/[MITgcm]/MITgcm_contrib/gael/comm/course-idma2016/guidelines/iap-idma-instructions
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revision 1.1 by gforget, Thu Jan 7 20:23:50 2016 UTC revision 1.6 by gforget, Thu Jan 14 15:17:57 2016 UTC
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1    
2  ---- downloading matlab toolboxes ----  ---- downloading matlab toolboxes ----
3    
4  0) login as guest  1) create a directory called `iap-idma' and two subdirectories
5       called `iap-idma/matlab' and `iap-idma/release1'
6    
7  1) open web browser and download setup_gcmfaces_and_mitprof.csh  2) open a web browser and download the following two files:
8     from http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/gael/       ftp://mit.ecco-group.org/ecco_for_las/version_4/checkpoints/gcmfaces_20160114.tar.gz
9         ftp://mit.ecco-group.org/ecco_for_las/version_4/checkpoints/c65r_MITprof.tar.gz
10    
11  notes :  3) move these two files to the idma directory and uncompress them.
    to download this script: click on the file name, then  
      on the download button near the top of the page  
    if you are using a windows computer then the shell  
      script method wont do it -- see 'alternative download method'  
   
 2) open terminal window and download tooloxes via shell script:  
    csh  
    mkdir iap-idma  
    mv Downloads/setup_gcmfaces_and_mitprof.csh iap-idma/  
    cd iap-idma  
    source ./setup_gcmfaces_and_mitprof.csh  
   
 notes :  
    disk space requirement ~ 800M (plus session specific items)  
    2011 or later matlab version is needed (for native netcdf implementation)  
12    
13  2') alternative download method:  4) the iap-idma directory should now contain two subdirectories
14     - open a web browser and go to     named `gcmfaces' and `c65r_MITprof'. Rename c65r_MITprof as `MITprof'.
      http://mit.ecco-group.org/opendap/ecco_for_las/version_4/checkpoints/c65r_gcmfaces.tar.gz  
      http://mit.ecco-group.org/opendap/ecco_for_las/version_4/checkpoints/c65r_MITprof.tar.gz  
    - move the two downloaded files to your iap-idma directory  
    - click on each of the two files to unpack c65r_gcmfaces and c65r_MITprof  
    - rename c65r_gcmfaces as gcmfaces and c65r_MITprof as MITprof  
15    
16  notes :  notes :
17     for session 1 you only need MITprof but gcmfaces will come  - disk space requirement ~ 800M (plus session specific items that will be added later)
18        handy later so your might as well download both right away  - 2011 or later matlab version is needed (for native netcdf implementation)
19     the shell script method uses CVS (see http://mitgcm.org/public/using_cvs.html)  - for session 1 you only need MITprof but gcmfaces will come
20        and should be preferred if possible (e.g. under linux or IOS on a MAC)    handy later so your might as well download both right away
       since CVS allows for updates later on.  
21    
22  ---- for session #1 ----  ---- for session #1 ----
23    
24  1,2) same as above (see 'downloading matlab toolboxes')  1) see 'downloading matlab toolboxes'
25    
26  3) download idma_float_plot.m from http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/gael/comm/course-idma2016/matlab/  2) download idma_float_plot.m, idma_box_subset.m, and idma_box_mean.m from
27         http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/gael/comm/course-idma2016/matlab/
28    
29  4) in terminal window  3) move these files to the iap-idma/matlab directory  
    mv ~/Downloads/idma_float_plot.m ~/iap-idma/.  
30    
31  5) download Argo etc  4) using you favorite ftp client (e.g. fetch in iOS, secureFX in MS-windows,
32     cd ~/iap-idma     or wget in LINUX) to download the following directory:
33     mkdir release1        ftp://mit.ecco-group.org/ecco_for_las/version_4/release1/MITprof_release1
34     wget --recursive ftp://mit.ecco-group.org/ecco_for_las/version_4/release1/MITprof_release1    
35     mv mit.ecco-group.org/ecco_for_las/version_4/release1/MITprof_release1 release1/.  5) move MITprof_release1 to the iap-idma/release1 directory
36    
37  6) start matlab and run idma_float_plot.m  6) start matlab, go to the iap-idma directory, and type:
    matlab  
38     addpath matlab/     addpath matlab/
39     [p]=idma_float_plot('2900828');     [p]=idma_float_plot('4900828');
40       box_l=[-180 -140]; box_L=[-10 10]-30; box_D=[0 300];
41       [prof_T,prof_Testim,prof_Tweight]=idma_box_subset(box_l,box_L,box_D);
42       [boxmean,tim,dep]=idma_box_mean(prof_T,prof_Tweight);
43       figureL; pcolor(tim,-dep,boxmean); colorbar;
44    
45  notes :  notes :
46     disk space requirement ~ 6.4G (plus 0.8G from steps 1,2)  - disk space requirement ~ 6.4G
47     start matlab at command line : matlab -nodesktop  - idma_float_plot.m and idma_box_subset.m both add the
48     idma_float_plot adds the MITprof/ subdirectories to the matlab path    iap-idma/MITprof/ and its subdirectories to the matlab path
49    - idma_box_subset is the most time consuming of the three
50      scripts and may take ~3 minutes
51    
52    ----- for session #2 -----
53    
54    1) see 'downloading matlab toolboxes'
55       note: make sure to use gcmfaces_20160114.tar.gz or the up to date version of
56             gcmfaces from CVS (rather than c65r_MITprof.tar.gz or earlier versions).
57    2) download the m_map plotting toolbox (use the 'zip archive' link) from
58          https://www.eoas.ubc.ca/~rich/map.html
59       unzip and move it to iap-idma/
60    2) using you favorite ftp client (e.g. fetch in iOS, secureFX in MS-windows,
61       or wget in LINUX) to download the following directory (145M):
62          ftp://mit.ecco-group.org/ecco_for_las/version_4/release1/nctiles_grid
63       and move it to iap-idma/
64    3) using you favorite ftp client (e.g. fetch in iOS, secureFX in MS-windows,
65       or wget in LINUX) to download the following directory (14G):
66          ftp://mit.ecco-group.org/ecco_for_las/version_4/release1/nctiles_climatology
67       and move it to iap-idma/release1/
68    4) start matlab, go to the iap-idma directory, and type:
69          p = genpath([pwd filesep 'gcmfaces/']); addpath(p);
70          p = genpath([pwd filesep 'MITprof/']); addpath(p);
71          p = genpath([pwd filesep 'm_map/']); addpath(p);
72          grid_load;%load ECCO v4 grid into mygrid
73          gcmfaces_global;%declare mygrid as global
74          disp(mygrid);%displays grid variables
75          diags=example_transports;%computes transports (takes ~ 2 minutes)
76          example_transports_disp(diags);%display results
77       then proceed as explained in section 5 of gcmfaces/gcmfaces.pdf
78       to use diags_driver.m and diags_display.m (takes ~ 5 minutes)
79    
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