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revision 1.1 by heimbach, Thu Oct 4 19:27:24 2001 UTC revision 1.36 by mlosch, Wed May 13 12:51:04 2009 UTC
# Line 1  Line 1 
1    @string{angl    = {Ann.\ Glaciol.}}
2  @string{arfm    = {Annu.~Rev.~Fluid Mech.}}  @string{arfm    = {Annu.~Rev.~Fluid Mech.}}
3  @string{bams    = {Bull.~Am.~Met.~Soc.}}  @string{bams    = {Bull.~Am.~Met.~Soc.}}
4  @string{blm     = {Bound.~Layer~Meteorol.}}  @string{blm     = {Bound.~Layer~Meteorol.}}
5    @string{climd   = {Clim.~Dynamics}}
6    @string{cch     = {Clim.\ Change}}
7  @string{jgr     = {J.~Geophys.~Res.}}  @string{jgr     = {J.~Geophys.~Res.}}
8  @string{ijrs    = {Int.~J.~Remote Sensing}}  @string{ijrs    = {Int.~J.~Remote Sensing}}
9  @string{jas     = {J.~Atmos.~Sci.}}  @string{jas     = {J.~Atmos.~Sci.}}
10    @string{jam     = {J.~Appl.~Meteor.}}
11  @string{jpo     = {J.~Phys.~Oceanogr.}}  @string{jpo     = {J.~Phys.~Oceanogr.}}
12  @string{jclim   = {J.~Clim.}}  @string{jclim   = {J.~Clim.}}
13    @string{jcp     = {J.~Comput.~Phys.}}
14  @string{ieee    = {IEEE Trans.~Geosci. Remote Sensing}}  @string{ieee    = {IEEE Trans.~Geosci. Remote Sensing}}
15  @string{jfm     = {J.~Fluid Mech.}}  @string{jfm     = {J.~Fluid Mech.}}
16  @string{jaot    = {J.~Atmos.~Ocean.~Technol.}}  @string{jaot    = {J.~Atmos.~Ocean.~Technol.}}
17  @string{jms     = {J.~Mar.~Sys.}}  @string{jms     = {J.~Mar.~Sys.}}
18    @string{om      = {Ocean Modelling}}
19  @string{gaos    = {Global Atmos.~Ocean System}}  @string{gaos    = {Global Atmos.~Ocean System}}
20  @string{grl     = {Geophys.~Res.~Lett.}}  @string{grl     = {Geophys.~Res.~Lett.}}
21  @string{dsr     = {Deep Sea Res.}}  @string{dsr     = {Deep Sea Res.}}
# Line 28  Line 34 
34  @string{estec   = {European Space Research and Technology Centre  @string{estec   = {European Space Research and Technology Centre
35                          (ESTEC)}}                          (ESTEC)}}
36  @string{esa     = {European Space Agency (ESA)}}  @string{esa     = {European Space Agency (ESA)}}
37    @string{eos     = {Eos~Trans.\ AGU}}
38    
39  @Article{bis-eta:92,  @Article{bis-eta:92,
40   author         = {C.H. Bishof and G.F. Corliss and L. Green and   author         = {C.H. Bishof and G.F. Corliss and L. Green and
# Line 67  Line 74 
74                    Argonne (ILL), 90439; USA},                    Argonne (ILL), 90439; USA},
75   note           = {http://www.mcs.anl.gov/autodiff/},   note           = {http://www.mcs.anl.gov/autodiff/},
76                    }                    }
77    
78    @ARTICLE{bugi-hill:06,
79      author = {V. Bugnion and C. Hill},
80      title = {Equilibration mechanisms in an adjoint ocean general
81               circulation model},
82      journal = {Ocean Dynamics},
83      year = {2006},
84      volume = {56},
85      number = {1},
86      pages = {51-61},
87      doi   = {10.1007/s10236-005-0052-z},
88    }
89    
90  @techreport{bis-roh:97,  @techreport{bis-roh:97,
91   author         = {C. Bishof and L. Roh},   author         = {C. Bishof and L. Roh},
# Line 114  Line 133 
133   volume         = {120},   volume         = {120},
134   pages          = {1367--1387},   pages          = {1367--1387},
135                    }                    }
136    
137    @ARTICLE{durr:91,
138      author = {Dale R. Durran},
139      title = {The Third-Order Adams-Bashforth Method: An Attractive Alternative
140               to Leapfrog Time Differencing},
141      journal = mwr,
142      year = {1991},
143      volume = {119},
144      pages  = {702-720},
145    }
146    
147    
148    @ARTICLE{dutk-etal:06,
149      author = {S. Dutkiewicz and M.J. Follows and P. Heimbach and J. Marshall},
150      title = {Controls on ocean productivity and air-sea carbon flux:
151               An adjoint model sensitivity study},
152      journal = grl,
153      year = {2006},
154      volume = {33},
155      pages  = {L02603},
156      doi    = {10.1029/2005GL024987},
157    }
158    
159  @Article{err:97,  @Article{err:97,
160   author         = {R.M. Errico},   author         = {R.M. Errico},
# Line 175  Line 216 
216   note           = {in press},   note           = {in press},
217                    }                    }
218    
219    @Article{fer-eta:05,
220     author         = {D. Ferreira and J. Marshall and P. Heimbach},
221     year           = 2005,
222     title          = {Estimating Eddy Stresses by Fitting Dynamics to Observations
223                       using a Residual-Mean Ocean Circulation Model and Its Adjoint},
224     journal        = jpo,
225     volume         = {35},
226     pages          = {1891--1910},
227                      }
228    
229  @Article{gen-mcw:90,  @Article{gen-mcw:90,
230   author         = {P.R. Gent and J.C. McWilliams},   author         = {P.R. Gent and J.C. McWilliams},
231   year           = 1990,   year           = 1990,
# Line 250  Line 301 
301   pages          = {401 pp.},   pages          = {401 pp.},
302                    }                    }
303                                                                        
304    @incollection{gri:89,
305     author         = {A. Griewank},
306     year           = 1989,
307     title          = {On automatic differentiation},
308     booktitle      = {Mathematical Programming: Recent Developments and
309                      Applications},
310     pages          = {83--108},
311     editor         = {M. Iri and K. Tanabe},
312     publisher      = {Kluwer},
313     address        = {Dordrecht, NL},
314                      }
315    
316    @Article{gri:92,
317      author =       {A.~Griewank},
318      title =        {Achieving logarithmic growth of temporal and spatial
319      complexity in reverse {A}utomatic {D}ifferentiation},
320      journal       = {Optimization Methods and Software},
321      year          = {1992},
322      volume        = {1},
323      pages         = {35--54}
324    }
325    
326  @book{gri:00,  @book{gri:00,
327   author         = {A. Griewank},   author         = {A. Griewank},
328   title          = {Evaluating Derivatives. Principles and Techniques   title          = {Evaluating Derivatives. Principles and Techniques
# Line 271  Line 344 
344   volume         = {39},   volume         = {39},
345   pages          = {2038--3050},   pages          = {2038--3050},
346                    }                    }
347    
348    @Article{Haney,
349      author =       {R.L. Haney},
350      title =        {Surface thermal boundary conditions for ocean
351                      circulation models},
352      journal =      jpo,
353      year =         1971,
354      volume =       1,
355      pages =        {241--248}
356    }
357    
358    @Article{held-suar:94,
359     author         = {I.M. Held and M.J. Suarez},
360     year           = {1994},
361     title          = {A proposal for the intercomparison of the dynamical cores of atmospheric general circulation models},
362     journal        = {Bulletin of the American Meteorological Society},
363     volume         = {75(10)},
364     pages          = {1825-1830}
365    }
366    
367  @Article{hil-eta:01,  @Article{hil-eta:01,
368   author         = {C. Hill and M. Follows and V. Bugnion and   author         = {C. Hill and M. Follows and V. Bugnion and
369                    J. Marshall},                    J. Marshall},
370   year           = {2001},   year           = {2002},
371   title          = {Spatial and Temporal Impacts of ocean general   title          = {Spatial and Temporal Impacts of ocean general
372                    circulation on carbon sequestration},                    circulation on carbon sequestration},
373   journal        = {journal ???},   journal        = {Global Biogeochemical Cycles},
374   note           = {submitted},   note           = {submitted},
375                    }                    }
376    
377    @ARTICLE{hib80,
378      author =       {Hibler, III, William D.},
379      TITLE       = "Modeling a Variable Thickness Sea Ice Cover",
380      JOURNAL     = mwr,
381      YEAR        = 1980,
382      VOLUME      = 1,
383      PAGES       = "1943-1973"
384    }
385    
386    @Article{Holland75,
387     author         = {W.R. Holland and L. B. Lin},
388     year           = {1975a},
389     title          = {On the origin of mesoscale eddies and their contribution
390                       to the general circulation of the ocean. I. A preliminary
391                       numerical experiment},
392     journal        = jpo,
393     volume         = {5},
394     pages          = {642-657}
395                      }
396    
397    @Article{hol-lin:75b,
398     author         = {W.R. Holland and L. B. Lin},
399     year           = {1975b},
400     title          = {On the origin of mesoscale eddies and their contribution
401                       to the general circulation of the ocean. II. A parameter
402                       study},
403     journal        = jpo,
404     volume         = {5},
405     pages          = {658-669}
406                      }
407    
408    @Article{jam-oze:86,
409     author         = {B.M. Jamart and J. Ozer},
410     year           = {1986},
411     title          = {Numerical boundary layers and spurious residual flows},
412     journal        = jgr,
413     volume         = {91},
414     pages          = {10,621-10,631}
415                      }
416    
417  @book{kas-eta:00,  @book{kas-eta:00,
418   author         = {P. Kasibhatla and M. Heimann and P. Rayner and   author         = {P. Kasibhatla and M. Heimann and P. Rayner and
419                    N. Mahowald and R.G. Prinn and D.E. Hartley},                    N. Mahowald and R.G. Prinn and D.E. Hartley},
# Line 326  Line 458 
458   volume         = {38A},   volume         = {38A},
459   pages          = {97--110},   pages          = {97--110},
460                    }                    }
461    
462    @TechReport{lev:94a,
463      author =       {S. Levitus and T.P.Boyer},
464      title =        {{World Ocean Atlas 1994 Volume 3: Salinity}},
465      institution =  {NOAA Atlas NESDIS 3},
466      year =         1994,
467      OPTkey =       {},
468      OPTtype =      {},
469      OPTnumber =    {},
470      OPTaddress =   {U.S. Department of Commerce, Washington D.C.},
471      OPTmonth =     {},
472      OPTnote =      {},
473      OPTannote =    {}
474    }
475    
476    
477    @TechReport{Levitus94,
478      author =       {S. Levitus and T.P.Boyer},
479      title =        {{World Ocean Atlas 1994 Volume 4: Temperature}},
480      institution =  {NOAA Atlas NESDIS 4},
481      year =         1994,
482      OPTkey =       {},
483      OPTtype =      {},
484      OPTnumber =    {},
485      OPTaddress =   {U.S. Department of Commerce, Washington D.C.},
486      OPTmonth =     {},
487      OPTnote =      {},
488      OPTannote =    {}
489    }
490    
491    
492  @Article{lew-der:85,  @Article{lew-der:85,
493   author         = {J. Lewis and J. Derber},   author         = {J. Lewis and J. Derber},
# Line 348  Line 510 
510   pages          = {38 pp.},   pages          = {38 pp.},
511   address        = {Delft (NL)},   address        = {Delft (NL)},
512                    }                    }
513    
514    @ARTICLE{losc-heim:06,
515      author = {M. Losch and P. Heimbach},
516      title = {Adjoint sensitivity of an ocean general circulation model
517               to bottom topography},
518      journal = jpo,
519      year = {2006},
520      volume = {{in press}},
521      url    = {http://mitgcm.org/pdfs/Los2006a.pdf},
522    }
523    
524    
525  @Article{maro-wun:93,  @Article{maro-wun:93,
526   author         = {J. Marotzke and C. Wunsch},   author         = {J. Marotzke and C. Wunsch},
# Line 394  Line 567 
567   pages          = {5,753--5,766},   pages          = {5,753--5,766},
568                    }                    }
569    
570  @Article{mars-sha:98,  @Article{mars-eta:98,
571   author         = {J. Marshall and H. Jones and C. Hill},   author         = {J. Marshall and H. Jones and C. Hill},
572   year           = 1998,   year           = 1998,
573   title          = {Efficient ocean modeling using   title          = {Efficient ocean modeling using
# Line 402  Line 575 
575   journal        = jms,   journal        = jms,
576   volume         = {18},   volume         = {18},
577   pages          = {115--134},   pages          = {115--134},
578     url            = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
579     doi            = {10.1016/S0924-7963\%2898\%2900008-6},
580                    }                    }
581    
582  @Article{mcw:96,  @Article{mcw:96,
# Line 412  Line 587 
587   volume         = {28},   volume         = {28},
588   pages          = {215--248},   pages          = {215--248},
589                    }                    }
590    
591    %% Rew, R. K., G. P. Davis, S. Emmerson, and H. Davies
592    %% NetCDF User's Guide for C, An Interface for Data Access, Version 3, April 1997.
593    %% (Available from Unidata or in PostScript form by anonymous FTP from
594    %%   ftp://ftp.unidata.ucar.edu/pub/netcdf/guidec.ps.Z). There is also
595    %%   a hypertext version of the User's Guide available at
596    %%   http://www.unidata.ucar.edu/packages/netcdf/guidec. NetCDF User's
597    %%   Guide for Fortran 90 and NetCDF User's Guide for Fortran 77 are
598    %%   also available.
599    
600    @incollection{naum-etal:06,
601            Author = {U. Naumann and J. Utke and P. Heimbach and C. Hill and D. Ozyurt and C. Wunsch and M. Fagan and N. Tallent and M. Strout},
602            Booktitle = {European Conference on Computational Fluid Dynamics ECCOMAS CFD 2006},
603            Editor = {{P. Wesseling, E. O~nate and J. Periaux}},
604            Pages = {~},
605            Publisher = {TU Delft},
606            Title = {Adjoint code by source transformation with OpenAD/F},
607            Year = {2006}}
608    
609    @TechReport{rew:97,
610      author =       {R. K. Rew and G. P. Davis and S. Emmerson and H. Davies},
611      title =        {{NetCDF User's Guide for C, FORTRAN 77, and FORTRAN 90},
612                      An Interface for Data Access, Version 3},
613      institution =  {Unidata Program Center},
614      type =         {Report},
615      address =      {Boulder, Colorado},
616      year =         1997,
617      note =         {http://www.unidata.ucar.edu/packages/netcdf/},
618    }
619    
620    
621  @Article{res-eta:98,  @Article{res-eta:98,
622   author         = {J.M. Restrepo and G.K. Leaf and A. Griewank},   author         = {J.M. Restrepo and G.K. Leaf and A. Griewank},
623   year           = 1998,   year           = 1998,
624   title          = {Circumvening storage limitations in variational   title          = {Circumventing storage limitations in variational
625                    data assimilation studies},                    data assimilation studies},
626   journal        = {SIAM J. Sci. Comput.},   journal        = {SIAM J. Sci. Comput.},
627   volume         = {19},   volume         = {19},
# Line 446  Line 651 
651   publisher      = {Springer-Verlag},   publisher      = {Springer-Verlag},
652   address        = {Berlin (Germany)},   address        = {Berlin (Germany)},
653                    }                    }
654    
655    @article{utke-etal:08,
656            Author = {J. Utke and U. Naumann and M. Fagan and N. Tallent and M. Strout and P. Heimbach and C. Hill and D. Ozyurt and C. Wunsch},
657            Date-Modified = {2007-11-19 10:15:08 -0500},
658            Journal = {{ACM} Transactions on Mathematical Software},
659            Pages = {~},
660            Title = {OpenAD/F: A modular open source tool for automatic differentiation of Fortran codes},
661            Volume = {34(4)},
662            Year = {2008}}
663    
664    @Article{DaSilva94,
665     author         = {A. da Silva and A. C. Young and S. Levitus},
666     year           = 1994,
667     title          = {Atlas of Surface Marine Data 1994, Volume 1: Algorithms and Procedures},
668     journal        = {NOAA Atlas NESDIS},
669     volume         = {6},
670     publisher      = {U.S. Department of Commerce},
671     address        = {Washington, D.C. (USA)},
672     note           = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
673     url            = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
674                      }
675    
676  @techreport{sta-eta:97,  @techreport{stam-etal:97,
677   author         = {D. Stammer and C. Wunsch and R. Giering and   author         = {D. Stammer and C. Wunsch and R. Giering and
678                    Q. Zhang and J. Marotzke an J. Marshall and                    Q. Zhang and J. Marotzke and J. Marshall and
679                    C. Hill},                    C. Hill},
680   year           = 1997,   year           = 1997,
681   title          = {The global ocean circulation estimated from   title          = {The global ocean circulation estimated from
# Line 463  Line 689 
689   address        = {Cambridge (MA), USA},   address        = {Cambridge (MA), USA},
690                    }                    }
691    
692  @Article{sta-eta:01,  @ARTICLE{stam-etal:02,
693   author         = {D. Stammer and C. Wunsch and R. Giering and    author = {D. Stammer and C. Wunsch and R. Giering and C. Eckert and P. Heimbach and J. Marotzke and A. Adcroft and C.N. Hill and J. Marshall},
694                    C. Eckert and P. Heimbach and J. Marotzke and    title = {The global ocean circulation and transports during 1992 -- 1997, estimated from ocean observations and a general circulation model.},
695                    A. Adcroft and C. Hill and J. Marshall},    journal = jgr,
696   year           = 2001,    year = {2002a},
697   title          = {The global ocean circulation during 1992 -- 1997,    volume = {107(C9)},
698                    estimated from ocean observations and a general    pages = {3118},
699                    circulation model},    doi   = {10.1029/2001JC000888},
700   journal        = jgr,  }
701   note           = {submitted},  
702    
703    @Article{Stommel66,
704     author         = {H. Stommel},
705     year           = 1948,
706     title          = {The western intensification of wind-driven ocean currents},
707     journal        = {Trans. Am. Geophys. Union},
708     volume         = {29},
709     pages          = {206},
710                    }                    }
711    
712  @Article{tal-cou:87,  @Article{tal-cou:87,
# Line 606  Line 840 
840   volume         = {57},   volume         = {57},
841   pages          = {305--334},   pages          = {305--334},
842                    }                    }
843    
844    
845    @InCollection{hill:95,
846      author =       {Hill, C. and J. Marshall},
847      title =        {Application of a Parallel Navier-Stokes Model to
848                      Ocean Circulation in Parallel Computational Fluid
849                      Dynamics},
850      booktitle =    {Implementations and Results Using Parallel
851                      Computers},
852      pages =        {545-552},
853      publisher =    {Elsevier Science B.V.: New York},
854      year =         1995,
855      editor =       {A. Ecer, J. Periaux, N. Satofuka and S. Taylor}
856    }
857    
858    
859    @Article{marshall:97a,
860      author =       {Marshall, J. and C. Hill and L. Perelman and A. Adcroft},
861      title =        {Hydrostatic, quasi-hydrostatic, and nonhydrostatic ocean
862                     modeling},
863      journal =      jgr,
864      year =         1997,
865      volume =       102,
866      number =       {C3},
867      pages =        {5733-5752},
868      url      =     {http://mitgcm.org/pdfs/96JC02775.pdf},
869    }
870    
871    @Article{marshall:97b,
872      author =       {Marshall, J. and A. Adcroft and C. Hill and L. Perelman and C. Heisey},
873      title =        {A finite-volume, incompressible Navier Stokes model for
874                      studies of the ocean on parallel computers},
875      journal =      jgr,
876      year =         1997,
877      volume =       102,
878      number =       {C3},
879      pages =        {5753-5766},
880      url      =     {http://mitgcm.org/pdfs/96JC02776.pdf},
881    }
882    
883    @Article{adcroft:97,
884      author =       {Adcroft, A.J. and Hill, C.N. and J. Marshall},
885      title =        {Representation of topography by shaved cells in a height
886                      coordinate ocean model},
887      journal =      mwr,
888      year =         1997,
889      volume =       125,
890      pages =        {2293-2315},
891      url   =        {http://mitgcm.org/pdfs/mwr_1997.pdf},
892      doi       =    {10.1175/1520-0493\%281997\%29125<2293:ROTBSC>2.0.CO;2},
893    }
894    
895    @Article{adcroft:04a,
896      author =       {Adcroft, A. and J.-M. Campin},
897      title =        {Re-scaled height coordinates for accurate representation
898                      of free-surface flows in ocean circulation models},
899      journal =      om,
900      year =         2004,
901      volume =       7,
902      pages =        {269-284},
903      doi   =        {10.1016/j.ocemod.2003.09.003},
904    }
905    
906    @Article{adcroft:04b,
907      author =       {Adcroft, A. and J.-M. Campin and C. Hill and J. Marshall},
908      title =        {Implementation of an Atmosphere-Ocean General Circulation Model
909                      on the Expanded Spherical Cube},
910      journal =      mwr,
911      year =         2004,
912      volume =       132,
913      pages =        {2845-2863},
914      url   =        {http://mitgcm.org/pdfs/mwr_2004.pdf},
915      doi     =      {10.1175/MWR2823.1},
916    }
917    
918    @inproceedings{adcroft:04c,
919      author =       {Adcroft, A. and C. Hill and J.-M. Campin and J. Marshall
920                      and P. Heimbach},
921      title =        {Overview of the Formulation and Numerics of the {MIT}GCM},
922      booktitle =   {Proceedings of the ECMWF seminar series on Numerical Methods,
923                     Recent developments in numerical methods for atmosphere and
924                     ocean modelling},
925      year =         2004,
926      pages =        {139-149},
927      url   =        {http://mitgcm.org/pdfs/ECMWF2004-Adcroft.pdf},
928     publisher =     ecmwf
929    }
930    
931    @Article{marshall:04,
932      author =       {Marshall, J. and A. Adcroft and J.-M. Campin and C. Hill and A. White},
933      title =        {Atmosphere-Ocean Modeling Exploiting Fluid Isomorphisms},
934      journal =      mwr,
935      year =         2004,
936      volume =       132,
937      pages =        {2882-2894},
938      url   =        {http://mitgcm.org/pdfs/a_o_iso.pdf},
939      doi    =       {10.1175/MWR2835.1},
940    }
941    
942    @Article{visbeck:97,
943      author =       {Visbeck, M., J. Marshall, T. Haine, and M. Spall},
944      title =        {Specification of eddy transfer coefficients in
945                      coarse-resolution ocean circulation models},
946      journal =      jpo,
947      year =         1997,
948      volume =       27,
949      number =       3,
950      pages =        {381-402}
951    }
952    
953    @Article{shaw:98,
954      author =       {Shaw; A. Arvind, Cho, K.-C., Hill, C., Johnson, R.P.
955                      and Marshall, J.},
956      title =        {A comparison of implicitly parallel multi-threaded and
957                      data-parallel implementations of an ocean model based
958                      on the Navier-Stokes equations},
959      journal =      {J. of Parallel and Distributed Computing},
960      year =         1998,
961      volume =       48,
962      number =       1,
963      pages =        {1-51}
964    }
965    
966    @Article{mjn:99,
967      author =       {Marshall, J., Jamous, D and J. Nilsson},
968      title =        {Reconciling `thermodynamic' and `dynamic' methods of
969                      computation of water-mass transformation rates},
970      journal =      {DSR},
971      year =         1999,
972      volume =       46,
973      pages =        {545-572}
974    }
975    
976    @Article{ms:99,
977      author =       {Marshall, J and F. Schott},
978      title =        {Open ocean deep convection: observations, models and theory},
979      journal =      {Rev. Geophys.},
980      year =         1999,
981      volume =       37,
982      number =       1,
983      pages =        {1-64}
984    }
985    
986    @Article{adcroft:99,
987      author =       {Adcroft, A., Hill C. and J. Marshall},
988      title =        {A new treatment of the Coriolis terms in C-grid models
989                      at both high and low resolutions},
990      journal =      mwr,
991      year =         1999,
992      volume =       127,
993      pages =        {1928-1936},
994      url   =        {http://mitgcm.org/pdfs/mwr_1999.pdf},
995      doi   =        {10.1175/1520-0493\%281999\%29127<1928:ANTOTC>2.0.CO;2},
996    }
997    
998    @InProceedings{hill:99,
999      author =       {Chris Hill, Alistair Adcroft, Daniel Jamous and John Marshall},
1000      title =        {A Strategy for Terascale Climate Modeling},
1001      booktitle =    {In Proceedings of the Eighth ECMWF Workshop on the Use of Parallel Processors in Meteorology},
1002      year =         1999,
1003      pages = {406-425},
1004      publisher =    {World Scientific},
1005    }
1006    
1007    @Article{wardle:00,
1008      author =       {Wardle R. and Marshall J.},
1009      title =        {Representation of eddies in primitive equation models by a PV flux},
1010      journal =      jpo,
1011      year =         2000,
1012      volume =       30,
1013      number =       10,
1014      pages =        {2481-2503}
1015    }
1016    
1017    @Article{ac:02,
1018      author =       {Adcroft, A. and J.-M. Campin},
1019      title =        {Comparison of finite volume schemes and direct-space-time
1020                      methods for ocean circulation models},
1021      journal =      om,
1022      year =         2002,
1023      note =         {in preparation}
1024    }
1025    
1026    @Article{adcroft:02,
1027      author =       {Adcroft, A., et~al.},
1028      title =        {Energy conversion in discrete numerical models},
1029      journal =      om,
1030      year =         2002,
1031      note =         {in preparation}
1032    }
1033    
1034    @InCollection{arakawa:77,
1035      author =       {Arakawa, A. and Lamb, V.},
1036      title =        {Computational Design of the Basic Dynamical Processes of
1037                      the UCLA General Circulation Model},
1038      booktitle =    {Methods in Computational Physics},
1039      pages =        {174-267},
1040      publisher =    {Academic Press},
1041      year =         1977,
1042      volume =       17
1043    }
1044    
1045    @Article{miller_white:84,
1046      author =       {Miller, M. J. and White, A. A.},
1047      title =        {On the non-hydrostatic equations in pressure
1048                      and sigma coordiantes},
1049      journal =      qjrms,
1050      year =         1984,
1051      volume =       110,
1052      pages =        {515-533}
1053    }
1054    
1055    @Article{white:89,
1056      author =       {White, A. A.},
1057      title =        {An extended version of a nonhydrostatic, pressure coordiante model},
1058      journal =      qjrms,
1059      year =         1989,
1060      volume =       115,
1061      pages =        {1243-1251}
1062    }
1063    
1064    @Article{adcroft:98,
1065      author =       {Adcroft, A. and Marshall, D.},
1066      title =        {How slippery are piecewise-constant coastlines in numerical
1067                      ocean models?},
1068      journal =      {Tellus},
1069      year =         1998,
1070      volume =       50,
1071      number =       1,
1072      pages =        {95-108}
1073    }
1074    
1075    @PhdThesis{adcroft:95,
1076      author =       {Adcroft, A.},
1077      title =        {Numerical Algorithms for use in a Dynamical Model of the
1078                      Ocean},
1079      school =       {Imperial College, London},
1080      year =         1995
1081    }
1082    
1083    @Article{griffies:00,
1084      author =       {Griffies, S.,M. and Hallberg, R.,W.},
1085      title =        {Biharmonic friction with a Smagorinsky-like viscosity for
1086                      use in large-scale eddy-permitting ocean models},
1087      journal =      mwr,
1088      year =         2000,
1089      volume =       128,
1090      number =       8,
1091      pages =        {2935-2946}
1092    }
1093    
1094    @Article{wajsowicz:93,
1095      author =       {Wajsowicz, R.},
1096      title =        {A CONSISTENT FORMULATION OF THE ANISOTROPIC STRESS TENSOR
1097                      FOR USE IN MODELS OF THE LARGE-SCALE OCEAN CIRCULATION},
1098      journal =      jcp,
1099      year =         1993,
1100      volume =       105,
1101      number =       2,
1102      pages =        {333-338}
1103    }
1104    
1105    @Article{campin:02,
1106      author =       {Campin, J.-M. and A. Adcroft and C. Hill and J. Marshall},
1107      title =        {Conservation of properties in a free-surface model},
1108      journal =      om,
1109      year =         2004,
1110      volume =       6,
1111      pages =        {221-244}
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1114    @Article{dm:95,
1115      author =       {Danabasoglu, G. and McWilliams J.C.},
1116      title =        {Sensitivity of the global ocean circulation to parameterizations of mesoscale tracer transports},
1117      journal =      jclim,
1118      year =         1995,
1119      volume =       8,
1120      number =       12,
1121      pages =        {2967-2987}
1122    }
1123    
1124    @Article{ldd:97,
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1126      title =        {Sensitivity to surface forcing and boundary layer mixing in a global ocean model: Annual-mean climatology},
1127      journal =      jpo,
1128      year =         1997,
1129      volume =       27,
1130      number =       11,
1131      pages =        {2418-2447}
1132    }
1133    
1134    @Article{gkw:99,
1135      author =       {Gerdes R. and Koberle C. and Beckmann A. and Herrmann P. and Willebrand J.},
1136      title =        {Mechanisms for spreading of Mediterranean water in
1137                      coarse-resolution numerical models},
1138      journal =      jpo,
1139      year =         1999,
1140      volume =       29,
1141      number =       8,
1142      pages =        {1682-1700}
1143    }
1144    
1145    @incollection{roe:85,
1146     author         = {P.L. Roe},
1147     year           = 1985,
1148     title          = {Some contributions to the modelling of discontinuous flows},
1149     booktitle      = {Large-Scale Computations in Fluid Mechanics},
1150     series         = {Lectures in Applied Mathematics},
1151     volume         = 22,
1152     pages          = {163-193},
1153     editor         = {B.E. Engquist and S. Osher and R.C.J. Somerville},
1154     publisher      = {American Mathematical Society},
1155     address        = {Providence, RI},
1156    }
1157    
1158    @Article{trenberth90,
1159      author =       {K. M. Trenberth and J. Olson and W. G. Large},
1160      title =        {The Mean Annual Cycle in {G}lobal {O}cean Wind
1161                      Stress},
1162      journal =      jpo,
1163      year =         1990,
1164      volume =       20,
1165      pages =        {1742--1760}
1166    }
1167    
1168    @Article{molteni:03,
1169      author =       {F. Molteni},
1170      title =        {Atmospheric simulations using a {GCM} with simplified physical
1171                      parametrization, {I}: Model climatology and variability in
1172                      multidecadal experiments},
1173      journal =      climd,
1174      year =         2003,
1175      volume =       20,
1176      pages =        {175--191}
1177    }
1178    
1179    @Article{jiang99,
1180      author =       {S. Jiang and P. H. Stone and P. Malanotte-Rizzoli},
1181      title =        {An Assessment of the {G}eophysical {F}luid
1182                      {D}ynamics {L}aboratory Ocean Model with Coarse
1183                      Resolution: Annual-Mean Climatology},
1184      journal =      jgr,
1185      year =         1999,
1186      volume =       104,
1187      number =       {C11},
1188      pages =        {25,623--25,645}
1189    }
1190    
1191    @Article{szoeke02,
1192      author =       {de Szoeke, Roland A. and Roger M. Samelson},
1193      title =        {The Duality between the {B}oussinesq and
1194                      {N}on-{B}oussinesq Hydrostatic Equations of Motion},
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1197      volume =       32,
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1200    }
1201    
1202    @Article{jackett95,
1203      author =       {David R. Jackett and Trevor J. McDougall},
1204      title =        {Minimal Adjustment of Hydrographic Profiles to
1205                      Achieve Static Stability},
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1208      volume =       12,
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1210      pages =        {381--389}
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1212    
1213    @Article{mcdougall03,
1214      author =       {Trevor J. McDougall and David R. Jackett and Daniel
1215                      G. Wright and Rainer Feistel},
1216      title =        {Accurate and Computationally Efficient Algorithms
1217                      for Potential Temperature and Density of Seawater},
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1219      year =         {2003},
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1221      OPTvolume =    {},
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1225      OPTnote =      {{\textup{In press}}},
1226      OPTannote =    {}
1227    }
1228    
1229    @TechReport{fofonoff83,
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1231      title =        "Algorithms for Computation of Fundamental Properties
1232                      of Seawater",
1233      institution =  "Unesco",
1234      year =         1983,
1235      type =         "Unesco Technical Papers in Marine Science",
1236      number =       44,
1237      pages =        {53 pp.}
1238    }
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1245      YEAR        = 1998,
1246      VOLUME      = 28,
1247      PAGES       = "191-217"
1248    }
1249    
1250    @ARTICLE{sem76,
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1253                     numerical investigations of climate",
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1256      VOLUME      = 6,
1257      PAGES       = "379-389"
1258    }
1259    
1260    @ARTICLE{win00,
1261      AUTHOR      = "M. Winton",
1262      TITLE       = "A reformulated three-layer sea ice model",
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1265      VOLUME      = 17,
1266      PAGES       = "525-531"
1267    }
1268    
1269    @ARTICLE{hib79,
1270      author =       {Hibler, III, W. D.},
1271      TITLE       = "A Dynamic Thermodynamic Sea Ice Model",
1272      JOURNAL     = jpo,
1273      YEAR        = 1979,
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1275      PAGES       = "815-846"
1276    }
1277    
1278    @ARTICLE{fla92,
1279      AUTHOR      = "G. M. Flato and Hibler, III, W. D.",
1280      TITLE       = "Modeling pack ice as a cavitating fluid",
1281      JOURNAL     = jpo,
1282      YEAR        = 1992,
1283      VOLUME      = 22,
1284      PAGES       = "626-651"
1285    }
1286    
1287    @ARTICLE{hun97,
1288      AUTHOR      = "E. C. Hunke and J. K. Dukowicz",
1289      TITLE       = "An elastic-viscous-plastic model for sea ice dynamics",
1290      JOURNAL     = jpo,
1291      YEAR        = 1997,
1292      VOLUME      = 27,
1293      PAGES       = "1849-1867"
1294    }
1295    
1296    @ARTICLE{zha00,
1297      AUTHOR      = "Jinlun Zhang and Drew Rothrock",
1298      TITLE       = "Modeling Arctic Sea Ice with an Efficient Plastic Solution",
1299      JOURNAL     = jgr,
1300      YEAR        = 2000,
1301      VOLUME      = 105,
1302      PAGES       = "3325-3338"
1303    }
1304    
1305    @Article{Shapiro_70,
1306      author =       {Shapiro, R.},
1307      title =        {Smoothing, filtering, and boundary effects},
1308      journal =      {Reviews of Geophysics and Space Physics},
1309      year =         {1970},
1310      volume =       {8},
1311      number =       {2},
1312      pages =        {359--387},
1313    }
1314    
1315    @TechReport{Dutkiewicz_etal_05,
1316      author =       {S. Dutkiewicz and A. Sokolov and J. Scott and P. Stone},
1317      title =        {A Three-Dimensional Ocean-Seaice-Carbon Cycle Model and
1318                      its Coupling to a Two-Dimensional Atmospheric Model: Uses
1319                      in Climate Change Studies, Report 122},
1320      institution =  {MIT Joint Program of the Science and Policy of Global Change},
1321      year =         {2005},
1322      OPTnumber =    {122},
1323      address =      {Cambridge, MA},
1324      note =         {http://web.mit.edu/globalchange/www/MITJPSPGC\_Rpt122.pdf},
1325    }
1326    
1327    @Article{Follows_etal_05,
1328      author =       {M. Follows and T. Ito and S. Dutkiewicz},
1329      title =        {A Compact and Accurate Carbonate Chemistry Solver for Ocean
1330                      Biogeochemistry Models},
1331      journal =      {Ocean Modeling},
1332      year =         {{in press}},
1333      OPTkey =       {},
1334      OPTvolume =    {},
1335      OPTnumber =    {},
1336      OPTpages =     {},
1337    }
1338    
1339    @Article{McKinley_etal_04,
1340      author =       {G. McKinley and M. J. Follows and J. C. Marshall},
1341      title =        {Mechanisms of air-sea CO$_2$ flux variability in the
1342                      Equatorial Pacific and the North Atlantic},
1343      journal =      {Global Biogeochemical Cycles},
1344      year =         {2004},
1345      OPTkey =       {},
1346      volume =       {18},
1347      number =       {doi:10.1029/2003GB002179},
1348      OPTpages =     {},
1349    }
1350    
1351    @TechReport{Trenberth_etal_89,
1352      author =       {K. Trenberth and J. Olson and W. Large},
1353      title =        {A global wind stress climatology based on ECMWF analyses},
1354      institution =  {NCAR},
1355      year =         {1989},
1356      OPTkey =       {},
1357      OPTtype =      {},
1358      number =       {NCAR/TN-338+STR},
1359      address =      {Boulder, CO},
1360      OPTmonth =     {},
1361    }
1362    
1363    @Article{Wanninkhof_92,
1364      author =       {R. Wanninkhof},
1365      title =        {Relationship between wind speed and gas exchange over the ocean},
1366      journal =      jgr,
1367      year =         {1992},
1368      OPTkey =       {},
1369      volume =       {97},
1370      OPTnumber =    {},
1371      pages =        {7373--7382},
1372      OPTmonth =     {},
1373    }
1374    
1375    @incollection{black:77,
1376     author       = {A. K. Blackadar},
1377     year         = {1977},
1378     title        = {High Resolution Models of the Planetary Boundary Layer.},
1379     booktitle    = {Advances in Environmental Science and Engineering, Vol 1 } ,
1380     editor       = {Pfafflin and Zeigler},
1381     publisher    = {Gordon and Breach, Scientific Publishers}
1382    }
1383    
1384    @Article{chou:92,
1385     author       = {M-D. Chou},
1386     year         = {1992},
1387     title        = {A solar radiation model for use in climate studies.},
1388     journal      = jas,
1389     volume       = {49},
1390     pages        = {762-772}
1391    }
1392    
1393    @Article{chou:90,
1394     author       = {M-D. Chou},
1395     year         = {1990},
1396     title        = {Parameterizations for the absorption of solar radiation
1397                       by O$_2$ and CO$_2$ with applications to climate studies.},
1398     journal      = jclim,
1399     volume       = {3},
1400     pages        = {209-217}
1401    }
1402    
1403    @techreport{chsz:94,
1404     author       = {M.-D. Chou and M.J.Suarez},
1405     year         = {1994},
1406     title        = {An efficient thermal infrared radiation parameterization
1407    for use in general circulation models},
1408     institution  = {National Aeronautics and Space Administration},
1409     type         = {NASA Technical Memorandum},
1410     number       = {104606-Vol 3},
1411     address      = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
1412     note         = {http://www.gmao.nasa.gov/}
1413    }
1414    
1415    @Article{clarke:70,
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1419     journal      = qjrms,
1420     volume       = {96},
1421     pages        = {91-114}
1422    }
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1424    @Article{deftow:94,
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1427     title        = {NDVI-derived Land Cover Classification at Global Scales. },
1428     journal      = {Int'l J. Rem. Sens.} ,
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1435     year         = {1989},
1436     title        = {A global climatology of albedo, roughness length and stomatal
1437    resistance for atmospheric general circulation models as represented by the Simple Biosphere model (SiB).},
1438     journal      = jam,
1439     volume       = {28},
1440     pages        = {833-855}
1441    }
1442    
1443    @Article{helflab:88,
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1445     year         = {1988},
1446     title        = { Design of a non-singular level 2.5 second-order closure
1447    model for the prediction of atmospheric turbulence. },
1448     journal      = jas,
1449     volume       = {45},
1450     pages        = {113-132}
1451    }
1452    
1453    @inproceedings{helfetal:91,
1454     author       = {H. M. Helfand and M. Fox-Rabinovitz and L. Takacs and A. Molod},
1455     year         = {1991},
1456     title        = {Simulation of the planetary boundary layer and turbulence in the GLA GCM},
1457     booktitle    = {Proceedings of the AMS Ninth Conference on Numerical Weather Predicition},
1458     year         = 1991,
1459     pages        = {406-425},
1460     publisher    = {American Meteorological Society}
1461    }
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1465     year         = {1995},
1466     title        = { Climatology of the
1467    Simulated Great Plains Low-Level Jet and Its contribution to the
1468    Continental Moisture Budget of the United States. },
1469     journal      = jclim,
1470     volume       = {8},
1471     pages        = {784-806}
1472    }
1473    
1474    @Article{kondo:75,
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1478     journal      = blm,
1479     volume       = {9},
1480     pages        = {91-112}
1481    }
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1485     year         = {1991},
1486     title        = { A Simplified Treatment of SiB's Land Surface Albedo Parameterization.},
1487     institution  = {National Aeronautics and Space Administration},
1488     type         = {NASA Technical Memorandum},
1489     number       = {104538},
1490     address      = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
1491     note         = {http://www.gmao.nasa.gov/},
1492    }
1493    
1494    @Article{ks:92,
1495     author       = { Randal D. Koster and Max J. Suarez},
1496     year         = {1992},
1497     title        = { Modeling the Land Surface Boundary
1498    in Climate Models as a Composite of Independent Vegetation Stands.},
1499     journal      = jgr,
1500     volume       = {97},
1501     pages        = {2697-2715}
1502    }
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1507     title        = { A parameterization for the absorption of solar radiation
1508    in the Earth's atmosphere.  },
1509     journal      = jas,
1510     volume       = {31},
1511     pages        = {118-133}
1512    }
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1518     journal      = jpo,
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1525     year         = {1992},
1526     title        = {  Relaxed Arakawa Schubert: A parameterization of moist
1527    convection for general circulation models.},
1528     journal      = mwr,
1529     volume       = {120},
1530     pages        = {978-1002}
1531    }
1532    
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1537     booktitle    = {Workshop on Micrometeorology},
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1539     publisher    = {American Meteorological Society}
1540    }
1541    
1542    @Article{reynetal:94,
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1545     title        = {Improved global sea surface temperature analyses using optimum interpolation.},
1546     journal      = jclim,
1547     volume       = {7},
1548     pages        = {929-948}
1549    }
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1553     year         = {1987},
1554     title        = {  A computation of the stratospheric
1555    diabatic circulation using an accurate radiative transfer model},
1556     journal      = jas,
1557     volume       = {44},
1558     pages        = {859-876}
1559    }
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1561    @Article{sudm:88,
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1563     year         = {1988},
1564     title        = {  The roles of dry convection, cloud-radiation feedback processes
1565    and the influence of recent improvements in the parameterization of convection in the GLA GCM.  },
1566     journal      = mwr,
1567     volume       = {116},
1568     pages        = {2366-2387}
1569    }
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1573     year         = {1996},
1574     title        = {  Dynamical aspects of climate simulations Using the GEOS
1575    General Circulation Model},
1576     institution  = {National Aeronautics and Space Administration},
1577     type         = {NASA Technical Memorandum},
1578     number       = {104606 Volume 10},
1579     address      = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
1580     note         = {http://www.gmao.nasa.gov/},
1581    }
1582    
1583    @Article{yagkad:74,
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1585     year         = {1974},
1586     title        = {Heat and mass transfer between a rough wall and
1587    turbulent fluid flow at high Reynolds and Peclet numbers.  },
1588     journal      = jfm,
1589     volume       = {62},
1590     pages        = {601-623}
1591    }
1592    
1593    @Article{yam:77,
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1595     year         = {1977},
1596     title        = {  A numerical experiment on pollutant dispersion in a horizontally-homogenious
1597    atmospheric boundary layer.},
1598     journal      = {Atmos. Environ.},
1599     volume       = {11},
1600     pages        = {1015-1024}
1601    }
1602    
1603    @Article{zhouetal:95,
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1605     year         = {1995},
1606     title        = {Impact of Orographically Induced Gravity Wave Drag in the GLA GCM},
1607     journal      = qjrms,
1608     volume       = {122},
1609     pages        = {903-927}
1610    }
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1615                       and B. Kosovic and D. Lewellen and C-H. Moeng and P. Siebesma and
1616                       B. Stevens and D.E. Stevens and I. Sykes and M.C. Wyant},
1617     year           = 1999,
1618     title          = {An intercomparison of radiatively driven entrainment and turbulence
1619                      in a smoke cloud, as simulated by different numerical models.},
1620     journal        = qjrms,
1621     volume         = {125},
1622     pages          = {391-423}
1623                      }
1624    
1625    @Article{bm:99,
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1627     year           = 1999,
1628     title          = {The Impact of Vertical Resolution Upon GCM Simulations of Marine Stratocumulus.},
1629     journal        = {Climate Dyn.},
1630     volume         = {15},
1631     pages          = {293-318}
1632                      }
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1634    @Article{Inn:01,
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1636     year           = 2001,
1637     title          = {Organization of Tropical Convection in a GCM with Verying Vertical Resolution;
1638                      Implications for the Simulation of the Madden-Julian Oscillation.},
1639     journal        = {Climate Dyn.},
1640     volume         = {17},
1641     pages          = {777-794}
1642                      }
1643    
1644    @Article{kal:89,
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1646                       J. Stackpole and J. Tucillo and L. Umscheid and and D. Williamson},
1647     year           = 1989,
1648     title          = {Rules for Interchange of Physical Parameterizations.},
1649     journal        = bams,
1650     volume         = {70},
1651     pages          = {620-622}
1652                      }
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1654    @Article{wo:98,
1655     author         = {D. Williamson and J.G. Olsen},
1656     year           = 1998,
1657     title          = {A Comparison of Semi-Langrangian and Eulerian Polar Climate Simulations.},
1658     journal        = mwr,
1659     volume         = {126},
1660     pages          = {991-1000}
1661                      }
1662    @TechReport{MPI-std-20,
1663      author =       {{Message Passing Interface Forum}}},
1664      title =        {{MPI}: A Message-Passing Interface standard (version 2.0)},
1665      institution =  {mpi-forum.org},
1666      year =         {1998},
1667    }
1668    
1669    @Article{cam08,
1670      author =       {Jean-Michel Campin and John Marshall and David
1671                      Ferreira},
1672      title =        {Sea-Ice Ocean Coupling Using a Rescaled Vertical
1673                      Coordinate z$^\ast$},
1674      journal =      om,
1675      volume =       24,
1676      number =       {1--2},
1677      pages =        {1--14},
1678      doi =          {10.1016/j.ocemod.2008.05.005},
1679      year =         2008
1680    }
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1682    @Article{geiger98,
1683      author =       {Cathleen A. Geiger and Hibler, III, William D. and
1684                      Stephen F. Ackley},
1685      title =        {Large-Scale Sea Ice Drift and Deformation:
1686                      {C}omparison between Models and Observations in the
1687                      Western {W}eddell {S}ea during 1992},
1688      journal =      jgr,
1689      year =         1998,
1690      volume =       103,
1691      number =       {C10},
1692      pages =        {21893--21913}
1693    }
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1696      author =       {Hibler, III, William D.},
1697      title =        {The role of sea ice dynamics in modeling CO{$_2$}
1698                      increases},
1699      booktitle =    {Climate processes and climate sensitivity},
1700      pages =        {238--253},
1701      publisher =    {AGU},
1702      year =         1984,
1703      editor =       {J. E. Hansen and T. Takahashi},
1704      volume =       29,
1705      series =       {Geophysical Monograph},
1706      address =      {Washington, D.C.}
1707    }
1708    
1709    @Article{hibler87,
1710      author =       {Hibler, III, William D. and Kirk Bryan},
1711      title =        {A Diagnostic Ice-Ocean Model},
1712      journal =      jpo,
1713      year =         1987,
1714      volume =       17,
1715      number =       7,
1716      pages =        {987--1015}
1717    }
1718    
1719    @InCollection{hibler95,
1720      author =       {Hibler, III, William D. and Chi F. Ip},
1721      title =        {The effect of sea ice rheology on {A}rcitc buoy
1722                      drift},
1723      booktitle =    {Ice Mechanics},
1724      pages =        {255--264},
1725      publisher =    {Am. Soc. of Mech. Eng.},
1726      year =         1995,
1727      editor =       {John P. Dempsey and Y. D. S. Rajapakse},
1728      volume =       204,
1729      series =       {AMD},
1730      address =      {New York}
1731    }
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1733    @Article{hibler97,
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1781      title =        {{NASA} Supercomputer Improves Prospects for Ocean
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1800      adsnote =      {Provided by the Smithsonian/NASA Astrophysics Data
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1802    }
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1806      title =        {On Modelling the Seasonal Thermodynamic Cycle of Sea
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1827      title =        {Modeling Global Sea Ice with a Thickness and
1828                      Enthalpy Distribution Model in Generalized
1829                      Curvilinear Coordinates},
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1836    

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