| 32 |  |  | 
| 33 | CONTENTS | CONTENTS | 
| 34 |  |  | 
|  |  |  | 
|  |  |  | 
| 35 | code: modifications to MITgcm to run in cyclindrical coordinates.  At | code: modifications to MITgcm to run in cyclindrical coordinates.  At | 
| 36 | the time of this writing, it requires checkpoint48 to compile and run. | the time of this writing, it requires checkpoint48 to compile and run. | 
| 37 |  |  | 
| 38 |  | input: initialization and input files for MITgcm | 
| 39 |  |  | 
| 40 | filter: source and data files to run the data assimilation and Kalman | filter: source and data files to run the data assimilation and Kalman | 
| 41 | filter. | filter. | 
| 42 |  |  | 
| 43 |  | utils: assorted Matlab m-files | 
| 44 |  |  | 
| 45 |  | EnKF: empty | 
| 46 |  |  | 
| 47 |  | run: empty | 
| 48 |  |  | 
| 49 |  |  | 
| 50 |  | COMPILING AND RUNNING THE MODEL | 
| 51 |  |  | 
| 52 |  | The following series of commands creates the MITgcm executable. | 
| 53 |  |  | 
| 54 |  | From the MITgcm root: | 
| 55 |  |  | 
| 56 |  | cd verification/osse | 
| 57 |  | mkdir build   # directory name is arbitrary | 
| 58 |  | cd build | 
| 59 |  | ../../../tools/genmake -mods=../code  # creates makefile | 
| 60 |  | make depend       # contructs Fortran code from model codebase | 
| 61 |  | make              # makes executable mitgcmuv | 
| 62 |  |  | 
| 63 |  | Try a test run, while redirecting the standard output to a file.  The | 
| 64 |  | input directory contains files that should be present in the working | 
| 65 |  | directory when you run mitgcmuv.  It is recommended that you copy the | 
| 66 |  | input contents to a different directory for running -- mitgcmuv does | 
| 67 |  | not change them, but they can be lost in the multitudes of output | 
| 68 |  | files. | 
| 69 |  |  | 
| 70 |  | The data assimilation code is made by typing ``make'' in the filter | 
| 71 |  | directory. | 
| 72 |  |  | 
| 73 |  |  |