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# 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{jgr     = {J.~Geophys.~Res.}}  @string{climd   = {Clim.~Dynamics}}
6  @string{ijrs    = {Int.~J.~Remote Sensing}}  @string{cch     = {Clim.\ Change}}
7    @string{cup     = {Cambridge University Press}}
8    @string{dao     = {Dyn.~Atmos.~Oceans}}
9    @string{dkrz    = {Deutsches Klimarechenzentrum (DKRZ)}}
10    @string{dnmi    = {The Norwegian Meteorological Institute (DNMI)}}
11    @string{dsr     = {Deep Sea Res.}}
12    @string{ecmwf   = {ECMWF}}
13    @string{eos     = {Eos~Trans.\ AGU}}
14    @string{esa     = {European Space Agency (ESA)}}
15    @string{esapub  = {ESA Publications Division, ESTEC, Noordwijk (NL)}}
16    @string{estec   = {European Space Research and Technology Centre (ESTEC)}}
17    @string{gaos    = {Global Atmos.~Ocean System}}
18    @string{grl     = {Geophys.~Res.~Lett.}}
19    @string{ieee    = {IEEE Trans.~Geosci. Remote Sensing}}
20    @string{ifremer = {IFREMER/CERSAT}}
21    @string{igarss  = {IEEE Press, Piscataway, N.J., USA}}
22    @string{jam     = {J.~Appl.~Meteor.}}
23    @string{jaot    = {J.~Atmos.~Ocean.~Technol.}}
24  @string{jas     = {J.~Atmos.~Sci.}}  @string{jas     = {J.~Atmos.~Sci.}}
 @string{jpo     = {J.~Phys.~Oceanogr.}}  
25  @string{jclim   = {J.~Clim.}}  @string{jclim   = {J.~Clim.}}
26  @string{ieee    = {IEEE Trans.~Geosci. Remote Sensing}}  @string{jcp     = {J.~Comput.~Phys.}}
27  @string{jfm     = {J.~Fluid Mech.}}  @string{jfm     = {J.~Fluid Mech.}}
28  @string{jaot    = {J.~Atmos.~Ocean.~Technol.}}  @string{jgr     = {J.~Geophys.~Res.}}
29    @string{ijrs    = {Int.~J.~Remote Sensing}}
30  @string{jms     = {J.~Mar.~Sys.}}  @string{jms     = {J.~Mar.~Sys.}}
31  @string{gaos    = {Global Atmos.~Ocean System}}  @string{jpo     = {J.~Phys.~Oceanogr.}}
32  @string{grl     = {Geophys.~Res.~Lett.}}  @string{mpi     = {MPI f\"ur Meteorologie}}
 @string{dsr     = {Deep Sea Res.}}  
 @string{dao     = {Dyn.~Atmos.~Oceans}}  
33  @string{mwr     = {Mon.~Wea.~Rev.}}  @string{mwr     = {Mon.~Wea.~Rev.}}
34    @string{om      = {Ocean Modelling}}
35    @string{ptrsl   = {{Phil.~Trans.~R.~Soc.~Lond.}}}
36  @string{qjrms   = {{Q.~J.~R.~Meteorol.~Soc.}}}  @string{qjrms   = {{Q.~J.~R.~Meteorol.~Soc.}}}
37    @string{siscicom= {SIAM J.\ Sci.\ Comput.}}
38  @string{tel     = {Tellus}}  @string{tel     = {Tellus}}
 @string{cup     = {Cambridge University Press}}  
 @string{esapub  = {ESA Publications Division, ESTEC, Noordwijk (NL)}}  
 @string{ifremer = {IFREMER/CERSAT}}  
 @string{igarss  = {IEEE Press, Piscataway, N.J., USA}}  
 @string{dnmi    = {The Norwegian Meteorological Institute (DNMI)}}  
 @string{dkrz    = {Deutsches Klimarechenzentrum (DKRZ)}}  
 @string{mpi     = {MPI f\"ur Meteorologie}}  
 @string{ecmwf   = {ECMWF}}  
 @string{estec   = {European Space Research and Technology Centre  
                         (ESTEC)}}  
 @string{esa     = {European Space Agency (ESA)}}  
39    
40  @Article{bis-eta:92,  @Article{bis-eta:92,
41   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 39  Line 47 
47   volume         = {3},   volume         = {3},
48   pages          = {625--638},   pages          = {625--638},
49                    }                    }
50    
51  @incollection{bis:94,  @incollection{bis:94,
52   author         = {C.H. Bishof},   author         = {C.H. Bishof},
53   year           = 1994,   year           = 1994,
# Line 52  Line 60 
60   publisher      = {Kluwer},   publisher      = {Kluwer},
61   address        = {Dordrecht, NL},   address        = {Dordrecht, NL},
62                    }                    }
63    
64  @techreport{bis-eta:94,  @techreport{bis-eta:94,
65   author         = {C. Bishof and A. Carle and P. Khademi and   author         = {C. Bishof and A. Carle and P. Khademi and
66                    A. Maurer},                    A. Maurer},
# Line 63  Line 71 
71                    Computer Science Division},                    Computer Science Division},
72   type           = {Argonne Preprint},   type           = {Argonne Preprint},
73   number         = {ANL-MCS-P981-1194},   number         = {ANL-MCS-P981-1194},
74   address        = {ANL; 9700 South Cass Ave.;   address        = {ANL; 9700 South Cass Ave.;
75                    Argonne (ILL), 90439; USA},                    Argonne (ILL), 90439; USA},
76   note           = {http://www.mcs.anl.gov/autodiff/},   note           = {http://www.mcs.anl.gov/autodiff/},
77                    }                    }
78    
79    @Article{bouillon13,
80      author =       {Sylvain Bouillon and Thierry Fichefet and Vincent
81                      Legat and Gurvan Madec},
82      title =        {The Elastic-Viscous-Plastic Method Revisited},
83      journal =      om,
84      volume =       71,
85      number =       0,
86      pages =        {2--12},
87      year =         2013,
88      note =         {Arctic Ocean},
89      issn =         {1463-5003},
90      doi =          {10.1016/j.ocemod.2013.05.013},
91      url =          {http://dx.doi.org/10.1016/j.ocemod.2013.05.013},
92    }
93    @ARTICLE{bryan:84,
94      author = {Kirk Bryan},
95      title = {Accelerating the convergence to equilibrium of Ocean-Climate Models},
96      journal = jpo,
97      year = {1984},
98      volume = {14},
99      number = {4},
100      pages = {666-673},
101    }
102    
103    @ARTICLE{bugi-hill:06,
104      author = {V. Bugnion and C. Hill},
105      title = {Equilibration mechanisms in an adjoint ocean general
106               circulation model},
107      journal = {Ocean Dynamics},
108      year = {2006},
109      volume = {56},
110      number = {1},
111      pages = {51-61},
112      doi   = {10.1007/s10236-005-0052-z},
113    }
114    
115  @techreport{bis-roh:97,  @techreport{bis-roh:97,
116   author         = {C. Bishof and L. Roh},   author         = {C. Bishof and L. Roh},
117   year           = 1997,   year           = 1997,
# Line 77  Line 121 
121                    Computer Science Division},                    Computer Science Division},
122   type           = {Argonne Preprint},   type           = {Argonne Preprint},
123   number         = {ANL-MCS-P626-1196},   number         = {ANL-MCS-P626-1196},
124   address        = {ANL; 9700 South Cass Ave.;   address        = {ANL; 9700 South Cass Ave.;
125                    Argonne (ILL), 90439; USA},                    Argonne (ILL), 90439; USA},
126   note           = {http://www.mcs.anl.gov/autodiff/},   note           = {http://www.mcs.anl.gov/autodiff/},
127                    }                    }
128    
129    @Article{castro-morales14,
130      author =       {Karel Castro-Morales and Frank Kauker and Martin
131                      Losch and Stefan Hendricks and Kathrin Riemann-Campe
132                      and R{\"u}diger Gerdes},
133      title =        {Sensitivity of Simulated {A}rctic Sea Ice to
134                      Realistic Ice Thickness Distributions and Snow
135                      Parameterizations},
136      journal =      jgr,
137      issn =         {2169-9291},
138      year =         2014,
139      volume =       119,
140      number =       1,
141      pages =        {559--571},
142      url =          {http://dx.doi.org/10.1002/2013JC009342},
143      doi =          {10.1002/2013JC009342},
144    }
145    
146  @Article{cou-tal:87,  @Article{cou-tal:87,
147   author         = {P. Courtier and O. Talagrand},   author         = {P. Courtier and O. Talagrand},
148   year           = 1987,   year           = 1987,
149   title          = {Variational assimilation of meteorological   title          = {Variational assimilation of meteorological
150                    observations with the adjoint vorticity equation.                    observations with the adjoint vorticity equation.
151                    II: Numerical results},                    II: Numerical results},
152   journal        = qjrms,   journal        = qjrms,
153   volume         = {113},   volume         = {113},
154   pages          = {1329--1347},   pages          = {1329--1347},
155                    }                    }
156    
157  @Article{cou-tal:90,  @Article{cou-tal:90,
158   author         = {P. Courtier and O. Talagrand},   author         = {P. Courtier and O. Talagrand},
159   year           = 1990,   year           = 1990,
# Line 103  Line 164 
164   volume         = {42A},   volume         = {42A},
165   pages          = {531--549},   pages          = {531--549},
166                    }                    }
167    
168  @Article{cou-eta:94,  @Article{cou-eta:94,
169   author         = {P. Courtier and J.-N. Th{\'e}paut and   author         = {P. Courtier and J.-N. Th{\'e}paut and
170                    A. Hollingsworth},                    A. Hollingsworth},
# Line 114  Line 175 
175   volume         = {120},   volume         = {120},
176   pages          = {1367--1387},   pages          = {1367--1387},
177                    }                    }
178    
179    @ARTICLE{durr:91,
180      author = {Dale R. Durran},
181      title = {The Third-Order Adams-Bashforth Method: An Attractive Alternative
182               to Leapfrog Time Differencing},
183      journal = mwr,
184      year = {1991},
185      volume = {119},
186      pages  = {702-720},
187    }
188    
189    
190    @ARTICLE{dutk-etal:06,
191      author = {S. Dutkiewicz and M.J. Follows and P. Heimbach and J. Marshall},
192      title = {Controls on ocean productivity and air-sea carbon flux:
193               An adjoint model sensitivity study},
194      journal = grl,
195      year = {2006},
196      volume = {33},
197      pages  = {L02603},
198      doi    = {10.1029/2005GL024987},
199    }
200    
201  @Article{err:97,  @Article{err:97,
202   author         = {R.M. Errico},   author         = {R.M. Errico},
203   year           = 1997,   year           = 1997,
# Line 123  Line 206 
206   volume         = {78},   volume         = {78},
207   pages          = {2577--2591},   pages          = {2577--2591},
208                    }                    }
209    
210  @Article{far-moo:92,  @Article{far-moo:92,
211   author         = {B.F. Farrell and A.M. Moore},   author         = {B.F. Farrell and A.M. Moore},
212   year           = {1992},   year           = {1992},
# Line 133  Line 216 
216   volume         = {22},   volume         = {22},
217   pages          = {338--349},   pages          = {338--349},
218                    }                    }
219    
220  @Article{far-ioa:96a,  @Article{far-ioa:96a,
221   author         = {B.F. Farrell and P. Ioannou},   author         = {B.F. Farrell and P. Ioannou},
222   year           = {1996a},   year           = {1996a},
# Line 143  Line 226 
226   volume         = {53},   volume         = {53},
227   pages          = {2025--2040},   pages          = {2025--2040},
228                    }                    }
229    
230  @Article{far-ioa:96b,  @Article{far-ioa:96b,
231   author         = {B.F. Farrell and P. Ioannou},   author         = {B.F. Farrell and P. Ioannou},
232   year           = {1996b},   year           = {1996b},
# Line 153  Line 236 
236   volume         = {53},   volume         = {53},
237   pages          = {2041--2053},   pages          = {2041--2053},
238                    }                    }
239    
240  @techreport{fau-pap:98,  @techreport{fau-pap:98,
241   author         = {C. Faure and Y. Papegay},   author         = {C. Faure and Y. Papegay},
242   year           = 1998,   year           = 1998,
# Line 166  Line 249 
249                    06902 Sophia Antipolis Cedex; France},                    06902 Sophia Antipolis Cedex; France},
250   note           = {http://www-sop.inria.fr/safir/SAM/Odyssee/odyssee.html},   note           = {http://www-sop.inria.fr/safir/SAM/Odyssee/odyssee.html},
251                    }                    }
252    
253  @Article{fau:00,  @Article{fau:00,
254   author         = {C. Faure},   author         = {C. Faure},
255   year           = {2000},   year           = {2000},
# Line 174  Line 257 
257   journal        = {Optimisation Methods and Software},   journal        = {Optimisation Methods and Software},
258   note           = {in press},   note           = {in press},
259                    }                    }
260    
261    @Article{fer-eta:05,
262     author         = {D. Ferreira and J. Marshall and P. Heimbach},
263     year           = 2005,
264     title          = {Estimating Eddy Stresses by Fitting Dynamics to Observations
265                       using a Residual-Mean Ocean Circulation Model and Its Adjoint},
266     journal        = jpo,
267     volume         = {35},
268     pages          = {1891--1910},
269                      }
270    
271    @Article{gas-eta:90,
272     author         = {P. Gaspar and Y. Gr\'egoris and J.-M. Lefevre},
273     year           = 1990,
274     title          = {A Simple Eddy Kinetic Energy Model for Simulations of the
275                       Oceanic Vertical Mixing: Tests at Station Papa and Long-Term
276                       Upper Ocean Study Site},
277     journal        = jgr,
278     volume         = {95 (C9)},
279     pages          = {16,179--16,193},
280                      }
281    
282  @Article{gen-mcw:90,  @Article{gen-mcw:90,
283   author         = {P.R. Gent and J.C. McWilliams},   author         = {P. R. Gent and J. C. McWilliams},
284   year           = 1990,   year           = 1990,
285   title          = {Isopycnal mixing in ocean circulation models},   title          = {Isopycnal mixing in ocean circulation models},
286   journal        = jpo,   journal        = jpo,
287   volume         = {20},   volume         = {20},
288   pages          = {150--155},   pages          = {150--155},
289                    }                    }
290    
291  @Article{gen-eta:95,  @Article{gen-eta:95,
292   author         = {P.R. Gent and J. Willebrand and T.J. McDougall   author         = {P. R. Gent and J. Willebrand and T. J. McDougall and J. C. McWilliams},
                   and J.C. McWilliams},  
293   year           = 1995,   year           = 1995,
294   title          = {Parameterizing eddy-induced tracer transports in   title          = {Parameterizing eddy-induced tracer transports in ocean circulation models},
                   ocean circulation models},  
295   journal        = jpo,   journal        = jpo,
296   volume         = {25},   volume         = {25},
297   pages          = {463--474},   pages          = {463--474},
298                    }                    }
299    
300  @Article{gie-kam:98,  @Article{gie-kam:98,
301   author         = {R. Giering and T. Kaminski},   author         = {R. Giering and T. Kaminski},
302   year           = 1998,   year           = 1998,
# Line 207  Line 309 
309  @techreport{gie:99,  @techreport{gie:99,
310   author         = {R. Giering},   author         = {R. Giering},
311   year           = 1999,   year           = 1999,
312   title          = {Tangent linear and Adjoint Model Compiler.   title          = {Tangent linear and Adjoint Model Compiler.
313                    Users manual 1.4 (TAMC Version 5.2)},                    Users manual 1.4 (TAMC Version 5.2)},
314   institution    = {Massachusetts Institute of Technology},   institution    = {Massachusetts Institute of Technology},
315   type           = {Report},   type           = {Report},
# Line 216  Line 318 
318                    02139; USA},                    02139; USA},
319   note           = {http://puddle.mit.edu/$\sim$ralf/tamc/tamc.html},   note           = {http://puddle.mit.edu/$\sim$ralf/tamc/tamc.html},
320                    }                    }
321    
322  @incollection{gie:00,  @incollection{gie:00,
323   author         = {R. Giering},   author         = {R. Giering},
324   editor         = {P. Kasibhatla and M. Heimann and P. Rayner and   editor         = {P. Kasibhatla and M. Heimann and P. Rayner and
# Line 240  Line 342 
342   volume         = {45},   volume         = {45},
343   pages          = {407--435},   pages          = {407--435},
344                    }                    }
345    
346  @book{gil-eta:81,  @book{gil-eta:81,
347   author         = {P.E. Gill and W. Murray and M.H. Wright},   author         = {P.E. Gill and W. Murray and M.H. Wright},
348   title          = {Practical optimization},   title          = {Practical optimization},
349   year           = 1981,   year           = 1981,
350   publisher      = {Academic Press},   publisher      = {Academic Press},
351   address        = {London},   address        = {London},
352   pages          = {401 pp.},   pages          = {401 pp.},
353                    }                    }
354                                                                      
355    @incollection{gri:89,
356     author         = {A. Griewank},
357     year           = 1989,
358     title          = {On automatic differentiation},
359     booktitle      = {Mathematical Programming: Recent Developments and
360                      Applications},
361     pages          = {83--108},
362     editor         = {M. Iri and K. Tanabe},
363     publisher      = {Kluwer},
364     address        = {Dordrecht, NL},
365                      }
366    
367    @Article{gri:92,
368      author =       {A.~Griewank},
369      title =        {Achieving logarithmic growth of temporal and spatial
370      complexity in reverse {A}utomatic {D}ifferentiation},
371      journal       = {Optimization Methods and Software},
372      year          = {1992},
373      volume        = {1},
374      pages         = {35--54}
375    }
376    
377  @book{gri:00,  @book{gri:00,
378   author         = {A. Griewank},   author         = {A. Griewank},
379   title          = {Evaluating Derivatives. Principles and Techniques   title          = {Evaluating Derivatives. Principles and Techniques
# Line 258  Line 382 
382   series         = {Frontiers in Applied Mathematics},   series         = {Frontiers in Applied Mathematics},
383   volume         = {19},   volume         = {19},
384   publisher      = {SIAM},   publisher      = {SIAM},
385   address        = {Philadelphia},   address        = {Philadelphia},
386   pages          = {369 pp.},   pages          = {369 pp.},
387                    }                    }
388                                                                      
389  @Article{hal-eta:82,  @Article{hal-eta:82,
390   author         = {M.C.G. Hall and D.G. Caccuci and M.E. Schlesinger},   author         = {M.C.G. Hall and D.G. Caccuci and M.E. Schlesinger},
391   year           = 1982,   year           = 1982,
# Line 271  Line 395 
395   volume         = {39},   volume         = {39},
396   pages          = {2038--3050},   pages          = {2038--3050},
397                    }                    }
398    
399    @Article{Haney,
400      author =       {R.L. Haney},
401      title =        {Surface thermal boundary conditions for ocean
402                      circulation models},
403      journal =      jpo,
404      year =         1971,
405      volume =       1,
406      pages =        {241--248}
407    }
408    
409    @Article{held-suar:94,
410     author         = {I.M. Held and M.J. Suarez},
411     year           = {1994},
412     title          = {A proposal for the intercomparison of the dynamical cores of atmospheric general circulation models},
413     journal        = {Bulletin of the American Meteorological Society},
414     volume         = {75(10)},
415     pages          = {1825-1830}
416    }
417    
418  @Article{hil-eta:01,  @Article{hil-eta:01,
419   author         = {C. Hill and M. Follows and V. Bugnion and   author         = {C. Hill and M. Follows and V. Bugnion and
420                    J. Marshall},                    J. Marshall},
421   year           = {2001},   year           = {2002},
422   title          = {Spatial and Temporal Impacts of ocean general   title          = {Spatial and Temporal Impacts of ocean general
423                    circulation on carbon sequestration},                    circulation on carbon sequestration},
424   journal        = {journal ???},   journal        = {Global Biogeochemical Cycles},
425   note           = {submitted},   note           = {submitted},
426                    }                    }
427    
428    @ARTICLE{hib80,
429      author =       {Hibler, III, William D.},
430      TITLE       = "Modeling a Variable Thickness Sea Ice Cover",
431      JOURNAL     = mwr,
432      YEAR        = 1980,
433      VOLUME      = 1,
434      PAGES       = "1943-1973"
435    }
436    
437    @Article{Holland75,
438     author         = {W.R. Holland and L. B. Lin},
439     year           = {1975a},
440     title          = {On the origin of mesoscale eddies and their contribution
441                       to the general circulation of the ocean. I. A preliminary
442                       numerical experiment},
443     journal        = jpo,
444     volume         = {5},
445     pages          = {642-657}
446                      }
447    
448    @Article{hol-lin:75b,
449     author         = {W.R. Holland and L. B. Lin},
450     year           = {1975b},
451     title          = {On the origin of mesoscale eddies and their contribution
452                       to the general circulation of the ocean. II. A parameter
453                       study},
454     journal        = jpo,
455     volume         = {5},
456     pages          = {658-669}
457                      }
458    
459    @Article{jam-oze:86,
460     author         = {B.M. Jamart and J. Ozer},
461     year           = {1986},
462     title          = {Numerical boundary layers and spurious residual flows},
463     journal        = jgr,
464     volume         = {91},
465     pages          = {10,621-10,631}
466                      }
467    
468  @book{kas-eta:00,  @book{kas-eta:00,
469   author         = {P. Kasibhatla and M. Heimann and P. Rayner and   author         = {P. Kasibhatla and M. Heimann and P. Rayner and
470                    N. Mahowald and R.G. Prinn and D.E. Hartley},                    N. Mahowald and R.G. Prinn and D.E. Hartley},
# Line 297  Line 480 
480  @Article{lar-eta:94,  @Article{lar-eta:94,
481   author         = {W.G. Large and J.C. McWilliams and S.C. Doney},   author         = {W.G. Large and J.C. McWilliams and S.C. Doney},
482   year           = 1994,   year           = 1994,
483   title          = {Oceanic vertical mixing: A review and a model   title          = {Oceanic vertical mixing: A review and a model with nonlocal boundary layer parameterization},
                   with nonlocal boundary layer parameterization},  
484   journal        = {Rev.~Geophys.},   journal        = {Rev.~Geophys.},
485   volume         = {32},   volume         = {32},
486   pages          = {363--403},   pages          = {363--403},
487                    }                    }
488    
489  @Article{lar-eta:97,  @Article{lar-eta:97,
490   author         = {W.G. Large and G. Danabasoglu and S.C. Doney   author         = {W. G. Large and G. Danabasoglu and S. C. Doney
491                    and J.C. McWilliams},                    and J. C. McWilliams},
492   year           = 1997,   year           = 1997,
493   title          = {Sensitivity to surface forcing and boundary layer   title          = {Sensitivity to surface forcing and boundary layer
494                    mixing in a global ocean model: annual-mean                    mixing in a global ocean model: Annual-mean climatology},
                   climatology},  
495   journal        = jpo,   journal        = jpo,
496   volume         = {27},   volume         = {27},
497     number         = 11,
498   pages          = {2418--2447},   pages          = {2418--2447},
499                    }                    }
500    
501  @Article{led-tal:86,  @Article{led-tal:86,
502   author         = {F.-X. {Le Dimet} and O. Talagrand},   author         = {F.-X. {Le Dimet} and O. Talagrand},
503   year           = 1986,   year           = 1986,
# Line 326  Line 508 
508   volume         = {38A},   volume         = {38A},
509   pages          = {97--110},   pages          = {97--110},
510                    }                    }
511    
512    @TechReport{lev:94a,
513      author =       {S. Levitus and T.P.Boyer},
514      title =        {{World Ocean Atlas 1994 Volume 3: Salinity}},
515      institution =  {NOAA Atlas NESDIS 3},
516      year =         1994,
517      OPTkey =       {},
518      OPTtype =      {},
519      OPTnumber =    {},
520      OPTaddress =   {U.S. Department of Commerce, Washington D.C.},
521      OPTmonth =     {},
522      OPTnote =      {},
523      OPTannote =    {}
524    }
525    
526    
527    @TechReport{Levitus94,
528      author =       {S. Levitus and T.P.Boyer},
529      title =        {{World Ocean Atlas 1994 Volume 4: Temperature}},
530      institution =  {NOAA Atlas NESDIS 4},
531      year =         1994,
532      OPTkey =       {},
533      OPTtype =      {},
534      OPTnumber =    {},
535      OPTaddress =   {U.S. Department of Commerce, Washington D.C.},
536      OPTmonth =     {},
537      OPTnote =      {},
538      OPTannote =    {}
539    }
540    
541    
542  @Article{lew-der:85,  @Article{lew-der:85,
543   author         = {J. Lewis and J. Derber},   author         = {J. Lewis and J. Derber},
544   year           = {1985},   year           = {1985},
# Line 336  Line 548 
548   volume         = {37A},   volume         = {37A},
549   pages          = {309--322},   pages          = {309--322},
550                    }                    }
551    
552  @techreport{lon:88,  @techreport{lon:88,
553   author         = {R.B. Long},   author         = {R.B. Long},
554   year           = 1988,   year           = 1988,
# Line 348  Line 560 
560   pages          = {38 pp.},   pages          = {38 pp.},
561   address        = {Delft (NL)},   address        = {Delft (NL)},
562                    }                    }
563    
564    @ARTICLE{losc-heim:06,
565      author =       {Martin Losch and Patrick Heimbach},
566      title =        {Adjoint Sensitivity of an Ocean General Circulation
567                      Model to Bottom Topography},
568      journal =      jpo,
569      year =         2007,
570      volume =       37,
571      doi =          {10.1175/JPO3017.1},
572      number =       2,
573      pages =        {377--393},
574      url    = {http://mitgcm.org/pdfs/Los2006a.pdf},
575    }
576    
577    
578  @Article{maro-wun:93,  @Article{maro-wun:93,
579   author         = {J. Marotzke and C. Wunsch},   author         = {J. Marotzke and C. Wunsch},
580   year           = 1993,   year           = 1993,
# Line 359  Line 585 
585   volume         = {98, C11},   volume         = {98, C11},
586   pages          = {20,149--20,167},   pages          = {20,149--20,167},
587                    }                    }
588    
589  @Article{maro-eta:99,  @Article{maro-eta:99,
590   author         = {J. Marotzke and R. Giering and K.Q. Zhang and   author         = {J. Marotzke and R. Giering and K.Q. Zhang and
591                    D. Stammer and C. Hill and T. Lee},                    D. Stammer and C. Hill and T. Lee},
592   year           = 1999,   year           = 1999,
593   title          = {Construction of the adjoint MIT ocean general   title          = {Construction of the adjoint MIT ocean general
# Line 371  Line 597 
597   volume         = {104, C12},   volume         = {104, C12},
598   pages          = {29,529--29,547},   pages          = {29,529--29,547},
599                    }                    }
600    
601  @Article{mars-eta:97a,  @Article{mars-eta:97a,
602   author         = {J. Marshall and C. Hill and L. Perelman and   author         = {J. Marshall and C. Hill and L. Perelman and
603                    A. Adcroft},                    A. Adcroft},
# Line 382  Line 608 
608   volume         = {102, C3},   volume         = {102, C3},
609   pages          = {5,733--5,752},   pages          = {5,733--5,752},
610                    }                    }
611    
612  @Article{mars-eta:97b,  @Article{mars-eta:97b,
613   author         = {J. Marshall and A. Adcroft and C. Hill and   author         = {J. Marshall and A. Adcroft and C. Hill and
614                    L. Perelman and C. Heisey},                    L. Perelman and C. Heisey},
615   year           = {1997b},   year           = {1997b},
616   title          = {Hydrostatic, quasi-hydrostatic and   title          = {Hydrostatic, quasi-hydrostatic and
# Line 393  Line 619 
619   volume         = {102, C3},   volume         = {102, C3},
620   pages          = {5,753--5,766},   pages          = {5,753--5,766},
621                    }                    }
622    
623  @Article{mars-sha:98,  @Article{mars-eta:98,
624   author         = {J. Marshall and H. Jones and C. Hill},   author         = {J. Marshall and H. Jones and C. Hill},
625   year           = 1998,   year           = 1998,
626   title          = {Efficient ocean modeling using   title          = {Efficient ocean modeling using
# Line 402  Line 628 
628   journal        = jms,   journal        = jms,
629   volume         = {18},   volume         = {18},
630   pages          = {115--134},   pages          = {115--134},
631     url            = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
632     doi            = {10.1016/S0924-7963\%2898\%2900008-6},
633                    }                    }
634    
635  @Article{mcw:96,  @Article{mol:09,
636   author         = {J. McWilliams},   author         = {Andrea Molod},
637   year           = 1996,   year           = 2009,
638   title          = {Modeling the oceanic general circulation},   title          = {Running {GCM} physics and dynamics on different grids:
639   journal        = arfm,                     algorithm and tests},
640   volume         = {28},   journal        = tel,
641   pages          = {215--248},   volume         = {61A},
642     pages          = {381--393},
643                    }                    }
644    
645    %% Rew, R. K., G. P. Davis, S. Emmerson, and H. Davies
646    %% NetCDF User's Guide for C, An Interface for Data Access, Version 3, April 1997.
647    %% (Available from Unidata or in PostScript form by anonymous FTP from
648    %%   ftp://ftp.unidata.ucar.edu/pub/netcdf/guidec.ps.Z). There is also
649    %%   a hypertext version of the User's Guide available at
650    %%   http://www.unidata.ucar.edu/packages/netcdf/guidec. NetCDF User's
651    %%   Guide for Fortran 90 and NetCDF User's Guide for Fortran 77 are
652    %%   also available.
653    
654    @incollection{naum-etal:06,
655            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},
656            Booktitle = {European Conference on Computational Fluid Dynamics ECCOMAS CFD 2006},
657            Editor = {{P. Wesseling, E. O~nate and J. Periaux}},
658            Pages = {~},
659            Publisher = {TU Delft},
660            Title = {Adjoint code by source transformation with OpenAD/F},
661            Year = {2006}}
662    
663    @Article{orl:76,
664     author         = {I. Orlanski},
665     year           = 1976,
666     title          = {A simple boundary condition for unbounded hyperbolic flows},
667     journal        = jcp,
668     volume         = {21},
669     pages          = {251--269},
670                    }
671    
672    @Article{pal-rom:97,
673     author         = {T. Paluszkiewicz and R.D. Romea},
674     year           = 1997,
675     title          = {A one-dimensional model for the parameterization
676                      of deep convection in the ocean},
677     journal        = dao,
678     volume         = {26},
679     pages          = {95--130},
680                      }
681    
682    @TechReport{rew:97,
683      author =       {R. K. Rew and G. P. Davis and S. Emmerson and H. Davies},
684      title =        {{NetCDF User's Guide for C, FORTRAN 77, and FORTRAN 90},
685                      An Interface for Data Access, Version 3},
686      institution =  {Unidata Program Center},
687      type =         {Report},
688      address =      {Boulder, Colorado},
689      year =         1997,
690      note =         {http://www.unidata.ucar.edu/packages/netcdf/},
691    }
692    
693    
694  @Article{res-eta:98,  @Article{res-eta:98,
695   author         = {J.M. Restrepo and G.K. Leaf and A. Griewank},   author         = {J.M. Restrepo and G.K. Leaf and A. Griewank},
696   year           = 1998,   year           = 1998,
697   title          = {Circumvening storage limitations in variational   title          = {Circumventing storage limitations in variational
698                    data assimilation studies},                    data assimilation studies},
699   journal        = {SIAM J. Sci. Comput.},   journal        = {SIAM J. Sci. Comput.},
700   volume         = {19},   volume         = {19},
701   pages          = {1586--1605},   pages          = {1586--1605},
702                    }                    }
703    
704  @Article{ros-eta:93,  @Article{ros-eta:93,
705   author         = {N. Rostaing and S. Dalmas and A. Galligo},   author         = {N. Rostaing and S. Dalmas and A. Galligo},
706   year           = 1993,   year           = 1993,
# Line 431  Line 709 
709   volume         = {45A},   volume         = {45A},
710   pages          = {558--568},   pages          = {558--568},
711                    }                    }
712    
713  @incollection{she-and:89,  @incollection{she-and:89,
714   author         = {J. Sheinbaum and D.L.T. Anderson},   author         = {J. Sheinbaum and D.L.T. Anderson},
715   year           = 1989,   year           = 1989,
716   title          = {Assimilation of XBT data using a variational   title          = {Assimilation of XBT data using a variational
717                    technique},                    technique},
718   booktitle      = {Oceanic circulation models:   booktitle      = {Oceanic circulation models:
719                    Combining data and dynamics},                    Combining data and dynamics},
# Line 446  Line 724 
724   publisher      = {Springer-Verlag},   publisher      = {Springer-Verlag},
725   address        = {Berlin (Germany)},   address        = {Berlin (Germany)},
726                    }                    }
727    
728  @techreport{sta-eta:97,  @article{utke-etal:08,
729      Author =       {J. Utke and U. Naumann and M. Fagan and N. Tallent
730                      and M. Strout and P. Heimbach and C. Hill and
731                      D. Ozyurt and C. Wunsch},
732      Date-Modified ={2007-11-19 10:15:08 -0500},
733      Journal =      {{ACM} Transactions on Mathematical Software},
734      Pages =        {~},
735      Title =        {OpenAD/F: A modular open source tool for automatic
736                      differentiation of Fortran codes},
737      Volume =       {34(4)},
738      Year =         2008
739    }
740    
741    @Article{DaSilva94,
742     author         = {A. da Silva and A. C. Young and S. Levitus},
743     year           = 1994,
744     title          = {Atlas of Surface Marine Data 1994, Volume 1: Algorithms and Procedures},
745     journal        = {NOAA Atlas NESDIS},
746     volume         = {6},
747     publisher      = {U.S. Department of Commerce},
748     address        = {Washington, D.C. (USA)},
749     note           = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
750     url            = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
751                      }
752    
753    @techreport{stam-etal:97,
754   author         = {D. Stammer and C. Wunsch and R. Giering and   author         = {D. Stammer and C. Wunsch and R. Giering and
755                    Q. Zhang and J. Marotzke an J. Marshall and                    Q. Zhang and J. Marotzke and J. Marshall and
756                    C. Hill},                    C. Hill},
757   year           = 1997,   year           = 1997,
758   title          = {The global ocean circulation estimated from   title          = {The global ocean circulation estimated from
759                    TOPEX/POSEIDON altimetry and a general circulation                    TOPEX/POSEIDON altimetry and a general circulation
760                    model},                    model},
761   institution    = {Center for Global Change Science, Massachusetts   institution    = {Center for Global Change Science, Massachusetts
# Line 462  Line 765 
765   pages          = {40 pp.},   pages          = {40 pp.},
766   address        = {Cambridge (MA), USA},   address        = {Cambridge (MA), USA},
767                    }                    }
768    
769  @Article{sta-eta:01,  @article{stam-etal:02,
770   author         = {D. Stammer and C. Wunsch and R. Giering and    author =       {D. Stammer and C. Wunsch and R. Giering and
771                    C. Eckert and P. Heimbach and J. Marotzke and                    C. Eckert and P. Heimbach and J. Marotzke and
772                    A. Adcroft and C. Hill and J. Marshall},                    A. Adcroft and C.N. Hill and J. Marshall},
773   year           = 2001,    title =        {The global ocean circulation and transports during
774   title          = {The global ocean circulation during 1992 -- 1997,                    1992 -- 1997, estimated from ocean observations and
775                    estimated from ocean observations and a general                    a general circulation model.},
776                    circulation model},    journal =      jgr,
777   journal        = jgr,    year =         {2002a},
778   note           = {submitted},    volume =       {107(C9)},
779      pages =        {3118},
780      doi =          {10.1029/2001JC000888},
781    }
782    
783    
784    @Article{Stommel66,
785     author         = {H. Stommel},
786     year           = 1948,
787     title          = {The western intensification of wind-driven ocean currents},
788     journal        = {Trans. Am. Geophys. Union},
789     volume         = {29},
790     pages          = {206},
791                    }                    }
792    
793  @Article{tal-cou:87,  @Article{tal-cou:87,
794   author         = {O. Talagrand and P. Courtier},   author         = {O. Talagrand and P. Courtier},
795   year           = 1987,   year           = 1987,
796   title          = {Variational assimilation of meteorological   title          = {Variational assimilation of meteorological
797                    observations with the adjoint vorticity equation.                    observations with the adjoint vorticity equation.
798                    I: Theory},                    I: Theory},
799   journal        = qjrms,   journal        = qjrms,
800   volume         = {113},   volume         = {113},
801   pages          = {1311--1328},   pages          = {1311--1328},
802                    }                    }
803    
804  @Article{tal:97,  @Article{tal:97,
805   author         = {O. Talagrand},   author         = {O. Talagrand},
806   year           = 1997,   year           = 1997,
# Line 494  Line 809 
809   volume         = {75},   volume         = {75},
810   pages          = {191--209},   pages          = {191--209},
811                    }                    }
812    
813  @book{tar:87,  @book{tar:87,
814   author         = {A. Tarantola},   author         = {A. Tarantola},
815   title          = {Inverse Problem Theory: Methods for data fitting   title          = {Inverse Problem Theory: Methods for data fitting
816                    and model parameter estimation},                    and model parameter estimation},
817   year           = 1987,   year           = 1987,
818   publisher      = {Elsevier},   publisher      = {Elsevier},
819   address        = {Amsterdam},   address        = {Amsterdam},
820   pages          = {629 pp.},   pages          = {629 pp.},
821                    }                    }
822                                                                      
823  @techreport{tha:87,  @techreport{tha:87,
824   author         = {W.C. Thacker},   author         = {W.C. Thacker},
825   year           = 1987,   year           = 1987,
# Line 516  Line 831 
831   pages          = {64 pp.},   pages          = {64 pp.},
832   address        = {Geesthacht (D)},   address        = {Geesthacht (D)},
833                    }                    }
834    
835  @Article{tha-lon:88,  @Article{tha-lon:88,
836   author         = {W.C. Thacker and R.B. Long},   author         = {W.C. Thacker and R.B. Long},
837   year           = 1988,   year           = 1988,
# Line 525  Line 840 
840   volume         = {93, C2},   volume         = {93, C2},
841   pages          = {1,227--1,240},   pages          = {1,227--1,240},
842                    }                    }
843    
844  @Article{tha:88,  @Article{tha:88,
845   author         = {W.C. Thacker},   author         = {W.C. Thacker},
846   year           = 1988,   year           = 1988,
# Line 535  Line 850 
850   volume         = {93},   volume         = {93},
851   pages          = {10,655--10,665},   pages          = {10,655--10,665},
852                    }                    }
853    
854  @Article{tha:89,  @Article{tha:89,
855   author         = {W.C. Thacker},   author         = {W.C. Thacker},
856   year           = 1989,   year           = 1989,
# Line 545  Line 860 
860   volume         = {94, C5},   volume         = {94, C5},
861   pages          = {6,177--6,196},   pages          = {6,177--6,196},
862                    }                    }
863    
864  @Article{tha-rag:94,  @Article{tha-rag:94,
865   author         = {W.C. Thacker and R. Raghunath},   author         = {W.C. Thacker and R. Raghunath},
866   year           = 1994,   year           = 1994,
# Line 555  Line 870 
870   volume         = {99, C5},   volume         = {99, C5},
871   pages          = {10,131--10,141},   pages          = {10,131--10,141},
872                    }                    }
873    
874  @Article{tzi-tha:89,  @Article{tzi-tha:89,
875   author         = {E. Tziperman and W.C. Thacker},   author         = {E. Tziperman and W.C. Thacker},
876   year           = {1989},   year           = {1989},
# Line 565  Line 880 
880   volume         = {19},   volume         = {19},
881   pages          = {1471--1485},   pages          = {1471--1485},
882                    }                    }
883    
884  @Article{tzi-eta:92a,  @Article{tzi-eta:92a,
885   author         = {E. Tziperman and W.C. Thacker and R.B. Long and   author         = {E. Tziperman and W.C. Thacker and R.B. Long and
886                    S. Hwang},                    S. Hwang},
# Line 576  Line 891 
891   volume         = {22},   volume         = {22},
892   pages          = {1434--1457},   pages          = {1434--1457},
893                    }                    }
894    
895  @Article{tzi-eta:92b,  @Article{tzi-eta:92b,
896   author         = {E. Tziperman and W.C. Thacker and R.B. Long and   author         = {E. Tziperman and W.C. Thacker and R.B. Long and
897                    S. Hwang and S.R. Rintoul},                    S. Hwang and S.R. Rintoul},
# Line 587  Line 902 
902   volume         = {22},   volume         = {22},
903   pages          = {1458--1485},   pages          = {1458--1485},
904                    }                    }
905    
906  @book{wun:96,  @book{wun:96,
907   author         = {C. Wunsch},   author         = {C. Wunsch},
908   title          = {The ocean circulation inverse problem},   title          = {The ocean circulation inverse problem},
909   year           = 1996,   year           = 1996,
910   publisher      = cup,   publisher      = cup,
911   address        = {Cambridge (UK)},   address        = {Cambridge (UK)},
912   pages          = {442 pp.},   pages          = {442 pp.},
913                    }                    }
914                                                                      
915  @Article{zha-mar:99,  @Article{zha-mar:99,
916   author         = {K.Q. Zhang and J. Marotzke},   author         = {K.Q. Zhang and J. Marotzke},
917   year           = 1999,   year           = 1999,
# Line 623  Line 938 
938    
939    
940  @Article{marshall:97a,  @Article{marshall:97a,
941    author =       {Marshall, J., C. Hill, L. Perelman, and A. Adcroft},    author =       {Marshall, J. and C. Hill and L. Perelman and A. Adcroft},
942    title =        {Hydrostatic, quasi-hydrostatic, and nonhydrostatic ocean    title =        {Hydrostatic, quasi-hydrostatic, and nonhydrostatic ocean
943                   modeling},                   modeling},
944    journal =      {JGR},    journal =      jgr,
945    year =         1997,    year =         1997,
946    volume =       102,    volume =       102,
947    number =       {C3},    number =       {C3},
948    pages =        {5733-5752}    pages =        {5733-5752},
949      url      =     {http://mitgcm.org/pdfs/96JC02775.pdf},
950  }  }
951    
952  @Article{marshall:97b,  @Article{marshall:97b,
953    author =       {Marshall, J., A. Adcroft, C. Hill, L. Perelman, and C. Heise},    author =       {Marshall, J. and A. Adcroft and C. Hill and L. Perelman and C. Heisey},
954    title =        {A finite-volume, incompressible Navier Stokes model for    title =        {A finite-volume, incompressible Navier Stokes model for
955                    studies of the ocean on parallel computers},                    studies of the ocean on parallel computers},
956    journal =      {JGR},    journal =      jgr,
957    year =         1997,    year =         1997,
958    volume =       102,    volume =       102,
959    number =       {C3},    number =       {C3},
960    pages =        {5753-5766}    pages =        {5753-5766},
961      url      =     {http://mitgcm.org/pdfs/96JC02776.pdf},
962  }  }
963    
964  @Article{adcroft:97,  @Article{adcroft:97,
965    author =       {Adcroft, A.J., Hill, C.N. and J. Marshall},    author =       {Adcroft, A.J. and Hill, C.N. and J. Marshall},
966    title =        {Representation of topography by shaved cells in a height    title =        {Representation of topography by shaved cells in a height
967                    coordinate ocean model},                    coordinate ocean model},
968    journal =      {MWR},    journal =      mwr,
969    year =         1997,    year =         1997,
970    volume =       125,    volume =       125,
971    pages =        {2293-2315}    pages =        {2293-2315},
972      url   =        {http://mitgcm.org/pdfs/mwr_1997.pdf},
973      doi       =    {10.1175/1520-0493\%281997\%29125<2293:ROTBSC>2.0.CO;2},
974    }
975    
976    @Article{adcroft:04a,
977      author =       {Adcroft, A. and J.-M. Campin},
978      title =        {Re-scaled height coordinates for accurate representation
979                      of free-surface flows in ocean circulation models},
980      journal =      om,
981      year =         2004,
982      volume =       7,
983      pages =        {269-284},
984      doi   =        {10.1016/j.ocemod.2003.09.003},
985    }
986    
987    @Article{adcroft:04b,
988      author =       {Adcroft, A. and J.-M. Campin and C. Hill and J. Marshall},
989      title =        {Implementation of an Atmosphere-Ocean General Circulation Model
990                      on the Expanded Spherical Cube},
991      journal =      mwr,
992      year =         2004,
993      volume =       132,
994      pages =        {2845-2863},
995      url   =        {http://mitgcm.org/pdfs/mwr_2004.pdf},
996      doi     =      {10.1175/MWR2823.1},
997    }
998    
999    @inproceedings{adcroft:04c,
1000      author =       {Adcroft, A. and C. Hill and J.-M. Campin and J. Marshall
1001                      and P. Heimbach},
1002      title =        {Overview of the Formulation and Numerics of the {MIT}GCM},
1003      booktitle =   {Proceedings of the ECMWF seminar series on Numerical Methods,
1004                     Recent developments in numerical methods for atmosphere and
1005                     ocean modelling},
1006      year =         2004,
1007      pages =        {139-149},
1008      url   =        {http://mitgcm.org/pdfs/ECMWF2004-Adcroft.pdf},
1009     publisher =     ecmwf
1010    }
1011    
1012    @Article{marshall:04,
1013      author =       {Marshall, J. and A. Adcroft and J.-M. Campin and C. Hill and A. White},
1014      title =        {Atmosphere-Ocean Modeling Exploiting Fluid Isomorphisms},
1015      journal =      mwr,
1016      year =         2004,
1017      volume =       132,
1018      pages =        {2882-2894},
1019      url   =        {http://mitgcm.org/pdfs/a_o_iso.pdf},
1020      doi    =       {10.1175/MWR2835.1},
1021  }  }
1022    
1023  @Article{visbeck:97,  @Article{visbeck:97,
1024    author =       {Visbeck, M., J. Marshall, T. Haine, and M. Spall},    author =       {M. Visbeck and J. Marshall and T. Haine and M. Spall},
1025    title =        {Specification of eddy transfer coefficients in    title =        {Specification of eddy transfer coefficients in coarse-resolution ocean circulation models},
1026                    coarse-resolution ocean circulation models},    journal =      jpo,
   journal =      {JPO},  
1027    year =         1997,    year =         1997,
1028    volume =       27,    volume =       27,
1029    number =       3,    number =       3,
# Line 678  Line 1043 
1043    pages =        {1-51}    pages =        {1-51}
1044  }  }
1045    
 @Article{marshall:98,  
   author =       {Marshall, J., Jones, H. and C. Hill},  
   title =        {Efficient ocean modeling using non-hydrostatic algorithms},  
   journal =      {JMR},  
   year =         1998,  
   volume =       18,  
   pages =        {115-134}  
 }  
   
1046  @Article{mjn:99,  @Article{mjn:99,
1047    author =       {Marshall, J., Jamous, D and J. Nilsson},    author =       {Marshall, J., Jamous, D and J. Nilsson},
1048    title =        {Reconciling `thermodynamic' and `dynamic' methods of    title =        {Reconciling `thermodynamic' and `dynamic' methods of
# Line 711  Line 1067 
1067    author =       {Adcroft, A., Hill C. and J. Marshall},    author =       {Adcroft, A., Hill C. and J. Marshall},
1068    title =        {A new treatment of the Coriolis terms in C-grid models    title =        {A new treatment of the Coriolis terms in C-grid models
1069                    at both high and low resolutions},                    at both high and low resolutions},
1070    journal =      {MWR},    journal =      mwr,
1071    year =         1999,    year =         1999,
1072    volume =       127,    volume =       127,
1073    pages =        {1928-1936}    pages =        {1928-1936},
1074      url   =        {http://mitgcm.org/pdfs/mwr_1999.pdf},
1075      doi   =        {10.1175/1520-0493\%281999\%29127<1928:ANTOTC>2.0.CO;2},
1076  }  }
1077    
1078  @InProceedings{hill:99,  @InProceedings{hill:99,
1079    author =       {Chris Hill, Alistair Adcroft, Daniel Jamous and John Marshall},    author =       {Chris Hill, Alistair Adcroft, Daniel Jamous and John Marshall},
1080    title =        {A Strategy for Terascale Climate Modeling},    title =        {A Strategy for Terascale Climate Modeling},
1081    booktitle =    {In Proceedings of the Eight ECMWF Workshop on the Use of Parallel Processors in Meteorology},    booktitle =    {In Proceedings of the Eighth ECMWF Workshop on the Use of Parallel Processors in Meteorology},
1082    year =         1999    year =         1999,
1083      pages = {406-425},
1084      publisher =    {World Scientific},
1085  }  }
1086    
1087  @Article{wardle:00,  @Article{wardle:00,
1088    author =       {Wardle R. and Marshall J.},    author =       {Wardle R. and Marshall J.},
1089    title =        {Representation of eddies in primitive equation models by a PV flux},    title =        {Representation of eddies in primitive equation models by a PV flux},
1090    journal =      {JPO},    journal =      jpo,
1091    year =         2000,    year =         2000,
1092    volume =       30,    volume =       30,
1093    number =       10,    number =       10,
# Line 738  Line 1098 
1098    author =       {Adcroft, A. and J.-M. Campin},    author =       {Adcroft, A. and J.-M. Campin},
1099    title =        {Comparison of finite volume schemes and direct-space-time    title =        {Comparison of finite volume schemes and direct-space-time
1100                    methods for ocean circulation models},                    methods for ocean circulation models},
1101    journal =      {OM},    journal =      om,
1102    year =         2002,    year =         2002,
1103    note =         {in preparation}    note =         {in preparation}
1104  }  }
1105    
1106  @Article{adcroft:02,  @Article{adcroft:02,
1107    author =       {Adcroft et al.},    author =       {Adcroft, A., et~al.},
1108    title =        {Energy conversion in discrete numerical models},    title =        {Energy conversion in discrete numerical models},
1109    journal =      {OM},    journal =      om,
1110    year =         2002,    year =         2002,
1111    note =         {in preparation}    note =         {in preparation}
1112  }  }
# Line 762  Line 1122 
1122    volume =       17    volume =       17
1123  }  }
1124    
1125    @Article{miller_white:84,
1126      author =       {Miller, M. J. and White, A. A.},
1127      title =        {On the non-hydrostatic equations in pressure
1128                      and sigma coordiantes},
1129      journal =      qjrms,
1130      year =         1984,
1131      volume =       110,
1132      pages =        {515-533}
1133    }
1134    
1135    @Article{white:89,
1136      author =       {White, A. A.},
1137      title =        {An extended version of a nonhydrostatic, pressure coordiante model},
1138      journal =      qjrms,
1139      year =         1989,
1140      volume =       115,
1141      pages =        {1243-1251}
1142    }
1143    
1144  @Article{adcroft:98,  @Article{adcroft:98,
1145    author =       {Adcroft, A. and Marshall, D.},    author =       {Adcroft, A. and Marshall, D.},
1146    title =        {How slippery are piecewise-constant coastlines in numerical    title =        {How slippery are piecewise-constant coastlines in numerical
# Line 783  Line 1162 
1162    
1163  @Article{griffies:00,  @Article{griffies:00,
1164    author =       {Griffies, S.,M. and Hallberg, R.,W.},    author =       {Griffies, S.,M. and Hallberg, R.,W.},
1165    title =        {Biharmonic friction with a Smagorinsky-like viscosity for    title =        {Biharmonic friction with a {Smagorinsky}-like viscosity for
1166                    use in large-scale eddy-permitting ocean models},                    use in large-scale eddy-permitting ocean models},
1167    journal =      {MWR},    journal =      mwr,
1168    year =         2000,    year =         2000,
1169    volume =       128,    volume =       128,
1170    number =       8,    number =       8,
# Line 796  Line 1175 
1175    author =       {Wajsowicz, R.},    author =       {Wajsowicz, R.},
1176    title =        {A CONSISTENT FORMULATION OF THE ANISOTROPIC STRESS TENSOR    title =        {A CONSISTENT FORMULATION OF THE ANISOTROPIC STRESS TENSOR
1177                    FOR USE IN MODELS OF THE LARGE-SCALE OCEAN CIRCULATION},                    FOR USE IN MODELS OF THE LARGE-SCALE OCEAN CIRCULATION},
1178    journal =      {JCP},    journal =      jcp,
1179    year =         1993,    year =         1993,
1180    volume =       105,    volume =       105,
1181    number =       2,    number =       2,
# Line 804  Line 1183 
1183  }  }
1184    
1185  @Article{campin:02,  @Article{campin:02,
1186    author =       {Campin et al.},    author =       {Campin, J.-M. and A. Adcroft and C. Hill and J. Marshall},
1187    title =        {Conservation of properties in a free-surface model},    title =        {Conservation of properties in a free-surface model},
1188    journal =      {OM},    journal =      om,
1189    year =         2002,    year =         2004,
1190    note =         {in preparation}    volume =       6,
1191      pages =        {221-244}
1192    }
1193    
1194    @Article{Cox87,
1195      author =       {M. D. Cox},
1196      title =        {An isopycnal diffusion in a z-coordinate ocean model},
1197      journal =      {Ocean modelling},
1198      year =         1987,
1199      volume =       74,
1200      pages =        {1-5 (Unpublished manuscript)}
1201    }
1202    
1203    @Article{gretal:98,
1204      author =       {S. M. Griffies and A. Gnanadesikan and R. C. Pacanowski and V. Larichev and J.  K. Dukowicz and R. D. Smith},
1205      title =        {Isoneutral diffusion in a z-coordinate ocean model},
1206      journal =      jpo,
1207      year =         1998,
1208      volume =       28,
1209      pages =        {805-830}
1210    }
1211    
1212    @ARTICLE{gr:98,
1213      author =       {S. M. Griffies},
1214      title =        {The {Gent-McWilliams} Skew Flux},
1215      journal =      jpo,
1216      year =         1998,
1217      volume =       28,
1218      pages =        {831-841}
1219    }
1220    
1221    
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1227      volume =       5,
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1229      pages =        {211-226},
1230      doi   =        {10.1007/BF00210006}
1231    }
1232    
1233    @Article{dm:95,
1234      author =       {G. Danabasoglu and J. C. McWilliams},
1235      title =        {Sensitivity of the global ocean circulation to parameterizations of mesoscale tracer transports},
1236      journal =      jclim,
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1240      pages =        {2967-2987}
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1242    
1243    @Article{gkw:99,
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1245      title =        {Mechanisms for spreading of Mediterranean water in coarse-resolution numerical models},
1246      journal =      jpo,
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1248      volume =       29,
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1251    }
1252    
1253    @incollection{roe:85,
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1255     year           = 1985,
1256     title          = {Some contributions to the modelling of discontinuous flows},
1257     booktitle      = {Large-Scale Computations in Fluid Mechanics},
1258     series         = {Lectures in Applied Mathematics},
1259     volume         = 22,
1260     pages          = {163-193},
1261     editor         = {B.E. Engquist and S. Osher and R.C.J. Somerville},
1262     publisher      = {American Mathematical Society},
1263     address        = {Providence, RI},
1264    }
1265    
1266    @Article{trenberth90,
1267      author =       {K. M. Trenberth and J. Olson and W. G. Large},
1268      title =        {The Mean Annual Cycle in {G}lobal {O}cean Wind
1269                      Stress},
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1278      title =        {Atmospheric simulations using a {GCM} with simplified physical
1279                      parametrization, {I}: Model climatology and variability in
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1288      author =       {S. Jiang and P. H. Stone and P. Malanotte-Rizzoli},
1289      title =        {An Assessment of the {G}eophysical {F}luid
1290                      {D}ynamics {L}aboratory Ocean Model with Coarse
1291                      Resolution: Annual-Mean Climatology},
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1294      volume =       104,
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1299    @Article{szoeke02,
1300      author =       {de Szoeke, Roland A. and Roger M. Samelson},
1301      title =        {The Duality between the {B}oussinesq and
1302                      {N}on-{B}oussinesq Hydrostatic Equations of Motion},
1303      journal =      jpo,
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1312      title =        {Minimal Adjustment of Hydrographic Profiles to
1313                      Achieve Static Stability},
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1321    @Article{mcdougall03,
1322      author =       {Trevor J. McDougall and David R. Jackett and Daniel
1323                      G. Wright and Rainer Feistel},
1324      title =        {Accurate and Computationally Efficient Algorithms
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1333      OPTnote =      {{\textup{In press}}},
1334      OPTannote =    {}
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1337    @TechReport{fofonoff83,
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1339      title =        "Algorithms for Computation of Fundamental Properties
1340                      of Seawater",
1341      institution =  "Unesco",
1342      year =         1983,
1343      type =         "Unesco Technical Papers in Marine Science",
1344      number =       44,
1345      pages =        {53 pp.}
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1350                     and D. A. Rothrock",
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1352      JOURNAL     = jpo,
1353      YEAR        = 1998,
1354      VOLUME      = 28,
1355      PAGES       = "191-217"
1356    }
1357    
1358    @ARTICLE{sem76,
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1360      TITLE       = "A model for the thermodynamic growth of sea ice in
1361                     numerical investigations of climate",
1362      JOURNAL     = jpo,
1363      YEAR        = 1976,
1364      VOLUME      = 6,
1365      PAGES       = "379-389"
1366    }
1367    
1368    @ARTICLE{win00,
1369      AUTHOR      = "M. Winton",
1370      TITLE       = "A reformulated three-layer sea ice model",
1371      JOURNAL     = jaot,
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1373      VOLUME      = 17,
1374      PAGES       = "525-531"
1375    }
1376    
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1378      author =       {Hibler, III, W. D.},
1379      TITLE       = "A Dynamic Thermodynamic Sea Ice Model",
1380      JOURNAL     = jpo,
1381      YEAR        = 1979,
1382      VOLUME      = 9,
1383      PAGES       = "815-846"
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1385    
1386    @ARTICLE{fla92,
1387      AUTHOR      = "G. M. Flato and Hibler, III, W. D.",
1388      TITLE       = "Modeling pack ice as a cavitating fluid",
1389      JOURNAL     = jpo,
1390      YEAR        = 1992,
1391      VOLUME      = 22,
1392      PAGES       = "626-651"
1393    }
1394    
1395    @ARTICLE{hun97,
1396      AUTHOR      = "E. C. Hunke and J. K. Dukowicz",
1397      TITLE       = "An elastic-viscous-plastic model for sea ice dynamics",
1398      JOURNAL     = jpo,
1399      YEAR        = 1997,
1400      VOLUME      = 27,
1401      PAGES       = "1849--1867"
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1406      title =        {Viscous-Plastic Sea Ice Dynamics with the {EVP}
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1411      pages =        {18--38},
1412      doi =          {10.1006/jcph.2001.6710}
1413    }
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1417      TITLE       = "Modeling Arctic Sea Ice with an Efficient Plastic Solution",
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1419      YEAR        = 2000,
1420      VOLUME      = 105,
1421      PAGES       = "3325--3338"
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1436      title =        {A Three-Dimensional Ocean-Seaice-Carbon Cycle Model and
1437                      its Coupling to a Two-Dimensional Atmospheric Model: Uses
1438                      in Climate Change Studies, Report 122},
1439      institution =  {MIT Joint Program of the Science and Policy of Global Change},
1440      year =         {2005},
1441      OPTnumber =    {122},
1442      address =      {Cambridge, MA},
1443      note =         {http://web.mit.edu/globalchange/www/MITJPSPGC\_Rpt122.pdf},
1444    }
1445    
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1447      author =       {M. Follows and T. Ito and S. Dutkiewicz},
1448      title =        {A Compact and Accurate Carbonate Chemistry Solver for Ocean
1449                      Biogeochemistry Models},
1450      journal =      {Ocean Modeling},
1451      year =         {{in press}},
1452      OPTkey =       {},
1453      OPTvolume =    {},
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1460      title =        {Mechanisms of air-sea CO$_2$ flux variability in the
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1462      journal =      {Global Biogeochemical Cycles},
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1464      OPTkey =       {},
1465      volume =       {18},
1466      number =       {doi:10.1029/2003GB002179},
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1468    }
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1472      title =        {A global wind stress climatology based on ECMWF analyses},
1473      institution =  {NCAR},
1474      year =         {1989},
1475      OPTkey =       {},
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1477      number =       {NCAR/TN-338+STR},
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1480    }
1481    
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1483      author =       {R. Wanninkhof},
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1486      year =         {1992},
1487      OPTkey =       {},
1488      volume =       {97},
1489      OPTnumber =    {},
1490      pages =        {7373--7382},
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1500     publisher    = {Gordon and Breach, Scientific Publishers}
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1529     number       = {104606-Vol 3},
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1578     pages        = {406-425},
1579     publisher    = {American Meteorological Society}
1580    }
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1585     title        = { Climatology of the
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1598     volume       = {9},
1599     pages        = {91-112}
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1606     institution  = {National Aeronautics and Space Administration},
1607     type         = {NASA Technical Memorandum},
1608     number       = {104538},
1609     address      = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
1610     note         = {http://www.gmao.nasa.gov/},
1611    }
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1694    General Circulation Model},
1695     institution  = {National Aeronautics and Space Administration},
1696     type         = {NASA Technical Memorandum},
1697     number       = {104606 Volume 10},
1698     address      = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
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1792      title =        {Sea-Ice Ocean Coupling Using a Rescaled Vertical
1793                      Coordinate z$^\ast$},
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1877      title =        {A Growth Model for Black Ice, Snow Ican and Snow
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1887      title =        {A Global Ocean-Atmosphere Climate Model with Seasonal
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1901      title =        {{NASA} Supercomputer Improves Prospects for Ocean
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1926      title =        {On Modelling the Seasonal Thermodynamic Cycle of Sea
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1947      title =        {Modeling Global Sea Ice with a Thickness and
1948                      Enthalpy Distribution Model in Generalized
1949                      Curvilinear Coordinates},
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2042      author =       {Madlen Kimmritz and Sergey Danilov and Martin Losch},
2043      title =        {On the Convergence of the Modified
2044                      Elastic-Viscous-Plastic Method of Solving for
2045                      Sea-Ice Dynamics},
2046      journal =      jcp,
2047      year =         2015,
2048      volume =       296,
2049      pages =        {90--100},
2050      doi =          {10.1016/j.jcp.2015.04.051}}
2051    
2052    @Article{kimmritz16,
2053      author =       {Madlen Kimmritz and Sergey Danilov and Martin Losch},
2054      title =        {The Adaptive {EVP} Method for Solving the Sea Ice Momentum Equation},
2055      journal =      om,
2056      year =         2016,
2057      url =          {http://mitgcm.org/~mlosch/adaptiveEVP_accepted.pdf},
2058      OPTvolume =    {},
2059      OPTnumber =    {},
2060      OPTpages =     {},
2061      OPTmonth =     {},
2062      OPTnote =      {},
2063      OPTannote =    {},
2064      OPTdoi =       {}}
2065    
2066    @Article{klymaklegg10,
2067      author =       {Klymak, Jody M. and Sonya M. Legg},
2068      title =        {A simple mixing scheme for models that resolve
2069                      breaking internal waves},
2070      journal =      om,
2071      year =         2010,
2072      volume =       33,
2073      pages =        {224--234},
2074      doi =          {10.1016/j.ocemod.2010.02.005}
2075    }
2076    
2077    @Article{losch08,
2078      author =       {Martin Losch},
2079      title =        {Modeling Ice Shelf Cavities in a z-Coordinate Ocean
2080                      General Circulation Model},
2081      journal =      jgr,
2082      year =         2008,
2083      volume =       113,
2084      number =       {C08043},
2085      doi =          {10.1029/2007JC004368}
2086    }
2087    
2088    @Article{losch10:_mitsim,
2089      author =       {Losch, Martin and Menemenlis, Dimitris and Campin,
2090                      Jean-Michel and Heimbach, Patrick and Hill, Chris},
2091      title =        {On the formulation of sea-ice models. {P}art 1:
2092                      Effects of different solver implementations and
2093                      parameterizations},
2094      journal =      om,
2095      year =         2010,
2096      volume =       33,
2097      number =       {1--2},
2098      pages =        {129--144},
2099      doi =          {10.1016/j.ocemod.2009.12.008}
2100    }
2101    
2102    @Article{losch14:_jfnk,
2103      author =       {Martin Losch and Annika Fuchs and
2104                      Jean-Fran{\c{c}}ois Lemieux and Anna Vanselow},
2105      title =        {A Parallel {J}Acobian-Free {N}ewton-{K}rylov Solver
2106                      for a Coupled Sea Ice-Ocean Model },
2107      journal =      jcp,
2108      volume =       {257},
2109      number =       {A},
2110      pages =        {901--910},
2111      year =         {2014},
2112      doi =          {10.1016/j.jcp.2013.09.026}
2113    }
2114    
2115    @Article{lemieux09,
2116      author =       {Jean-Fran{\c{c}}ois Lemieux and Bruno Tremblay},
2117      title =        {Numerical Convergence of Viscous-Plastic Sea Ice
2118                      Models},
2119      journal =      jgr,
2120      year =         2009,
2121      volume =       114,
2122      number =       {C05009},
2123      doi =          {10.1029/2008JC005017}}
2124    
2125    @Article{lemieux10,
2126      author =       {Jean-Fran{\c{c}}ois Lemieux and Bruno Tremblay and Jan
2127                      Sedl{\'a}{\v{c}}ek and Paul Tupper and Stephen
2128                      Thomas and David Huard and Jean-Pierre Auclair},
2129      title =        {Improving the Numerical Convergence of
2130                      Viscous-Plastic Sea Ice Models with the
2131                      {J}acobian-Free {N}ewton-{K}rylov Method},
2132      journal =      jcp,
2133      year =         2010,
2134      volume =       229,
2135      pages =        {2840--2852},
2136      doi =          {10.1016/j.jcp.2009.12.011c}}
2137    
2138    @Article{lemieux12,
2139      author =       {Jean-Fran{\c{c}}ois Lemieux and Dana Knoll and Bruno
2140                      Tremblay and David M. Holland and Martin Losch},
2141      title =        {A Comparison of the {J}acobian-free
2142                      {N}ewton-{K}rylov Method and the {EVP} Model for
2143                      Solving the Sea Ice Momentum Equation with a
2144                      Viscous-Plastic Formulation: a Serial Algorithm
2145                      Study},
2146      journal =      jcp,
2147      year =         2012,
2148      volume =       231,
2149      number =       17,
2150      pages =        {5926--5944},
2151      doi =          {10.1016/j.jcp.2012.05.024}}
2152    
2153    @article{knoll04:_jfnk,
2154      Author =       {D.A. Knoll and D.E. Keyes},
2155      Title =        {{J}acobian-free {N}ewton-{K}rylov Methods: a Survey
2156                      of Approaches and Applications},
2157      Journal =      jcp,
2158      Year =         2004,
2159      Volume =       193,
2160      Pages =        {357--397},
2161      doi =          {10.1016/j.jcp.2003.08.010},
2162    }
2163    
2164    @Article{saad93:_fgmres,
2165      author =       {Y. Saad},
2166      title =        {A Flexible Inner-Outer Preconditioned {GMRES}
2167                      Method},
2168      journal =      siscicom,
2169      year =         1993,
2170      volume =       14,
2171      number =       2,
2172      pages =        {461--469}}
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2177        and Y. Gao and N. Gruber and M.W. Hecht and A. Ishida and F. Joos and K. Lindsay
2178        and G. Madec and E. Maier-Reimer and J.C. Marshall and R.J. Matear and P. Monfray
2179        and A. Mouchet and G.-K. Plattner and J. sarmiento and R. Schlitzer and R. Slater
2180        and I.J. Totterdell and M.-F. Weirig and Y. Yammanaka and A. Yool},
2181     year           = 2002,
2182     title          = {Evaluation of ocean model ventilation with CFC-11:
2183                       comparison of 13 global ocean models},
2184     journal        = om,
2185     volume         = {4},          number= {},             month   = {},
2186     pages          = {89-120}
2187                    }
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2189    @Article{marsh06,
2190     author         = {Marshall, John and Emily Shuckburgh and Helen Jones and Chris Hill},
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2192     title          = {Estimates and Implications of Surface Eddy Diffusivity
2193                       in the Southern Ocean Derived from Tracer Transport},
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2195     volume         = {36},          number= {},             month   = {},
2196     pages          = {1806-1821}
2197                    }
2198    
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2200      author =       {Hoe, James C. and Chris Hill and Alistair Adcroft},
2201      title =        {A Personal Supercomputer for Climate Research},
2202      booktitle =    {In Proceedings of the ACM/IEEE Super-Computing Confrence},
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2204      pages = {10.1109/SC.1999},
2205      publisher =    {IEEE},
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2220      author        = {Moum, J.N.},
2221      title         = {Energy-containing scales of turbulence in the ocean thermocline},
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2223      year          = 1996,
2224      volume        = {101 (C3)},
2225      pages         = {14095--14109}
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2229      author        = {Seim, Harvey E. and Michael C. Gregg},
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2231      journal       = jgr,
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2233      volume        = {99 (C5)},
2234      pages         = {10049--10073},
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2238      author        = {Thorpe, S.A.},
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2240      journal       = ptrsl,
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2243      pages         = {125--181}
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2245    
2246    @Article{wesson94,
2247      author        = {Wesson, J. C. and  Michael C. Gregg},
2248      title         = {Mixing at Camarinal Sill in the Strait of Gibraltar},
2249      journal       = jgr,
2250      year          = 1994,
2251      volume        = {99 (C5)},
2252      pages         = { 9847--9878}
2253  }  }
2254    
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