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1 @string{arfm = {Annu.~Rev.~Fluid Mech.}}
2 @string{bams = {Bull.~Am.~Met.~Soc.}}
3 @string{blm = {Bound.~Layer~Meteorol.}}
4 @string{climd = {Clim.~Dynamics}}
5 @string{jgr = {J.~Geophys.~Res.}}
6 @string{ijrs = {Int.~J.~Remote Sensing}}
7 @string{jas = {J.~Atmos.~Sci.}}
8 @string{jam = {J.~Appl.~Meteor.}}
9 @string{jpo = {J.~Phys.~Oceanogr.}}
10 @string{jclim = {J.~Clim.}}
11 @string{jcp = {J.~Comput.~Phys.}}
12 @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 @string{om = {Ocean Modelling}}
17 @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
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
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
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118 journal = tel,
119 volume = {42A},
120 pages = {531--549},
121 }
122
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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
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
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 @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 @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
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
334 @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 @Article{hil-eta:01,
344 author = {C. Hill and M. Follows and V. Bugnion and
345 J. Marshall},
346 year = {2002},
347 title = {Spatial and Temporal Impacts of ocean general
348 circulation on carbon sequestration},
349 journal = {Global Biogeochemical Cycles},
350 note = {submitted},
351 }
352
353 @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 @Article{Holland75,
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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
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379 journal = jpo,
380 volume = {5},
381 pages = {658-669}
382 }
383
384 @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
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398 year = 1994,
399 title = {Oceanic vertical mixing: A review and a model
400 with nonlocal boundary layer parameterization},
401 journal = {Rev.~Geophys.},
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404 }
405
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409 year = 1997,
410 title = {Sensitivity to surface forcing and boundary layer
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413 journal = jpo,
414 volume = {27},
415 pages = {2418--2447},
416 }
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420 year = 1986,
421 title = {Variational algorithms for analysis and
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427 }
428
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
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
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465 volume = {37A},
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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
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
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
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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 url = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
546 doi = {10.1016/S0924-7963\%2898\%2900008-6},
547 }
548
549 @Article{mcw:96,
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551 year = 1996,
552 title = {Modeling the oceanic general circulation},
553 journal = arfm,
554 volume = {28},
555 pages = {215--248},
556 }
557
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},
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574 year = 1997,
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607 volume = {C 284},
608 editor = {{D.L.T. Anderson and J. Willebrand}},
609 publisher = {Springer-Verlag},
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624
625 @techreport{sta-eta:97,
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629 year = 1997,
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633 institution = {Center for Global Change Science, Massachusetts
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636 number = {49},
637 pages = {40 pp.},
638 address = {Cambridge (MA), USA},
639 }
640
641 @ARTICLE{stam-eta:01,
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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},
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670 }
671
672 @Article{tal:97,
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674 year = 1997,
675 title = {Assimilation of observations, an introduction},
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678 pages = {191--209},
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680
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686 publisher = {Elsevier},
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692 author = {W.C. Thacker},
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696 institution = {GKSS},
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