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Revision 1.31 - (hide annotations) (download)
Fri Nov 17 01:33:05 2006 UTC (17 years, 5 months ago) by jmc
Branch: MAIN
Changes since 1.30: +9 -0 lines
add Jamart & Ozer, 1986 (wet-point method).

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 jmc 1.31 @Article{jam-oze:86,
385     author = {B.M. Jamart and J. Ozer},
386     year = {1986},
387     title = {Numerical boundary layers and spurious residual flows},
388     journal = jgr,
389     volume = {91},
390     pages = {10,621-10,631}
391     }
392    
393 heimbach 1.1 @book{kas-eta:00,
394     author = {P. Kasibhatla and M. Heimann and P. Rayner and
395     N. Mahowald and R.G. Prinn and D.E. Hartley},
396     year = 2000,
397     title = {Inverse methods in global biogeochemical cycles},
398     publisher = {American Geophysical Union},
399     series = {Geophysical Monograph},
400     volume = {114},
401     address = {Washington, DC},
402     pages = {324 pp.},
403     }
404    
405     @Article{lar-eta:94,
406     author = {W.G. Large and J.C. McWilliams and S.C. Doney},
407     year = 1994,
408     title = {Oceanic vertical mixing: A review and a model
409     with nonlocal boundary layer parameterization},
410     journal = {Rev.~Geophys.},
411     volume = {32},
412     pages = {363--403},
413     }
414    
415     @Article{lar-eta:97,
416     author = {W.G. Large and G. Danabasoglu and S.C. Doney
417     and J.C. McWilliams},
418     year = 1997,
419     title = {Sensitivity to surface forcing and boundary layer
420     mixing in a global ocean model: annual-mean
421     climatology},
422     journal = jpo,
423     volume = {27},
424     pages = {2418--2447},
425     }
426    
427     @Article{led-tal:86,
428     author = {F.-X. {Le Dimet} and O. Talagrand},
429     year = 1986,
430     title = {Variational algorithms for analysis and
431     assimilation of meteorological observations:
432     theoretical aspects},
433     journal = tel,
434     volume = {38A},
435     pages = {97--110},
436     }
437 cnh 1.6
438     @TechReport{lev:94a,
439     author = {S. Levitus and T.P.Boyer},
440     title = {{World Ocean Atlas 1994 Volume 3: Salinity}},
441     institution = {NOAA Atlas NESDIS 3},
442     year = 1994,
443     OPTkey = {},
444     OPTtype = {},
445     OPTnumber = {},
446     OPTaddress = {U.S. Department of Commerce, Washington D.C.},
447     OPTmonth = {},
448     OPTnote = {},
449     OPTannote = {}
450     }
451    
452    
453     @TechReport{Levitus94,
454     author = {S. Levitus and T.P.Boyer},
455     title = {{World Ocean Atlas 1994 Volume 4: Temperature}},
456     institution = {NOAA Atlas NESDIS 4},
457     year = 1994,
458     OPTkey = {},
459     OPTtype = {},
460     OPTnumber = {},
461     OPTaddress = {U.S. Department of Commerce, Washington D.C.},
462     OPTmonth = {},
463     OPTnote = {},
464     OPTannote = {}
465     }
466    
467 heimbach 1.1
468     @Article{lew-der:85,
469     author = {J. Lewis and J. Derber},
470     year = {1985},
471     title = {The use of adjoint equations to solve a variational
472     adjustment problem with advective constraints},
473     journal = {Tellus},
474     volume = {37A},
475     pages = {309--322},
476     }
477    
478     @techreport{lon:88,
479     author = {R.B. Long},
480     year = 1988,
481     title = {Notes on assimilating observations into
482     numerical models},
483     institution = {Delft Hydraulics},
484     type = {Report},
485     number = {~},
486     pages = {38 pp.},
487     address = {Delft (NL)},
488     }
489 cnh 1.29
490     @ARTICLE{losc-heim:06,
491     author = {M. Losch and P. Heimbach},
492     title = {Adjoint sensitivity of an ocean general circulation model
493     to bottom topography},
494     journal = jpo,
495     year = {2006},
496     volume = {{in press}},
497     url = {http://mitgcm.org/pdfs/Los2006a.pdf},
498     }
499    
500 heimbach 1.1
501     @Article{maro-wun:93,
502     author = {J. Marotzke and C. Wunsch},
503     year = 1993,
504     title = {Finding the steady state of a general circulation
505     model through data assimilation:
506     Application to the North Atlantic Ocean},
507     journal = jgr,
508     volume = {98, C11},
509     pages = {20,149--20,167},
510     }
511    
512     @Article{maro-eta:99,
513     author = {J. Marotzke and R. Giering and K.Q. Zhang and
514     D. Stammer and C. Hill and T. Lee},
515     year = 1999,
516     title = {Construction of the adjoint MIT ocean general
517     circulation model and application to Atlantic heat
518     transport variability},
519     journal = jgr,
520     volume = {104, C12},
521     pages = {29,529--29,547},
522     }
523    
524     @Article{mars-eta:97a,
525     author = {J. Marshall and C. Hill and L. Perelman and
526     A. Adcroft},
527     year = {1997a},
528     title = {Hydrostatic, quasi-hydrostatic and
529     nonhydrostatic ocean modeling},
530     journal = jgr,
531     volume = {102, C3},
532     pages = {5,733--5,752},
533     }
534    
535     @Article{mars-eta:97b,
536     author = {J. Marshall and A. Adcroft and C. Hill and
537     L. Perelman and C. Heisey},
538     year = {1997b},
539     title = {Hydrostatic, quasi-hydrostatic and
540     nonhydrostatic ocean modeling},
541     journal = jgr,
542     volume = {102, C3},
543     pages = {5,753--5,766},
544     }
545    
546     @Article{mars-sha:98,
547     author = {J. Marshall and H. Jones and C. Hill},
548     year = 1998,
549     title = {Efficient ocean modeling using
550     non-hydrostatic algorithms},
551     journal = jms,
552     volume = {18},
553     pages = {115--134},
554 cnh 1.29 url = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
555     doi = {10.1016/S0924-7963\%2898\%2900008-6},
556 heimbach 1.1 }
557    
558     @Article{mcw:96,
559     author = {J. McWilliams},
560     year = 1996,
561     title = {Modeling the oceanic general circulation},
562     journal = arfm,
563     volume = {28},
564     pages = {215--248},
565     }
566 edhill 1.13
567     %% Rew, R. K., G. P. Davis, S. Emmerson, and H. Davies
568     %% NetCDF User's Guide for C, An Interface for Data Access, Version 3, April 1997.
569     %% (Available from Unidata or in PostScript form by anonymous FTP from
570     %% ftp://ftp.unidata.ucar.edu/pub/netcdf/guidec.ps.Z). There is also
571     %% a hypertext version of the User's Guide available at
572     %% http://www.unidata.ucar.edu/packages/netcdf/guidec. NetCDF User's
573     %% Guide for Fortran 90 and NetCDF User's Guide for Fortran 77 are
574     %% also available.
575    
576     @TechReport{rew:97,
577     author = {R. K. Rew and G. P. Davis and S. Emmerson and H. Davies},
578     title = {{NetCDF User's Guide for C, FORTRAN 77, and FORTRAN 90},
579     An Interface for Data Access, Version 3},
580     institution = {Unidata Program Center},
581     type = {Report},
582     address = {Boulder, Colorado},
583     year = 1997,
584     note = {http://www.unidata.ucar.edu/packages/netcdf/},
585     }
586    
587    
588 heimbach 1.1 @Article{res-eta:98,
589     author = {J.M. Restrepo and G.K. Leaf and A. Griewank},
590     year = 1998,
591 cnh 1.5 title = {Circumventing storage limitations in variational
592 heimbach 1.1 data assimilation studies},
593     journal = {SIAM J. Sci. Comput.},
594     volume = {19},
595     pages = {1586--1605},
596     }
597    
598     @Article{ros-eta:93,
599     author = {N. Rostaing and S. Dalmas and A. Galligo},
600     year = 1993,
601     title = {Automatic differentiation in Odyss{\'e}e},
602     journal = {Tellus},
603     volume = {45A},
604     pages = {558--568},
605     }
606    
607     @incollection{she-and:89,
608     author = {J. Sheinbaum and D.L.T. Anderson},
609     year = 1989,
610     title = {Assimilation of XBT data using a variational
611     technique},
612     booktitle = {Oceanic circulation models:
613     Combining data and dynamics},
614     pages = {257--285},
615     series = {NATO ASI Series},
616     volume = {C 284},
617     editor = {{D.L.T. Anderson and J. Willebrand}},
618     publisher = {Springer-Verlag},
619     address = {Berlin (Germany)},
620     }
621 cnh 1.6
622     @Article{DaSilva94,
623     author = {A. da Silva and A. C. Young and S. Levitus},
624     year = 1994,
625     title = {Atlas of Surface Marine Data 1994, Volume 1: Algorithms and Procedures},
626     journal = {NOAA Atlas NESDIS},
627     volume = {6},
628     publisher = {U.S. Department of Commerce},
629     address = {Washington, D.C. (USA)},
630     note = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
631 cnh 1.28 url = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
632 cnh 1.6 }
633 heimbach 1.1
634     @techreport{sta-eta:97,
635     author = {D. Stammer and C. Wunsch and R. Giering and
636 cnh 1.6 Q. Zhang and J. Marotzke and J. Marshall and
637 heimbach 1.1 C. Hill},
638     year = 1997,
639     title = {The global ocean circulation estimated from
640     TOPEX/POSEIDON altimetry and a general circulation
641     model},
642     institution = {Center for Global Change Science, Massachusetts
643     Institute of Technology},
644     type = {Technical Report},
645     number = {49},
646     pages = {40 pp.},
647     address = {Cambridge (MA), USA},
648     }
649    
650 cnh 1.29 @ARTICLE{stam-eta:01,
651     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},
652     title = {The global ocean circulation and transports during 1992 -- 1997, estimated from ocean observations and a general circulation model.},
653     journal = jgr,
654     year = {2002a},
655     volume = {107(C9)},
656     pages = {3118},
657     doi = {10.1029/2001JC000888},
658     }
659    
660 cnh 1.6
661     @Article{Stommel66,
662     author = {H. Stommel},
663     year = 1948,
664     title = {The western intensification of wind-driven ocean currents},
665     journal = {Trans. Am. Geophys. Union},
666     volume = {29},
667     pages = {206},
668 heimbach 1.1 }
669    
670     @Article{tal-cou:87,
671     author = {O. Talagrand and P. Courtier},
672     year = 1987,
673     title = {Variational assimilation of meteorological
674     observations with the adjoint vorticity equation.
675     I: Theory},
676     journal = qjrms,
677     volume = {113},
678     pages = {1311--1328},
679     }
680    
681     @Article{tal:97,
682     author = {O. Talagrand},
683     year = 1997,
684     title = {Assimilation of observations, an introduction},
685     journal = {J.~Meteor.~Soc.~Japan},
686     volume = {75},
687     pages = {191--209},
688     }
689    
690     @book{tar:87,
691     author = {A. Tarantola},
692     title = {Inverse Problem Theory: Methods for data fitting
693     and model parameter estimation},
694     year = 1987,
695     publisher = {Elsevier},
696     address = {Amsterdam},
697     pages = {629 pp.},
698     }
699    
700     @techreport{tha:87,
701     author = {W.C. Thacker},
702     year = 1987,
703     title = {Three lectures on fitting numerical models to
704     observations},
705     institution = {GKSS},
706     type = {Report},
707     number = {87/E/65},
708     pages = {64 pp.},
709     address = {Geesthacht (D)},
710     }
711    
712     @Article{tha-lon:88,
713     author = {W.C. Thacker and R.B. Long},
714     year = 1988,
715     title = {Fitting dynamics to data},
716     journal = jgr,
717     volume = {93, C2},
718     pages = {1,227--1,240},
719     }
720    
721     @Article{tha:88,
722     author = {W.C. Thacker},
723     year = 1988,
724     title = {Fitting models to inadequate data by enforcing
725     spatial and temporal smoothness},
726     journal = jgr,
727     volume = {93},
728     pages = {10,655--10,665},
729     }
730    
731     @Article{tha:89,
732     author = {W.C. Thacker},
733     year = 1989,
734     title = {The role of the Hessian matrix in fitting models
735     to measurements},
736     journal = jgr,
737     volume = {94, C5},
738     pages = {6,177--6,196},
739     }
740    
741     @Article{tha-rag:94,
742     author = {W.C. Thacker and R. Raghunath},
743     year = 1994,
744     title = {The rigid lid's contribution to the ill-conditioning
745     of oceanic inverse problems},
746     journal = jgr,
747     volume = {99, C5},
748     pages = {10,131--10,141},
749     }
750    
751     @Article{tzi-tha:89,
752     author = {E. Tziperman and W.C. Thacker},
753     year = {1989},
754     title = {An optimal control / adjoint equation approach
755     to studying the ocean general circulation},
756     journal = jpo,
757     volume = {19},
758     pages = {1471--1485},
759     }
760    
761     @Article{tzi-eta:92a,
762     author = {E. Tziperman and W.C. Thacker and R.B. Long and
763     S. Hwang},
764     year = {1992a},
765     title = {Oceanic data analysis using a general circulation
766     model. I: Simulations},
767     journal = jpo,
768     volume = {22},
769     pages = {1434--1457},
770     }
771    
772     @Article{tzi-eta:92b,
773     author = {E. Tziperman and W.C. Thacker and R.B. Long and
774     S. Hwang and S.R. Rintoul},
775     year = {1992b},
776     title = {Oceanic data analysis using a general circulation
777     model. I: A North Atlantic model},
778     journal = jpo,
779     volume = {22},
780     pages = {1458--1485},
781     }
782    
783     @book{wun:96,
784     author = {C. Wunsch},
785     title = {The ocean circulation inverse problem},
786     year = 1996,
787     publisher = cup,
788     address = {Cambridge (UK)},
789     pages = {442 pp.},
790     }
791    
792     @Article{zha-mar:99,
793     author = {K.Q. Zhang and J. Marotzke},
794     year = 1999,
795     title = {The importance of open-boundary estimation for an
796     Indian Ocean GCM-data synthesis},
797     journal = {J.~Marine Res.},
798     volume = {57},
799     pages = {305--334},
800     }
801 adcroft 1.2
802    
803     @InCollection{hill:95,
804     author = {Hill, C. and J. Marshall},
805     title = {Application of a Parallel Navier-Stokes Model to
806     Ocean Circulation in Parallel Computational Fluid
807     Dynamics},
808     booktitle = {Implementations and Results Using Parallel
809     Computers},
810     pages = {545-552},
811     publisher = {Elsevier Science B.V.: New York},
812     year = 1995,
813     editor = {A. Ecer, J. Periaux, N. Satofuka and S. Taylor}
814     }
815    
816    
817     @Article{marshall:97a,
818 adcroft 1.4 author = {Marshall, J. and C. Hill and L. Perelman and A. Adcroft},
819 adcroft 1.2 title = {Hydrostatic, quasi-hydrostatic, and nonhydrostatic ocean
820     modeling},
821 jmc 1.25 journal = jgr,
822 adcroft 1.2 year = 1997,
823     volume = 102,
824     number = {C3},
825 cnh 1.29 pages = {5733-5752},
826     url = {http://mitgcm.org/pdfs/96JC02775.pdf},
827 adcroft 1.2 }
828    
829     @Article{marshall:97b,
830 cnh 1.10 author = {Marshall, J. and A. Adcroft and C. Hill and L. Perelman and C. Heisey},
831 adcroft 1.2 title = {A finite-volume, incompressible Navier Stokes model for
832     studies of the ocean on parallel computers},
833 jmc 1.25 journal = jgr,
834 adcroft 1.2 year = 1997,
835     volume = 102,
836     number = {C3},
837 cnh 1.29 pages = {5753-5766},
838     url = {http://mitgcm.org/pdfs/96JC02776.pdf},
839 adcroft 1.2 }
840    
841     @Article{adcroft:97,
842 adcroft 1.4 author = {Adcroft, A.J. and Hill, C.N. and J. Marshall},
843 adcroft 1.2 title = {Representation of topography by shaved cells in a height
844     coordinate ocean model},
845 jmc 1.25 journal = mwr,
846 adcroft 1.2 year = 1997,
847     volume = 125,
848 cnh 1.29 pages = {2293-2315},
849     url = {http://mitgcm.org/pdfs/mwr_1997.pdf},
850     doi = {10.1175/1520-0493\%281997\%29125<2293:ROTBSC>2.0.CO;2},
851 adcroft 1.2 }
852    
853 jmc 1.19 @Article{adcroft:04a,
854     author = {Adcroft, A. and J.-M. Campin},
855 jmc 1.14 title = {Re-scaled height coordinates for accurate representation
856     of free-surface flows in ocean circulation models},
857     journal = om,
858     year = 2004,
859 jmc 1.19 volume = 7,
860 cnh 1.28 pages = {269-284},
861     doi = {10.1016/j.ocemod.2003.09.003},
862 jmc 1.19 }
863    
864     @Article{adcroft:04b,
865     author = {Adcroft, A. and J.-M. Campin and C. Hill and J. Marshall},
866     title = {Implementation of an Atmosphere-Ocean General Circulation Model
867     on the Expanded Spherical Cube},
868     journal = mwr,
869     year = 2004,
870     volume = 132,
871 cnh 1.29 pages = {2845-2863},
872     url = {http://mitgcm.org/pdfs/mwr_2004.pdf},
873     doi = {10.1175/MWR2823.1},
874 jmc 1.19 }
875    
876     @Article{marshall:04,
877     author = {Marshall, J. and A. Adcroft and J.-M. Campin and C. Hill and A. White},
878     title = {Atmosphere-Ocean Modeling Exploiting Fluid Isomorphisms},
879     journal = mwr,
880     year = 2004,
881     volume = 132,
882 cnh 1.29 pages = {2882-2894},
883     url = {http://mitgcm.org/pdfs/a_o_iso.pdf},
884     doi = {10.1175/MWR2835.1},
885 jmc 1.14 }
886    
887 adcroft 1.2 @Article{visbeck:97,
888     author = {Visbeck, M., J. Marshall, T. Haine, and M. Spall},
889     title = {Specification of eddy transfer coefficients in
890     coarse-resolution ocean circulation models},
891 jmc 1.25 journal = jpo,
892 adcroft 1.2 year = 1997,
893     volume = 27,
894     number = 3,
895     pages = {381-402}
896     }
897    
898     @Article{shaw:98,
899     author = {Shaw; A. Arvind, Cho, K.-C., Hill, C., Johnson, R.P.
900     and Marshall, J.},
901     title = {A comparison of implicitly parallel multi-threaded and
902     data-parallel implementations of an ocean model based
903     on the Navier-Stokes equations},
904     journal = {J. of Parallel and Distributed Computing},
905     year = 1998,
906     volume = 48,
907     number = 1,
908     pages = {1-51}
909     }
910    
911     @Article{mjn:99,
912     author = {Marshall, J., Jamous, D and J. Nilsson},
913     title = {Reconciling `thermodynamic' and `dynamic' methods of
914     computation of water-mass transformation rates},
915     journal = {DSR},
916     year = 1999,
917     volume = 46,
918     pages = {545-572}
919     }
920    
921     @Article{ms:99,
922     author = {Marshall, J and F. Schott},
923     title = {Open ocean deep convection: observations, models and theory},
924     journal = {Rev. Geophys.},
925     year = 1999,
926     volume = 37,
927     number = 1,
928     pages = {1-64}
929     }
930    
931     @Article{adcroft:99,
932     author = {Adcroft, A., Hill C. and J. Marshall},
933     title = {A new treatment of the Coriolis terms in C-grid models
934     at both high and low resolutions},
935 jmc 1.25 journal = mwr,
936 adcroft 1.2 year = 1999,
937     volume = 127,
938 cnh 1.29 pages = {1928-1936},
939     url = {http://mitgcm.org/pdfs/mwr_1999.pdf},
940     doi = {10.1175/1520-0493\%281999\%29127<1928:ANTOTC>2.0.CO;2},
941 adcroft 1.2 }
942    
943     @InProceedings{hill:99,
944     author = {Chris Hill, Alistair Adcroft, Daniel Jamous and John Marshall},
945     title = {A Strategy for Terascale Climate Modeling},
946 cnh 1.8 booktitle = {In Proceedings of the Eighth ECMWF Workshop on the Use of Parallel Processors in Meteorology},
947 cnh 1.9 year = 1999,
948     pages = {406-425},
949     publisher = {World Scientific},
950 adcroft 1.2 }
951    
952     @Article{wardle:00,
953     author = {Wardle R. and Marshall J.},
954     title = {Representation of eddies in primitive equation models by a PV flux},
955 jmc 1.25 journal = jpo,
956 adcroft 1.2 year = 2000,
957     volume = 30,
958     number = 10,
959     pages = {2481-2503}
960     }
961    
962     @Article{ac:02,
963     author = {Adcroft, A. and J.-M. Campin},
964     title = {Comparison of finite volume schemes and direct-space-time
965     methods for ocean circulation models},
966 jmc 1.14 journal = om,
967 adcroft 1.2 year = 2002,
968     note = {in preparation}
969     }
970    
971     @Article{adcroft:02,
972 jmc 1.25 author = {Adcroft, A., et~al.},
973 adcroft 1.2 title = {Energy conversion in discrete numerical models},
974 jmc 1.14 journal = om,
975 adcroft 1.2 year = 2002,
976     note = {in preparation}
977     }
978    
979     @InCollection{arakawa:77,
980     author = {Arakawa, A. and Lamb, V.},
981     title = {Computational Design of the Basic Dynamical Processes of
982     the UCLA General Circulation Model},
983     booktitle = {Methods in Computational Physics},
984     pages = {174-267},
985     publisher = {Academic Press},
986     year = 1977,
987     volume = 17
988     }
989    
990 jmc 1.24 @Article{miller_white:84,
991     author = {Miller, M. J. and White, A. A.},
992     title = {On the non-hydrostatic equations in pressure
993     and sigma coordiantes},
994 jmc 1.25 journal = qjrms,
995 jmc 1.24 year = 1984,
996     volume = 110,
997     pages = {515-533}
998     }
999    
1000     @Article{white:89,
1001     author = {White, A. A.},
1002     title = {An extended version of a nonhydrostatic, pressure coordiante model},
1003 jmc 1.25 journal = qjrms,
1004 jmc 1.24 year = 1989,
1005     volume = 115,
1006     pages = {1243-1251}
1007     }
1008    
1009 adcroft 1.2 @Article{adcroft:98,
1010     author = {Adcroft, A. and Marshall, D.},
1011 adcroft 1.3 title = {How slippery are piecewise-constant coastlines in numerical
1012     ocean models?},
1013 adcroft 1.2 journal = {Tellus},
1014 adcroft 1.3 year = 1998,
1015     volume = 50,
1016     number = 1,
1017     pages = {95-108}
1018     }
1019    
1020     @PhdThesis{adcroft:95,
1021     author = {Adcroft, A.},
1022     title = {Numerical Algorithms for use in a Dynamical Model of the
1023     Ocean},
1024     school = {Imperial College, London},
1025     year = 1995
1026     }
1027    
1028     @Article{griffies:00,
1029     author = {Griffies, S.,M. and Hallberg, R.,W.},
1030     title = {Biharmonic friction with a Smagorinsky-like viscosity for
1031     use in large-scale eddy-permitting ocean models},
1032 jmc 1.25 journal = mwr,
1033 adcroft 1.3 year = 2000,
1034     volume = 128,
1035     number = 8,
1036     pages = {2935-2946}
1037     }
1038    
1039     @Article{wajsowicz:93,
1040     author = {Wajsowicz, R.},
1041     title = {A CONSISTENT FORMULATION OF THE ANISOTROPIC STRESS TENSOR
1042     FOR USE IN MODELS OF THE LARGE-SCALE OCEAN CIRCULATION},
1043 jmc 1.25 journal = jcp,
1044 adcroft 1.3 year = 1993,
1045     volume = 105,
1046     number = 2,
1047     pages = {333-338}
1048     }
1049    
1050     @Article{campin:02,
1051 jmc 1.14 author = {Campin, J.-M. and A. Adcroft and C. Hill and J. Marshall},
1052 adcroft 1.3 title = {Conservation of properties in a free-surface model},
1053 jmc 1.14 journal = om,
1054     year = 2004,
1055     volume = 6,
1056     pages = {221-244}
1057 adcroft 1.4 }
1058    
1059     @Article{dm:95,
1060     author = {Danabasoglu, G. and McWilliams J.C.},
1061     title = {Sensitivity of the global ocean circulation to parameterizations of mesoscale tracer transports},
1062 jmc 1.25 journal = jclim,
1063 adcroft 1.4 year = 1995,
1064     volume = 8,
1065     number = 12,
1066     pages = {2967-2987}
1067     }
1068    
1069     @Article{ldd:97,
1070     author = {Large, W.G. and Danabasoglu, G. and Doney, S.C. and McWilliams, J.C.},
1071     title = {Sensitivity to surface forcing and boundary layer mixing in a global ocean model: Annual-mean climatology},
1072 jmc 1.25 journal = jpo,
1073 adcroft 1.4 year = 1997,
1074     volume = 27,
1075     number = 11,
1076     pages = {2418-2447}
1077     }
1078    
1079     @Article{gkw:99,
1080     author = {Gerdes R. and Koberle C. and Beckmann A. and Herrmann P. and Willebrand J.},
1081     title = {Mechanisms for spreading of Mediterranean water in
1082     coarse-resolution numerical models},
1083 jmc 1.25 journal = jpo,
1084 adcroft 1.4 year = 1999,
1085     volume = 29,
1086     number = 8,
1087     pages = {1682-1700}
1088     }
1089    
1090 jmc 1.17 @incollection{roe:85,
1091     author = {P.L. Roe},
1092     year = 1985,
1093     title = {Some contributions to the modelling of discontinuous flows},
1094     booktitle = {Large-Scale Computations in Fluid Mechanics},
1095     series = {Lectures in Applied Mathematics},
1096     volume = 22,
1097     pages = {163-193},
1098     editor = {B.E. Engquist and S. Osher and R.C.J. Somerville},
1099     publisher = {American Mathematical Society},
1100     address = {Providence, RI},
1101 adcroft 1.2 }
1102    
1103 mlosch 1.12 @Article{trenberth90,
1104     author = {K. M. Trenberth and J. Olson and W. G. Large},
1105     title = {The Mean Annual Cycle in {G}lobal {O}cean Wind
1106     Stress},
1107     journal = jpo,
1108     year = 1990,
1109     volume = 20,
1110     pages = {1742--1760}
1111 jmc 1.14 }
1112    
1113     @Article{molteni:03,
1114 jmc 1.27 author = {F. Molteni},
1115 edhill 1.30 title = {Atmospheric simulations using a {GCM} with simplified physical
1116     parametrization, {I}: Model climatology and variability in
1117 jmc 1.14 multidecadal experiments},
1118     journal = climd,
1119     year = 2003,
1120     volume = 20,
1121     pages = {175--191}
1122 mlosch 1.12 }
1123    
1124     @Article{jiang99,
1125 edhill 1.21 author = {S. Jiang and P. H. Stone and P. Malanotte-Rizzoli},
1126 mlosch 1.12 title = {An Assessment of the {G}eophysical {F}luid
1127     {D}ynamics {L}aboratory Ocean Model with Coarse
1128     Resolution: Annual-Mean Climatology},
1129     journal = jgr,
1130     year = 1999,
1131     volume = 104,
1132     number = {C11},
1133     pages = {25,623--25,645}
1134     }
1135    
1136     @Article{szoeke02,
1137     author = {de Szoeke, Roland A. and Roger M. Samelson},
1138     title = {The Duality between the {B}oussinesq and
1139     {N}on-{B}oussinesq Hydrostatic Equations of Motion},
1140     journal = jpo,
1141     year = 2002,
1142     volume = 32,
1143     number = 8,
1144     pages = {2194--2203}
1145     }
1146    
1147     @Article{jackett95,
1148     author = {David R. Jackett and Trevor J. McDougall},
1149     title = {Minimal Adjustment of Hydrographic Profiles to
1150     Achieve Static Stability},
1151     journal = jaot,
1152     year = 1995,
1153     volume = 12,
1154     number = 4,
1155     pages = {381--389}
1156     }
1157    
1158     @Article{mcdougall03,
1159     author = {Trevor J. McDougall and David R. Jackett and Daniel
1160     G. Wright and Rainer Feistel},
1161     title = {Accurate and Computationally Efficient Algorithms
1162     for Potential Temperature and Density of Seawater},
1163     journal = jaot,
1164     year = {2003},
1165     OPTkey = {},
1166     OPTvolume = {},
1167     OPTnumber = {},
1168     OPTpages = {},
1169     OPTmonth = {},
1170     OPTnote = {{\textup{In press}}},
1171     OPTannote = {}
1172     }
1173    
1174     @TechReport{fofonoff83,
1175     author = "Fofonoff, P. and Millard, Jr., R.C.",
1176     title = "Algorithms for Computation of Fundamental Properties
1177     of Seawater",
1178     institution = "Unesco",
1179     year = 1983,
1180     type = "Unesco Technical Papers in Marine Science",
1181     number = 44,
1182     pages = {53 pp.}
1183     }
1184    
1185 edhill 1.15 @ARTICLE{zha98a,
1186     AUTHOR = "J. Zhang and W. D. {Hibler, III} and M. Steele
1187     and D. A. Rothrock",
1188     TITLE = "Arctic ice-ocean modeling with and without climate restoring",
1189     JOURNAL = jpo,
1190     YEAR = 1998,
1191     VOLUME = 28,
1192     PAGES = "191-217"
1193     }
1194    
1195     @ARTICLE{sem76,
1196     AUTHOR = "Semtner, Jr., Albert J.",
1197     TITLE = "A model for the thermodynamic growth of sea ice in
1198     numerical investigations of climate",
1199     JOURNAL = jpo,
1200     YEAR = 1976,
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1228     VOLUME = 22,
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1266     year = {2005},
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1299     institution = {NCAR},
1300     year = {1989},
1301     OPTkey = {},
1302     OPTtype = {},
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1350     year = {1994},
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1353     institution = {National Aeronautics and Space Administration},
1354     type = {NASA Technical Memorandum},
1355     number = {104606-Vol 3},
1356     address = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
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1435     address = {NASA; Goddard Space Flight Center; Greenbelt (MD), 20771; USA},
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1553     volume = {122},
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1555     }
1556 molod 1.23
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1584     journal = {Climate Dyn.},
1585     volume = {17},
1586     pages = {777-794}
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1607 edhill 1.26 @TechReport{MPI-std-20,
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1609     title = {{MPI}: A Message-Passing Interface standard (version 2.0)},
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1611     year = {1998},
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