--- manual/manual_references.bib	2006/04/04 20:14:03	1.27
+++ manual/manual_references.bib	2006/11/17 01:33:05	1.31
@@ -71,6 +71,18 @@
                   Argonne (ILL), 90439; USA},
  note           = {http://www.mcs.anl.gov/autodiff/},
 		  }
+
+@ARTICLE{bugi-hill:06,
+  author = {V. Bugnion and C. Hill},
+  title = {Equilibration mechanisms in an adjoint ocean general
+           circulation model},
+  journal = {Ocean Dynamics},
+  year = {2006},
+  volume = {56},
+  number = {1},
+  pages = {51-61},
+  doi   = {10.1007/s10236-005-0052-z},
+}
  
 @techreport{bis-roh:97,
  author		= {C. Bishof and L. Roh},
@@ -118,6 +130,17 @@
  volume		= {120},
  pages		= {1367--1387},
 		  }
+
+@ARTICLE{dutk-etal:06,
+  author = {S. Dutkiewicz and M.J. Follows and P. Heimbach and J. Marshall},
+  title = {Controls on ocean productivity and air-sea carbon flux:
+           An adjoint model sensitivity study},
+  journal = grl,
+  year = {2006},
+  volume = {33},
+  pages  = {L02603},
+  doi    = {10.1029/2005GL024987},
+}
  
 @Article{err:97,
  author		= {R.M. Errico},
@@ -358,6 +381,15 @@
  pages          = {658-669}
 		  }
 
+@Article{jam-oze:86,
+ author		= {B.M. Jamart and J. Ozer}, 
+ year		= {1986},
+ title		= {Numerical boundary layers and spurious residual flows}, 
+ journal	= jgr,
+ volume         = {91},
+ pages          = {10,621-10,631}
+		  }
+
 @book{kas-eta:00,
  author		= {P. Kasibhatla and M. Heimann and P. Rayner and
                   N. Mahowald and R.G. Prinn and D.E. Hartley},
@@ -454,6 +486,17 @@
  pages          = {38 pp.},
  address	= {Delft (NL)},
 		  }
+
+@ARTICLE{losc-heim:06,
+  author = {M. Losch and P. Heimbach},
+  title = {Adjoint sensitivity of an ocean general circulation model
+           to bottom topography},
+  journal = jpo,
+  year = {2006},
+  volume = {{in press}},
+  url    = {http://mitgcm.org/pdfs/Los2006a.pdf},
+}
+
  
 @Article{maro-wun:93,
  author		= {J. Marotzke and C. Wunsch},
@@ -508,6 +551,8 @@
  journal	= jms,
  volume		= {18},
  pages		= {115--134},
+ url            = {http://mitgcm.org/pdfs/journal_of_marine_systems_1998.pdf},
+ doi            = {10.1016/S0924-7963\%2898\%2900008-6},
 		  }
  
 @Article{mcw:96,
@@ -583,6 +628,7 @@
  publisher	= {U.S. Department of Commerce},
  address	= {Washington, D.C. (USA)},
  note           = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
+ url            = {http:////ingrid.ldeo.columbia.edu/SOURCES/.DASILVA/.SMD94/},
 		  }
  
 @techreport{sta-eta:97,
@@ -601,17 +647,16 @@
  address	= {Cambridge (MA), USA},
 		  }
  
-@Article{sta-eta:01,
- author		= {D. Stammer and C. Wunsch and R. Giering and
-                  C. Eckert and P. Heimbach and J. Marotzke and
-                  A. Adcroft and C. Hill and J. Marshall},
- year		= 2001,
- title		= {The global ocean circulation during 1992 -- 1997,
-                  estimated from ocean observations and a general
-                  circulation model},
- journal	= jgr,
- note		= {in press},
-		  }
+@ARTICLE{stam-eta:01,
+  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},
+  title = {The global ocean circulation and transports during 1992 -- 1997, estimated from ocean observations and a general circulation model.},
+  journal = jgr,
+  year = {2002a},
+  volume = {107(C9)},
+  pages = {3118},
+  doi   = {10.1029/2001JC000888},
+}
+
 
 @Article{Stommel66,
  author		= {H. Stommel},
@@ -777,7 +822,8 @@
   year = 	 1997,
   volume =	 102,
   number =	 {C3},
-  pages =	 {5733-5752}
+  pages =	 {5733-5752},
+  url      =     {http://mitgcm.org/pdfs/96JC02775.pdf},
 }
 
 @Article{marshall:97b,
@@ -788,7 +834,8 @@
   year = 	 1997,
   volume =	 102,
   number =	 {C3},
-  pages =	 {5753-5766}
+  pages =	 {5753-5766},
+  url      =     {http://mitgcm.org/pdfs/96JC02776.pdf},
 }
 
 @Article{adcroft:97,
@@ -798,7 +845,9 @@
   journal = 	 mwr,
   year = 	 1997,
   volume =	 125,
-  pages =	 {2293-2315}
+  pages =	 {2293-2315},
+  url   =        {http://mitgcm.org/pdfs/mwr_1997.pdf},
+  doi       =    {10.1175/1520-0493\%281997\%29125<2293:ROTBSC>2.0.CO;2},
 }
 
 @Article{adcroft:04a,
@@ -808,7 +857,8 @@
   journal = 	 om,
   year = 	 2004,
   volume =	 7,
-  pages =	 {269-284}
+  pages =	 {269-284},
+  doi   =        {10.1016/j.ocemod.2003.09.003},
 }
 
 @Article{adcroft:04b,
@@ -818,7 +868,9 @@
   journal = 	 mwr,
   year = 	 2004,
   volume =	 132,
-  pages =	 {2845-2863}
+  pages =	 {2845-2863},
+  url   =        {http://mitgcm.org/pdfs/mwr_2004.pdf},
+  doi     =      {10.1175/MWR2823.1},
 }
 
 @Article{marshall:04,
@@ -827,7 +879,9 @@
   journal = 	 mwr,
   year = 	 2004,
   volume =	 132,
-  pages =	 {2882-2894}
+  pages =	 {2882-2894},
+  url   =        {http://mitgcm.org/pdfs/a_o_iso.pdf},
+  doi    =       {10.1175/MWR2835.1},
 }
 
 @Article{visbeck:97,
@@ -854,15 +908,6 @@
   pages =	 {1-51}
 }
 
-@Article{marshall:98,
-  author = 	 {J. Marshall and H. Jones and C. Hill},
-  title = 	 {Efficient ocean modeling using non-hydrostatic algorithms},
-  journal = 	 {JMR},
-  year = 	 1998,
-  volume =	 18,
-  pages =	 {115-134}
-}
-
 @Article{mjn:99,
   author = 	 {Marshall, J., Jamous, D and J. Nilsson},
   title = 	 {Reconciling `thermodynamic' and `dynamic' methods of
@@ -890,7 +935,9 @@
   journal = 	 mwr,
   year = 	 1999,
   volume =	 127,
-  pages =	 {1928-1936}
+  pages =	 {1928-1936},
+  url   =        {http://mitgcm.org/pdfs/mwr_1999.pdf},
+  doi   =        {10.1175/1520-0493\%281999\%29127<1928:ANTOTC>2.0.CO;2},
 }
 
 @InProceedings{hill:99,
@@ -1065,8 +1112,8 @@
 
 @Article{molteni:03,
   author =	 {F. Molteni},
-  title =	 {Atmospheric simulations using a GCM with simplified physical
-                  parametrizations, I: Model climatology and variability in 
+  title =	 {Atmospheric simulations using a {GCM} with simplified physical
+                  parametrization, {I}: Model climatology and variability in 
                   multidecadal experiments},
   journal =	 climd,
   year =	 2003,