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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
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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
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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},
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110 }
111
112 @Article{cou-tal:90,
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114 year = 1990,
115 title = {Variational assimilation of meteorological
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118 journal = tel,
119 volume = {42A},
120 pages = {531--549},
121 }
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126 year = 1994,
127 title = {A strategy for operational implementation of
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129 journal = qjrms,
130 volume = {120},
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133
134 @ARTICLE{dutk-etal:06,
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136 title = {Controls on ocean productivity and air-sea carbon flux:
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138 journal = grl,
139 year = {2006},
140 volume = {33},
141 pages = {L02603},
142 doi = {10.1029/2005GL024987},
143 }
144
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147 year = 1997,
148 title = {What is an adjoint model},
149 journal = bams,
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153
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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:
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169 journal = jas,
170 volume = {53},
171 pages = {2025--2040},
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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},
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201 journal = {Optimisation Methods and Software},
202 note = {in press},
203 }
204
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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,
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263 year = 1989,
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265 quasi-Newton algorithms},
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270
271 @book{gil-eta:81,
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273 title = {Practical optimization},
274 year = 1981,
275 publisher = {Academic Press},
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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}
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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 }
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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
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319 journal = jas,
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328 journal = jpo,
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333
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336 year = {1994},
337 title = {A proposal for the intercomparison of the dynamical cores of atmospheric general circulation models},
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339 volume = {75(10)},
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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 }
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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
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365 title = {On the origin of mesoscale eddies and their contribution
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375 year = {1975b},
376 title = {On the origin of mesoscale eddies and their contribution
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382 }
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386 year = {1986},
387 title = {Numerical boundary layers and spurious residual flows},
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393 @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},
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414
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418 year = 1997,
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437
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 }
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479 author = {R.B. Long},
480 year = 1988,
481 title = {Notes on assimilating observations into
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483 institution = {Delft Hydraulics},
484 type = {Report},
485 number = {~},
486 pages = {38 pp.},
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488 }
489
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
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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
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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
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525 author = {J. Marshall and C. Hill and L. Perelman and
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528 title = {Hydrostatic, quasi-hydrostatic and
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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 url = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
555 doi = {10.1016/S0924-7963\%2898\%2900008-6},
556 }
557
558 @Article{mcw:96,
559 author = {J. McWilliams},
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563 volume = {28},
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565 }
566
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 @incollection{naum-etal:06,
577 Author = {U. Naumann and J. Utke and P. Heimbach and C. Hill and D. Ozyurt and C. Wunsch and M. Fagan and N. Tallent and M. Strout},
578 Booktitle = {European Conference on Computational Fluid Dynamics ECCOMAS CFD 2006},
579 Editor = {{P. Wesseling, E. O~nate and J. Periaux}},
580 Pages = {~},
581 Publisher = {TU Delft},
582 Title = {Adjoint code by source transformation with OpenAD/F},
583 Year = {2006}}
584
585 @TechReport{rew:97,
586 author = {R. K. Rew and G. P. Davis and S. Emmerson and H. Davies},
587 title = {{NetCDF User's Guide for C, FORTRAN 77, and FORTRAN 90},
588 An Interface for Data Access, Version 3},
589 institution = {Unidata Program Center},
590 type = {Report},
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592 year = 1997,
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625 volume = {C 284},
626 editor = {{D.L.T. Anderson and J. Willebrand}},
627 publisher = {Springer-Verlag},
628 address = {Berlin (Germany)},
629 }
630
631 @article{utke-etal:08,
632 Author = {J. Utke and U. Naumann and M. Fagan and N. Tallent and M. Strout and P. Heimbach and C. Hill and D. Ozyurt and C. Wunsch},
633 Date-Modified = {2007-11-19 10:15:08 -0500},
634 Journal = {{ACM} Transactions on Mathematical Software},
635 Pages = {~},
636 Title = {OpenAD/F: A modular open source tool for automatic differentiation of Fortran codes},
637 Volume = {34(4)},
638 Year = {2008}}
639
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645 volume = {6},
646 publisher = {U.S. Department of Commerce},
647 address = {Washington, D.C. (USA)},
648 note = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
649 url = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
650 }
651
652 @techreport{stam-etal:97,
653 author = {D. Stammer and C. Wunsch and R. Giering and
654 Q. Zhang and J. Marotzke and J. Marshall and
655 C. Hill},
656 year = 1997,
657 title = {The global ocean circulation estimated from
658 TOPEX/POSEIDON altimetry and a general circulation
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660 institution = {Center for Global Change Science, Massachusetts
661 Institute of Technology},
662 type = {Technical Report},
663 number = {49},
664 pages = {40 pp.},
665 address = {Cambridge (MA), USA},
666 }
667
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675 doi = {10.1029/2001JC000888},
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