta_bt out of date || To be solved together with major rewriting of OBC by MERCATOR. '''Rachid''', you agree? || '''==> v3.3''' or later ||

||#237|| Undefined behaviour writing to ocean.output from multiple pes || '''done''' || done ||

||#201|| simplified definition of the model time step || Minor improvement. in v3.2 only if we have enough time || '''==> v3.2''' or later ||

Misc. staff[[BR]]
||#447|| IOF and cutting along latitude || waiting for '''steven''' feedback... || ||

||#445|| Performance of NEMO 3.1 || idem as for #447 || ||

||#200|| dtatem & dtasal : cleaning - move the call from step to tradmp - merge in 1 module || This should be added in the roadmap 2010 together with the system consolidation / simplification || '''==> v3.4''' or later ||

||#379|| clean lib_mpp ||  '''Done'''  || lib_mpp.F90, lbcnfd .F90 , lbclnk.F90  ||