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1 heimbach 1.1 @string{arfm = {Annu.~Rev.~Fluid Mech.}}
2     @string{bams = {Bull.~Am.~Met.~Soc.}}
3     @string{blm = {Bound.~Layer~Meteorol.}}
4 jmc 1.14 @string{climd = {Clim.~Dynamics}}
5 heimbach 1.1 @string{jgr = {J.~Geophys.~Res.}}
6     @string{ijrs = {Int.~J.~Remote Sensing}}
7     @string{jas = {J.~Atmos.~Sci.}}
8 jmc 1.25 @string{jam = {J.~Appl.~Meteor.}}
9 heimbach 1.1 @string{jpo = {J.~Phys.~Oceanogr.}}
10     @string{jclim = {J.~Clim.}}
11 jmc 1.25 @string{jcp = {J.~Comput.~Phys.}}
12 heimbach 1.1 @string{ieee = {IEEE Trans.~Geosci. Remote Sensing}}
13     @string{jfm = {J.~Fluid Mech.}}
14     @string{jaot = {J.~Atmos.~Ocean.~Technol.}}
15     @string{jms = {J.~Mar.~Sys.}}
16 jmc 1.14 @string{om = {Ocean Modelling}}
17 heimbach 1.1 @string{gaos = {Global Atmos.~Ocean System}}
18     @string{grl = {Geophys.~Res.~Lett.}}
19     @string{dsr = {Deep Sea Res.}}
20     @string{dao = {Dyn.~Atmos.~Oceans}}
21     @string{mwr = {Mon.~Wea.~Rev.}}
22     @string{qjrms = {{Q.~J.~R.~Meteorol.~Soc.}}}
23     @string{tel = {Tellus}}
24     @string{cup = {Cambridge University Press}}
25     @string{esapub = {ESA Publications Division, ESTEC, Noordwijk (NL)}}
26     @string{ifremer = {IFREMER/CERSAT}}
27     @string{igarss = {IEEE Press, Piscataway, N.J., USA}}
28     @string{dnmi = {The Norwegian Meteorological Institute (DNMI)}}
29     @string{dkrz = {Deutsches Klimarechenzentrum (DKRZ)}}
30     @string{mpi = {MPI f\"ur Meteorologie}}
31     @string{ecmwf = {ECMWF}}
32     @string{estec = {European Space Research and Technology Centre
33     (ESTEC)}}
34     @string{esa = {European Space Agency (ESA)}}
35    
36     @Article{bis-eta:92,
37     author = {C.H. Bishof and G.F. Corliss and L. Green and
38     A. Griewank and K. Haigler and P. Newman},
39     year = 1992,
40     title = {Automatic differentiation of advanced GFD codes
41     for multidisciplinary design},
42     journal = {Journal on Computing Systems in Engineering},
43     volume = {3},
44     pages = {625--638},
45     }
46    
47     @incollection{bis:94,
48     author = {C.H. Bishof},
49     year = 1994,
50     title = {Automatic differentiation, tangent linear models
51     and pseudo-adjoints},
52     booktitle = {High Performance Computing in the Geosciences},
53     series = {Series C: Mathematical and Physical Sciences},
54     pages = {59--80},
55     editor = {F.X. {Le Dimet}},
56     publisher = {Kluwer},
57     address = {Dordrecht, NL},
58     }
59    
60     @techreport{bis-eta:94,
61     author = {C. Bishof and A. Carle and P. Khademi and
62     A. Maurer},
63     year = 1994,
64     title = {The ADIFOR 2.0 system for the automatic
65     differentiation of FORTRAN 77 programs},
66     institution = {Argonne National Laboratory, Mathematics and
67     Computer Science Division},
68     type = {Argonne Preprint},
69     number = {ANL-MCS-P981-1194},
70     address = {ANL; 9700 South Cass Ave.;
71     Argonne (ILL), 90439; USA},
72     note = {http://www.mcs.anl.gov/autodiff/},
73     }
74 cnh 1.29
75     @ARTICLE{bugi-hill:06,
76     author = {V. Bugnion and C. Hill},
77     title = {Equilibration mechanisms in an adjoint ocean general
78     circulation model},
79     journal = {Ocean Dynamics},
80     year = {2006},
81     volume = {56},
82     number = {1},
83     pages = {51-61},
84     doi = {10.1007/s10236-005-0052-z},
85     }
86 heimbach 1.1
87     @techreport{bis-roh:97,
88     author = {C. Bishof and L. Roh},
89     year = 1997,
90     title = {ADIC: An extensible automatic differentiation tool
91     for ANSI-C},
92     institution = {Argonne National Laboratory, Mathematics and
93     Computer Science Division},
94     type = {Argonne Preprint},
95     number = {ANL-MCS-P626-1196},
96     address = {ANL; 9700 South Cass Ave.;
97     Argonne (ILL), 90439; USA},
98     note = {http://www.mcs.anl.gov/autodiff/},
99     }
100    
101     @Article{cou-tal:87,
102     author = {P. Courtier and O. Talagrand},
103     year = 1987,
104     title = {Variational assimilation of meteorological
105     observations with the adjoint vorticity equation.
106     II: Numerical results},
107     journal = qjrms,
108     volume = {113},
109     pages = {1329--1347},
110     }
111    
112     @Article{cou-tal:90,
113     author = {P. Courtier and O. Talagrand},
114     year = 1990,
115     title = {Variational assimilation of meteorological
116     observations with direct and adjoint shallow-water
117     equations},
118     journal = tel,
119     volume = {42A},
120     pages = {531--549},
121     }
122    
123     @Article{cou-eta:94,
124     author = {P. Courtier and J.-N. Th{\'e}paut and
125     A. Hollingsworth},
126     year = 1994,
127     title = {A strategy for operational implementation of
128     4-D-VAR using an incremental approach},
129     journal = qjrms,
130     volume = {120},
131     pages = {1367--1387},
132     }
133 cnh 1.29
134     @ARTICLE{dutk-etal:06,
135     author = {S. Dutkiewicz and M.J. Follows and P. Heimbach and J. Marshall},
136     title = {Controls on ocean productivity and air-sea carbon flux:
137     An adjoint model sensitivity study},
138     journal = grl,
139     year = {2006},
140     volume = {33},
141     pages = {L02603},
142     doi = {10.1029/2005GL024987},
143     }
144 heimbach 1.1
145     @Article{err:97,
146     author = {R.M. Errico},
147     year = 1997,
148     title = {What is an adjoint model},
149     journal = bams,
150     volume = {78},
151     pages = {2577--2591},
152     }
153    
154     @Article{far-moo:92,
155     author = {B.F. Farrell and A.M. Moore},
156     year = {1992},
157     title = {An adjoint method for obtaining the most rapidly
158     growing perturbation to oceanic flows},
159     journal = jpo,
160     volume = {22},
161     pages = {338--349},
162     }
163    
164     @Article{far-ioa:96a,
165     author = {B.F. Farrell and P. Ioannou},
166     year = {1996a},
167     title = {Generalized stability theory. Part I:
168     Autonomous operators},
169     journal = jas,
170     volume = {53},
171     pages = {2025--2040},
172     }
173    
174     @Article{far-ioa:96b,
175     author = {B.F. Farrell and P. Ioannou},
176     year = {1996b},
177     title = {Generalized stability theory. Part I:
178     Nonautonomous operators},
179     journal = jas,
180     volume = {53},
181     pages = {2041--2053},
182     }
183    
184     @techreport{fau-pap:98,
185     author = {C. Faure and Y. Papegay},
186     year = 1998,
187     title = {Odyss{\'e}e User's Guide. Version 1.7},
188     institution = {Institut National de Recherche en Informatique
189     et en Automatique},
190     type = {Rapport Technique},
191     number = {0224},
192     address = {INRIA; 2004, route des Luciolis, B.P. 93;
193     06902 Sophia Antipolis Cedex; France},
194     note = {http://www-sop.inria.fr/safir/SAM/Odyssee/odyssee.html},
195     }
196    
197     @Article{fau:00,
198     author = {C. Faure},
199     year = {2000},
200     title = {Adjoining strategies for multi-layered programs},
201     journal = {Optimisation Methods and Software},
202     note = {in press},
203     }
204    
205     @Article{gen-mcw:90,
206     author = {P.R. Gent and J.C. McWilliams},
207     year = 1990,
208     title = {Isopycnal mixing in ocean circulation models},
209     journal = jpo,
210     volume = {20},
211     pages = {150--155},
212     }
213    
214     @Article{gen-eta:95,
215     author = {P.R. Gent and J. Willebrand and T.J. McDougall
216     and J.C. McWilliams},
217     year = 1995,
218     title = {Parameterizing eddy-induced tracer transports in
219     ocean circulation models},
220     journal = jpo,
221     volume = {25},
222     pages = {463--474},
223     }
224    
225     @Article{gie-kam:98,
226     author = {R. Giering and T. Kaminski},
227     year = 1998,
228     title = {Recipes for adjoint code construction},
229     journal = {ACM Transactions on Mathematical Software},
230     volume = 24,
231     pages = {437--474},
232     }
233    
234     @techreport{gie:99,
235     author = {R. Giering},
236     year = 1999,
237     title = {Tangent linear and Adjoint Model Compiler.
238     Users manual 1.4 (TAMC Version 5.2)},
239     institution = {Massachusetts Institute of Technology},
240     type = {Report},
241     number = {~},
242     address = {MIT/EAPS; 77 Massachusetts Ave.; Cambridge (MA)
243     02139; USA},
244     note = {http://puddle.mit.edu/$\sim$ralf/tamc/tamc.html},
245     }
246    
247     @incollection{gie:00,
248     author = {R. Giering},
249     editor = {P. Kasibhatla and M. Heimann and P. Rayner and
250     N. Mahowald and R.G. Prinn and D.E. Hartley},
251     year = 2000,
252     booktitle = {Inverse methods in global biogeochemical cycles},
253     title = {Tangent linear and adjoint biogeochemical models},
254     publisher = {American Geophysical Union},
255     series = {Geophysical Monograph},
256     volume = {114},
257     address = {Washington, DC},
258     pages = {33--48},
259     }
260    
261     @Article{gil-lem:89,
262     author = {J.C. Gilbert and C. Lemar\'echal},
263     year = 1989,
264     title = {Some numerical experiments with variable-storage
265     quasi-Newton algorithms},
266     journal = {Math. Programming},
267     volume = {45},
268     pages = {407--435},
269     }
270    
271     @book{gil-eta:81,
272     author = {P.E. Gill and W. Murray and M.H. Wright},
273     title = {Practical optimization},
274     year = 1981,
275     publisher = {Academic Press},
276     address = {London},
277     pages = {401 pp.},
278     }
279    
280 heimbach 1.11 @incollection{gri:89,
281     author = {A. Griewank},
282     year = 1989,
283     title = {On automatic differentiation},
284     booktitle = {Mathematical Programming: Recent Developments and
285     Applications},
286     pages = {83--108},
287     editor = {M. Iri and K. Tanabe},
288     publisher = {Kluwer},
289     address = {Dordrecht, NL},
290     }
291    
292     @Article{gri:92,
293     author = {A.~Griewank},
294     title = {Achieving logarithmic growth of temporal and spatial
295     complexity in reverse {A}utomatic {D}ifferentiation},
296     journal = {Optimization Methods and Software},
297     year = {1992},
298     volume = {1},
299     pages = {35--54}
300     }
301    
302 heimbach 1.1 @book{gri:00,
303     author = {A. Griewank},
304     title = {Evaluating Derivatives. Principles and Techniques
305     of Algorithmic Differentiation},
306     year = 2000,
307     series = {Frontiers in Applied Mathematics},
308     volume = {19},
309     publisher = {SIAM},
310     address = {Philadelphia},
311     pages = {369 pp.},
312     }
313    
314     @Article{hal-eta:82,
315     author = {M.C.G. Hall and D.G. Caccuci and M.E. Schlesinger},
316     year = 1982,
317     title = {Sensitivity analysis of a radiative-convective
318     model by the adjoint method},
319     journal = jas,
320     volume = {39},
321     pages = {2038--3050},
322     }
323 cnh 1.6
324     @Article{Haney,
325     author = {R.L. Haney},
326     title = {Surface thermal boundary conditions for ocean
327     circulation models},
328     journal = jpo,
329     year = 1971,
330     volume = 1,
331     pages = {241--248}
332     }
333 heimbach 1.1
334 cnh 1.16 @Article{held-suar:94,
335     author = {I.M. Held and M.J. Suarez},
336     year = {1994},
337     title = {A proposal for the intercomparison of the dynamical cores of atmospheric general circulation models},
338     journal = {Bulletin of the American Meteorological Society},
339     volume = {75(10)},
340     pages = {1825-1830}
341     }
342    
343 heimbach 1.1 @Article{hil-eta:01,
344     author = {C. Hill and M. Follows and V. Bugnion and
345     J. Marshall},
346 cnh 1.10 year = {2002},
347 heimbach 1.1 title = {Spatial and Temporal Impacts of ocean general
348     circulation on carbon sequestration},
349 cnh 1.6 journal = {Global Biogeochemical Cycles},
350 heimbach 1.1 note = {submitted},
351     }
352 cnh 1.6
353 edhill 1.15 @ARTICLE{hib80,
354     AUTHOR = "W. D. {Hibler, III}",
355     TITLE = "Modeling a Variable Thickness Sea Ice Cover",
356     JOURNAL = mwr,
357     YEAR = 1980,
358     VOLUME = 1,
359     PAGES = "1943-1973"
360     }
361    
362 cnh 1.6 @Article{Holland75,
363     author = {W.R. Holland and L. B. Lin},
364     year = {1975a},
365     title = {On the origin of mesoscale eddies and their contribution
366     to the general circulation of the ocean. I. A preliminary
367     numerical experiment},
368     journal = jpo,
369     volume = {5},
370     pages = {642-657}
371     }
372    
373     @Article{hol-lin:75b,
374     author = {W.R. Holland and L. B. Lin},
375     year = {1975b},
376     title = {On the origin of mesoscale eddies and their contribution
377     to the general circulation of the ocean. II. A parameter
378     study},
379     journal = jpo,
380     volume = {5},
381     pages = {658-669}
382     }
383    
384 heimbach 1.1 @book{kas-eta:00,
385     author = {P. Kasibhatla and M. Heimann and P. Rayner and
386     N. Mahowald and R.G. Prinn and D.E. Hartley},
387     year = 2000,
388     title = {Inverse methods in global biogeochemical cycles},
389     publisher = {American Geophysical Union},
390     series = {Geophysical Monograph},
391     volume = {114},
392     address = {Washington, DC},
393     pages = {324 pp.},
394     }
395    
396     @Article{lar-eta:94,
397     author = {W.G. Large and J.C. McWilliams and S.C. Doney},
398     year = 1994,
399     title = {Oceanic vertical mixing: A review and a model
400     with nonlocal boundary layer parameterization},
401     journal = {Rev.~Geophys.},
402     volume = {32},
403     pages = {363--403},
404     }
405    
406     @Article{lar-eta:97,
407     author = {W.G. Large and G. Danabasoglu and S.C. Doney
408     and J.C. McWilliams},
409     year = 1997,
410     title = {Sensitivity to surface forcing and boundary layer
411     mixing in a global ocean model: annual-mean
412     climatology},
413     journal = jpo,
414     volume = {27},
415     pages = {2418--2447},
416     }
417    
418     @Article{led-tal:86,
419     author = {F.-X. {Le Dimet} and O. Talagrand},
420     year = 1986,
421     title = {Variational algorithms for analysis and
422     assimilation of meteorological observations:
423     theoretical aspects},
424     journal = tel,
425     volume = {38A},
426     pages = {97--110},
427     }
428 cnh 1.6
429     @TechReport{lev:94a,
430     author = {S. Levitus and T.P.Boyer},
431     title = {{World Ocean Atlas 1994 Volume 3: Salinity}},
432     institution = {NOAA Atlas NESDIS 3},
433     year = 1994,
434     OPTkey = {},
435     OPTtype = {},
436     OPTnumber = {},
437     OPTaddress = {U.S. Department of Commerce, Washington D.C.},
438     OPTmonth = {},
439     OPTnote = {},
440     OPTannote = {}
441     }
442    
443    
444     @TechReport{Levitus94,
445     author = {S. Levitus and T.P.Boyer},
446     title = {{World Ocean Atlas 1994 Volume 4: Temperature}},
447     institution = {NOAA Atlas NESDIS 4},
448     year = 1994,
449     OPTkey = {},
450     OPTtype = {},
451     OPTnumber = {},
452     OPTaddress = {U.S. Department of Commerce, Washington D.C.},
453     OPTmonth = {},
454     OPTnote = {},
455     OPTannote = {}
456     }
457    
458 heimbach 1.1
459     @Article{lew-der:85,
460     author = {J. Lewis and J. Derber},
461     year = {1985},
462     title = {The use of adjoint equations to solve a variational
463     adjustment problem with advective constraints},
464     journal = {Tellus},
465     volume = {37A},
466     pages = {309--322},
467     }
468    
469     @techreport{lon:88,
470     author = {R.B. Long},
471     year = 1988,
472     title = {Notes on assimilating observations into
473     numerical models},
474     institution = {Delft Hydraulics},
475     type = {Report},
476     number = {~},
477     pages = {38 pp.},
478     address = {Delft (NL)},
479     }
480 cnh 1.29
481     @ARTICLE{losc-heim:06,
482     author = {M. Losch and P. Heimbach},
483     title = {Adjoint sensitivity of an ocean general circulation model
484     to bottom topography},
485     journal = jpo,
486     year = {2006},
487     volume = {{in press}},
488     url = {http://mitgcm.org/pdfs/Los2006a.pdf},
489     }
490    
491 heimbach 1.1
492     @Article{maro-wun:93,
493     author = {J. Marotzke and C. Wunsch},
494     year = 1993,
495     title = {Finding the steady state of a general circulation
496     model through data assimilation:
497     Application to the North Atlantic Ocean},
498     journal = jgr,
499     volume = {98, C11},
500     pages = {20,149--20,167},
501     }
502    
503     @Article{maro-eta:99,
504     author = {J. Marotzke and R. Giering and K.Q. Zhang and
505     D. Stammer and C. Hill and T. Lee},
506     year = 1999,
507     title = {Construction of the adjoint MIT ocean general
508     circulation model and application to Atlantic heat
509     transport variability},
510     journal = jgr,
511     volume = {104, C12},
512     pages = {29,529--29,547},
513     }
514    
515     @Article{mars-eta:97a,
516     author = {J. Marshall and C. Hill and L. Perelman and
517     A. Adcroft},
518     year = {1997a},
519     title = {Hydrostatic, quasi-hydrostatic and
520     nonhydrostatic ocean modeling},
521     journal = jgr,
522     volume = {102, C3},
523     pages = {5,733--5,752},
524     }
525    
526     @Article{mars-eta:97b,
527     author = {J. Marshall and A. Adcroft and C. Hill and
528     L. Perelman and C. Heisey},
529     year = {1997b},
530     title = {Hydrostatic, quasi-hydrostatic and
531     nonhydrostatic ocean modeling},
532     journal = jgr,
533     volume = {102, C3},
534     pages = {5,753--5,766},
535     }
536    
537     @Article{mars-sha:98,
538     author = {J. Marshall and H. Jones and C. Hill},
539     year = 1998,
540     title = {Efficient ocean modeling using
541     non-hydrostatic algorithms},
542     journal = jms,
543     volume = {18},
544     pages = {115--134},
545 cnh 1.29 url = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
546     doi = {10.1016/S0924-7963\%2898\%2900008-6},
547 heimbach 1.1 }
548    
549     @Article{mcw:96,
550     author = {J. McWilliams},
551     year = 1996,
552     title = {Modeling the oceanic general circulation},
553     journal = arfm,
554     volume = {28},
555     pages = {215--248},
556     }
557 edhill 1.13
558     %% Rew, R. K., G. P. Davis, S. Emmerson, and H. Davies
559     %% NetCDF User's Guide for C, An Interface for Data Access, Version 3, April 1997.
560     %% (Available from Unidata or in PostScript form by anonymous FTP from
561     %% ftp://ftp.unidata.ucar.edu/pub/netcdf/guidec.ps.Z). There is also
562     %% a hypertext version of the User's Guide available at
563     %% http://www.unidata.ucar.edu/packages/netcdf/guidec. NetCDF User's
564     %% Guide for Fortran 90 and NetCDF User's Guide for Fortran 77 are
565     %% also available.
566    
567     @TechReport{rew:97,
568     author = {R. K. Rew and G. P. Davis and S. Emmerson and H. Davies},
569     title = {{NetCDF User's Guide for C, FORTRAN 77, and FORTRAN 90},
570     An Interface for Data Access, Version 3},
571     institution = {Unidata Program Center},
572     type = {Report},
573     address = {Boulder, Colorado},
574     year = 1997,
575     note = {http://www.unidata.ucar.edu/packages/netcdf/},
576     }
577    
578    
579 heimbach 1.1 @Article{res-eta:98,
580     author = {J.M. Restrepo and G.K. Leaf and A. Griewank},
581     year = 1998,
582 cnh 1.5 title = {Circumventing storage limitations in variational
583 heimbach 1.1 data assimilation studies},
584     journal = {SIAM J. Sci. Comput.},
585     volume = {19},
586     pages = {1586--1605},
587     }
588    
589     @Article{ros-eta:93,
590     author = {N. Rostaing and S. Dalmas and A. Galligo},
591     year = 1993,
592     title = {Automatic differentiation in Odyss{\'e}e},
593     journal = {Tellus},
594     volume = {45A},
595     pages = {558--568},
596     }
597    
598     @incollection{she-and:89,
599     author = {J. Sheinbaum and D.L.T. Anderson},
600     year = 1989,
601     title = {Assimilation of XBT data using a variational
602     technique},
603     booktitle = {Oceanic circulation models:
604     Combining data and dynamics},
605     pages = {257--285},
606     series = {NATO ASI Series},
607     volume = {C 284},
608     editor = {{D.L.T. Anderson and J. Willebrand}},
609     publisher = {Springer-Verlag},
610     address = {Berlin (Germany)},
611     }
612 cnh 1.6
613     @Article{DaSilva94,
614     author = {A. da Silva and A. C. Young and S. Levitus},
615     year = 1994,
616     title = {Atlas of Surface Marine Data 1994, Volume 1: Algorithms and Procedures},
617     journal = {NOAA Atlas NESDIS},
618     volume = {6},
619     publisher = {U.S. Department of Commerce},
620     address = {Washington, D.C. (USA)},
621     note = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
622 cnh 1.28 url = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
623 cnh 1.6 }
624 heimbach 1.1
625     @techreport{sta-eta:97,
626     author = {D. Stammer and C. Wunsch and R. Giering and
627 cnh 1.6 Q. Zhang and J. Marotzke and J. Marshall and
628 heimbach 1.1 C. Hill},
629     year = 1997,
630     title = {The global ocean circulation estimated from
631     TOPEX/POSEIDON altimetry and a general circulation
632     model},
633     institution = {Center for Global Change Science, Massachusetts
634     Institute of Technology},
635     type = {Technical Report},
636     number = {49},
637     pages = {40 pp.},
638     address = {Cambridge (MA), USA},
639     }
640    
641 cnh 1.29 @ARTICLE{stam-eta:01,
642     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},
643     title = {The global ocean circulation and transports during 1992 -- 1997, estimated from ocean observations and a general circulation model.},
644     journal = jgr,
645     year = {2002a},
646     volume = {107(C9)},
647     pages = {3118},
648     doi = {10.1029/2001JC000888},
649     }
650    
651 cnh 1.6
652     @Article{Stommel66,
653     author = {H. Stommel},
654     year = 1948,
655     title = {The western intensification of wind-driven ocean currents},
656     journal = {Trans. Am. Geophys. Union},
657     volume = {29},
658     pages = {206},
659 heimbach 1.1 }
660    
661     @Article{tal-cou:87,
662     author = {O. Talagrand and P. Courtier},
663     year = 1987,
664     title = {Variational assimilation of meteorological
665     observations with the adjoint vorticity equation.
666     I: Theory},
667     journal = qjrms,
668     volume = {113},
669     pages = {1311--1328},
670     }
671    
672     @Article{tal:97,
673     author = {O. Talagrand},
674     year = 1997,
675     title = {Assimilation of observations, an introduction},
676     journal = {J.~Meteor.~Soc.~Japan},
677     volume = {75},
678     pages = {191--209},
679     }
680    
681     @book{tar:87,
682     author = {A. Tarantola},
683     title = {Inverse Problem Theory: Methods for data fitting
684     and model parameter estimation},
685     year = 1987,
686     publisher = {Elsevier},
687     address = {Amsterdam},
688     pages = {629 pp.},
689     }
690    
691     @techreport{tha:87,
692     author = {W.C. Thacker},
693     year = 1987,
694     title = {Three lectures on fitting numerical models to
695     observations},
696     institution = {GKSS},
697     type = {Report},
698     number = {87/E/65},
699     pages = {64 pp.},
700     address = {Geesthacht (D)},
701     }
702    
703     @Article{tha-lon:88,
704     author = {W.C. Thacker and R.B. Long},
705     year = 1988,
706     title = {Fitting dynamics to data},
707     journal = jgr,
708     volume = {93, C2},
709     pages = {1,227--1,240},
710     }
711    
712     @Article{tha:88,
713     author = {W.C. Thacker},
714     year = 1988,
715     title = {Fitting models to inadequate data by enforcing
716     spatial and temporal smoothness},
717     journal = jgr,
718     volume = {93},
719     pages = {10,655--10,665},
720     }
721    
722     @Article{tha:89,
723     author = {W.C. Thacker},
724     year = 1989,
725     title = {The role of the Hessian matrix in fitting models
726     to measurements},
727     journal = jgr,
728     volume = {94, C5},
729     pages = {6,177--6,196},
730     }
731    
732     @Article{tha-rag:94,
733     author = {W.C. Thacker and R. Raghunath},
734     year = 1994,
735     title = {The rigid lid's contribution to the ill-conditioning
736     of oceanic inverse problems},
737     journal = jgr,
738     volume = {99, C5},
739     pages = {10,131--10,141},
740     }
741    
742     @Article{tzi-tha:89,
743     author = {E. Tziperman and W.C. Thacker},
744     year = {1989},
745     title = {An optimal control / adjoint equation approach
746     to studying the ocean general circulation},
747     journal = jpo,
748     volume = {19},
749     pages = {1471--1485},
750     }
751    
752     @Article{tzi-eta:92a,
753     author = {E. Tziperman and W.C. Thacker and R.B. Long and
754     S. Hwang},
755     year = {1992a},
756     title = {Oceanic data analysis using a general circulation
757     model. I: Simulations},
758     journal = jpo,
759     volume = {22},
760     pages = {1434--1457},
761     }
762    
763     @Article{tzi-eta:92b,
764     author = {E. Tziperman and W.C. Thacker and R.B. Long and
765     S. Hwang and S.R. Rintoul},
766     year = {1992b},
767     title = {Oceanic data analysis using a general circulation
768     model. I: A North Atlantic model},
769     journal = jpo,
770     volume = {22},
771     pages = {1458--1485},
772     }
773    
774     @book{wun:96,
775     author = {C. Wunsch},
776     title = {The ocean circulation inverse problem},
777     year = 1996,
778     publisher = cup,
779     address = {Cambridge (UK)},
780     pages = {442 pp.},
781     }
782    
783     @Article{zha-mar:99,
784     author = {K.Q. Zhang and J. Marotzke},
785     year = 1999,
786     title = {The importance of open-boundary estimation for an
787     Indian Ocean GCM-data synthesis},
788     journal = {J.~Marine Res.},
789     volume = {57},
790     pages = {305--334},
791     }
792 adcroft 1.2
793    
794     @InCollection{hill:95,
795     author = {Hill, C. and J. Marshall},
796     title = {Application of a Parallel Navier-Stokes Model to
797     Ocean Circulation in Parallel Computational Fluid
798     Dynamics},
799     booktitle = {Implementations and Results Using Parallel
800     Computers},
801     pages = {545-552},
802     publisher = {Elsevier Science B.V.: New York},
803     year = 1995,
804     editor = {A. Ecer, J. Periaux, N. Satofuka and S. Taylor}
805     }
806    
807    
808     @Article{marshall:97a,
809 adcroft 1.4 author = {Marshall, J. and C. Hill and L. Perelman and A. Adcroft},
810 adcroft 1.2 title = {Hydrostatic, quasi-hydrostatic, and nonhydrostatic ocean
811     modeling},
812 jmc 1.25 journal = jgr,
813 adcroft 1.2 year = 1997,
814     volume = 102,
815     number = {C3},
816 cnh 1.29 pages = {5733-5752},
817     url = {http://mitgcm.org/pdfs/96JC02775.pdf},
818 adcroft 1.2 }
819    
820     @Article{marshall:97b,
821 cnh 1.10 author = {Marshall, J. and A. Adcroft and C. Hill and L. Perelman and C. Heisey},
822 adcroft 1.2 title = {A finite-volume, incompressible Navier Stokes model for
823     studies of the ocean on parallel computers},
824 jmc 1.25 journal = jgr,
825 adcroft 1.2 year = 1997,
826     volume = 102,
827     number = {C3},
828 cnh 1.29 pages = {5753-5766},
829     url = {http://mitgcm.org/pdfs/96JC02776.pdf},
830 adcroft 1.2 }
831    
832     @Article{adcroft:97,
833 adcroft 1.4 author = {Adcroft, A.J. and Hill, C.N. and J. Marshall},
834 adcroft 1.2 title = {Representation of topography by shaved cells in a height
835     coordinate ocean model},
836 jmc 1.25 journal = mwr,
837 adcroft 1.2 year = 1997,
838     volume = 125,
839 cnh 1.29 pages = {2293-2315},
840     url = {http://mitgcm.org/pdfs/mwr_1997.pdf},
841     doi = {10.1175/1520-0493\%281997\%29125<2293:ROTBSC>2.0.CO;2},
842 adcroft 1.2 }
843    
844 jmc 1.19 @Article{adcroft:04a,
845     author = {Adcroft, A. and J.-M. Campin},
846 jmc 1.14 title = {Re-scaled height coordinates for accurate representation
847     of free-surface flows in ocean circulation models},
848     journal = om,
849     year = 2004,
850 jmc 1.19 volume = 7,
851 cnh 1.28 pages = {269-284},
852     doi = {10.1016/j.ocemod.2003.09.003},
853 jmc 1.19 }
854    
855     @Article{adcroft:04b,
856     author = {Adcroft, A. and J.-M. Campin and C. Hill and J. Marshall},
857     title = {Implementation of an Atmosphere-Ocean General Circulation Model
858     on the Expanded Spherical Cube},
859     journal = mwr,
860     year = 2004,
861     volume = 132,
862 cnh 1.29 pages = {2845-2863},
863     url = {http://mitgcm.org/pdfs/mwr_2004.pdf},
864     doi = {10.1175/MWR2823.1},
865 jmc 1.19 }
866    
867     @Article{marshall:04,
868     author = {Marshall, J. and A. Adcroft and J.-M. Campin and C. Hill and A. White},
869     title = {Atmosphere-Ocean Modeling Exploiting Fluid Isomorphisms},
870     journal = mwr,
871     year = 2004,
872     volume = 132,
873 cnh 1.29 pages = {2882-2894},
874     url = {http://mitgcm.org/pdfs/a_o_iso.pdf},
875     doi = {10.1175/MWR2835.1},
876 jmc 1.14 }
877    
878 adcroft 1.2 @Article{visbeck:97,
879     author = {Visbeck, M., J. Marshall, T. Haine, and M. Spall},
880     title = {Specification of eddy transfer coefficients in
881     coarse-resolution ocean circulation models},
882 jmc 1.25 journal = jpo,
883 adcroft 1.2 year = 1997,
884     volume = 27,
885     number = 3,
886     pages = {381-402}
887     }
888    
889     @Article{shaw:98,
890     author = {Shaw; A. Arvind, Cho, K.-C., Hill, C., Johnson, R.P.
891     and Marshall, J.},
892     title = {A comparison of implicitly parallel multi-threaded and
893     data-parallel implementations of an ocean model based
894     on the Navier-Stokes equations},
895     journal = {J. of Parallel and Distributed Computing},
896     year = 1998,
897     volume = 48,
898     number = 1,
899     pages = {1-51}
900     }
901    
902     @Article{mjn:99,
903     author = {Marshall, J., Jamous, D and J. Nilsson},
904     title = {Reconciling `thermodynamic' and `dynamic' methods of
905     computation of water-mass transformation rates},
906     journal = {DSR},
907     year = 1999,
908     volume = 46,
909     pages = {545-572}
910     }
911    
912     @Article{ms:99,
913     author = {Marshall, J and F. Schott},
914     title = {Open ocean deep convection: observations, models and theory},
915     journal = {Rev. Geophys.},
916     year = 1999,
917     volume = 37,
918     number = 1,
919     pages = {1-64}
920     }
921    
922     @Article{adcroft:99,
923     author = {Adcroft, A., Hill C. and J. Marshall},
924     title = {A new treatment of the Coriolis terms in C-grid models
925     at both high and low resolutions},
926 jmc 1.25 journal = mwr,
927 adcroft 1.2 year = 1999,
928     volume = 127,
929 cnh 1.29 pages = {1928-1936},
930     url = {http://mitgcm.org/pdfs/mwr_1999.pdf},
931     doi = {10.1175/1520-0493\%281999\%29127<1928:ANTOTC>2.0.CO;2},
932 adcroft 1.2 }
933    
934     @InProceedings{hill:99,
935     author = {Chris Hill, Alistair Adcroft, Daniel Jamous and John Marshall},
936     title = {A Strategy for Terascale Climate Modeling},
937 cnh 1.8 booktitle = {In Proceedings of the Eighth ECMWF Workshop on the Use of Parallel Processors in Meteorology},
938 cnh 1.9 year = 1999,
939     pages = {406-425},
940     publisher = {World Scientific},
941 adcroft 1.2 }
942    
943     @Article{wardle:00,
944     author = {Wardle R. and Marshall J.},
945     title = {Representation of eddies in primitive equation models by a PV flux},
946 jmc 1.25 journal = jpo,
947 adcroft 1.2 year = 2000,
948     volume = 30,
949     number = 10,
950     pages = {2481-2503}
951     }
952    
953     @Article{ac:02,
954     author = {Adcroft, A. and J.-M. Campin},
955     title = {Comparison of finite volume schemes and direct-space-time
956     methods for ocean circulation models},
957 jmc 1.14 journal = om,
958 adcroft 1.2 year = 2002,
959     note = {in preparation}
960     }
961    
962     @Article{adcroft:02,
963 jmc 1.25 author = {Adcroft, A., et~al.},
964 adcroft 1.2 title = {Energy conversion in discrete numerical models},
965 jmc 1.14 journal = om,
966 adcroft 1.2 year = 2002,
967     note = {in preparation}
968     }
969    
970     @InCollection{arakawa:77,
971     author = {Arakawa, A. and Lamb, V.},
972     title = {Computational Design of the Basic Dynamical Processes of
973     the UCLA General Circulation Model},
974     booktitle = {Methods in Computational Physics},
975     pages = {174-267},
976     publisher = {Academic Press},
977     year = 1977,
978     volume = 17
979     }
980    
981 jmc 1.24 @Article{miller_white:84,
982     author = {Miller, M. J. and White, A. A.},
983     title = {On the non-hydrostatic equations in pressure
984     and sigma coordiantes},
985 jmc 1.25 journal = qjrms,
986 jmc 1.24 year = 1984,
987     volume = 110,
988     pages = {515-533}
989     }
990    
991     @Article{white:89,
992     author = {White, A. A.},
993     title = {An extended version of a nonhydrostatic, pressure coordiante model},
994 jmc 1.25 journal = qjrms,
995 jmc 1.24 year = 1989,
996     volume = 115,
997     pages = {1243-1251}
998     }
999    
1000 adcroft 1.2 @Article{adcroft:98,
1001     author = {Adcroft, A. and Marshall, D.},
1002 adcroft 1.3 title = {How slippery are piecewise-constant coastlines in numerical
1003     ocean models?},
1004 adcroft 1.2 journal = {Tellus},
1005 adcroft 1.3 year = 1998,
1006     volume = 50,
1007     number = 1,
1008     pages = {95-108}
1009     }
1010    
1011     @PhdThesis{adcroft:95,
1012     author = {Adcroft, A.},
1013     title = {Numerical Algorithms for use in a Dynamical Model of the
1014     Ocean},
1015     school = {Imperial College, London},
1016     year = 1995
1017     }
1018    
1019     @Article{griffies:00,
1020     author = {Griffies, S.,M. and Hallberg, R.,W.},
1021     title = {Biharmonic friction with a Smagorinsky-like viscosity for
1022     use in large-scale eddy-permitting ocean models},
1023 jmc 1.25 journal = mwr,
1024 adcroft 1.3 year = 2000,
1025     volume = 128,
1026     number = 8,
1027     pages = {2935-2946}
1028     }
1029    
1030     @Article{wajsowicz:93,
1031     author = {Wajsowicz, R.},
1032     title = {A CONSISTENT FORMULATION OF THE ANISOTROPIC STRESS TENSOR
1033     FOR USE IN MODELS OF THE LARGE-SCALE OCEAN CIRCULATION},
1034 jmc 1.25 journal = jcp,
1035 adcroft 1.3 year = 1993,
1036     volume = 105,
1037     number = 2,
1038     pages = {333-338}
1039     }
1040    
1041     @Article{campin:02,
1042 jmc 1.14 author = {Campin, J.-M. and A. Adcroft and C. Hill and J. Marshall},
1043 adcroft 1.3 title = {Conservation of properties in a free-surface model},
1044 jmc 1.14 journal = om,
1045     year = 2004,
1046     volume = 6,
1047     pages = {221-244}
1048 adcroft 1.4 }
1049    
1050     @Article{dm:95,
1051     author = {Danabasoglu, G. and McWilliams J.C.},
1052     title = {Sensitivity of the global ocean circulation to parameterizations of mesoscale tracer transports},
1053 jmc 1.25 journal = jclim,
1054 adcroft 1.4 year = 1995,
1055     volume = 8,
1056     number = 12,
1057     pages = {2967-2987}
1058     }
1059    
1060     @Article{ldd:97,
1061     author = {Large, W.G. and Danabasoglu, G. and Doney, S.C. and McWilliams, J.C.},
1062     title = {Sensitivity to surface forcing and boundary layer mixing in a global ocean model: Annual-mean climatology},
1063 jmc 1.25 journal = jpo,
1064 adcroft 1.4 year = 1997,
1065     volume = 27,
1066     number = 11,
1067     pages = {2418-2447}
1068     }
1069    
1070     @Article{gkw:99,
1071     author = {Gerdes R. and Koberle C. and Beckmann A. and Herrmann P. and Willebrand J.},
1072     title = {Mechanisms for spreading of Mediterranean water in
1073     coarse-resolution numerical models},
1074 jmc 1.25 journal = jpo,
1075 adcroft 1.4 year = 1999,
1076     volume = 29,
1077     number = 8,
1078     pages = {1682-1700}
1079     }
1080    
1081 jmc 1.17 @incollection{roe:85,
1082     author = {P.L. Roe},
1083     year = 1985,
1084     title = {Some contributions to the modelling of discontinuous flows},
1085     booktitle = {Large-Scale Computations in Fluid Mechanics},
1086     series = {Lectures in Applied Mathematics},
1087     volume = 22,
1088     pages = {163-193},
1089     editor = {B.E. Engquist and S. Osher and R.C.J. Somerville},
1090     publisher = {American Mathematical Society},
1091     address = {Providence, RI},
1092 adcroft 1.2 }
1093    
1094 mlosch 1.12 @Article{trenberth90,
1095     author = {K. M. Trenberth and J. Olson and W. G. Large},
1096     title = {The Mean Annual Cycle in {G}lobal {O}cean Wind
1097     Stress},
1098     journal = jpo,
1099     year = 1990,
1100     volume = 20,
1101     pages = {1742--1760}
1102 jmc 1.14 }
1103    
1104     @Article{molteni:03,
1105 jmc 1.27 author = {F. Molteni},
1106 edhill 1.30 title = {Atmospheric simulations using a {GCM} with simplified physical
1107     parametrization, {I}: Model climatology and variability in
1108 jmc 1.14 multidecadal experiments},
1109     journal = climd,
1110     year = 2003,
1111     volume = 20,
1112     pages = {175--191}
1113 mlosch 1.12 }
1114    
1115     @Article{jiang99,
1116 edhill 1.21 author = {S. Jiang and P. H. Stone and P. Malanotte-Rizzoli},
1117 mlosch 1.12 title = {An Assessment of the {G}eophysical {F}luid
1118     {D}ynamics {L}aboratory Ocean Model with Coarse
1119     Resolution: Annual-Mean Climatology},
1120     journal = jgr,
1121     year = 1999,
1122     volume = 104,
1123     number = {C11},
1124     pages = {25,623--25,645}
1125     }
1126    
1127     @Article{szoeke02,
1128     author = {de Szoeke, Roland A. and Roger M. Samelson},
1129     title = {The Duality between the {B}oussinesq and
1130     {N}on-{B}oussinesq Hydrostatic Equations of Motion},
1131     journal = jpo,
1132     year = 2002,
1133     volume = 32,
1134     number = 8,
1135     pages = {2194--2203}
1136     }
1137    
1138     @Article{jackett95,
1139     author = {David R. Jackett and Trevor J. McDougall},
1140     title = {Minimal Adjustment of Hydrographic Profiles to
1141     Achieve Static Stability},
1142     journal = jaot,
1143     year = 1995,
1144     volume = 12,
1145     number = 4,
1146     pages = {381--389}
1147     }
1148    
1149     @Article{mcdougall03,
1150     author = {Trevor J. McDougall and David R. Jackett and Daniel
1151     G. Wright and Rainer Feistel},
1152     title = {Accurate and Computationally Efficient Algorithms
1153     for Potential Temperature and Density of Seawater},
1154     journal = jaot,
1155     year = {2003},
1156     OPTkey = {},
1157     OPTvolume = {},
1158     OPTnumber = {},
1159     OPTpages = {},
1160     OPTmonth = {},
1161     OPTnote = {{\textup{In press}}},
1162     OPTannote = {}
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1164    
1165     @TechReport{fofonoff83,
1166     author = "Fofonoff, P. and Millard, Jr., R.C.",
1167     title = "Algorithms for Computation of Fundamental Properties
1168     of Seawater",
1169     institution = "Unesco",
1170     year = 1983,
1171     type = "Unesco Technical Papers in Marine Science",
1172     number = 44,
1173     pages = {53 pp.}
1174     }
1175    
1176 edhill 1.15 @ARTICLE{zha98a,
1177     AUTHOR = "J. Zhang and W. D. {Hibler, III} and M. Steele
1178     and D. A. Rothrock",
1179     TITLE = "Arctic ice-ocean modeling with and without climate restoring",
1180     JOURNAL = jpo,
1181     YEAR = 1998,
1182     VOLUME = 28,
1183     PAGES = "191-217"
1184     }
1185    
1186     @ARTICLE{sem76,
1187     AUTHOR = "Semtner, Jr., Albert J.",
1188     TITLE = "A model for the thermodynamic growth of sea ice in
1189     numerical investigations of climate",
1190     JOURNAL = jpo,
1191     YEAR = 1976,
1192     VOLUME = 6,
1193     PAGES = "379-389"
1194     }
1195    
1196     @ARTICLE{win00,
1197     AUTHOR = "M. Winton",
1198     TITLE = "A reformulated three-layer sea ice model",
1199     JOURNAL = jaot,
1200     YEAR = 2000,
1201     VOLUME = 17,
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1210     VOLUME = 9,
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1219     VOLUME = 22,
1220     PAGES = "626-651"
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1257     year = {2005},
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1290     institution = {NCAR},
1291     year = {1989},
1292     OPTkey = {},
1293     OPTtype = {},
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1341     year = {1994},
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1345     type = {NASA Technical Memorandum},
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1347     address = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
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1544     volume = {122},
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1546     }
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1575     journal = {Climate Dyn.},
1576     volume = {17},
1577     pages = {777-794}
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1598 edhill 1.26 @TechReport{MPI-std-20,
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