Ocean datasets

Below are the important links to ocean database around the world. I collected them here for easy searching for young oceanographers. Some of them, I found from other website, such as from Eleanor Frajka-Williams’s website. I will add more if I found many others useful links in oceanography. Please let me know other useful website so I can put here too.
  1. INSTANT project: Velocity at Makassar, Lombok, Ombai and Timor Straits of the Indonesian maritime.
  2. Quikscat ocean winds
  3. NCEP Reanalysis 2 daily surface heat fluxes
  4. ETOPO Bathymetry
  5. World Ocean Database 2005
  6. World Ocean Atlas 2009
  7. SeaWiFS Ocean Color
  8. Altimetry – Along Track Gridded Sea Surface Height Anomaly
  9. Altimetry – Gridded (AVISO multimission)
  10. IRI/LDEO Climate Data Library: The IRI/LDEO Climate Data Library contains a wide variety of earth science data, primarily oceanographic and atmospheric datasets.
  11. NOAA-CIRES Climate Diagnostics Center: The mission of CDC is to identify the nature and causes of climate variations on time scales ranging from a month to centuries. The goal of this work is to develop the ability to predict important climate variations on these time scales.
  13. NCAR/DSS Research Data Website: This site contains information about the meteorological and oceanographic research data in our archive, and for some of our datasets, direct access to the data. You will also find supporting documentation and access software for most of our datasets, as well as documentation and software for some of the major formats used for meteorological and oceanographic research data. We also have information and data for several large special projects.
  14. NOAA/PMEL Tropical Atmosphere Ocean project: TAO/TRITON Ocean datasets
  15. Argo – float data
  16. YoMaHa ’07 – Argo float trajectory data
  17. NASA/PO.DAAC Physical Oceanography Distributed Active Archive Center
  18. NASA Langley Atmospheric Sciences Data Center (Distributed Active Archive Center)
  19. NASA/GSFC Earth Sciences Distributed Active Archive Center
  20. NASDA Earth Observation Research Center
  21. JAMSTEC data sites for research cruises
  22. World Data Centre for Greenhouse Gases (WMO Global Atmosphere Watch)
  23. Global Change Master Directory: A comprehensive directory about Earth science and global change data.
  24. XBT NOAA data (Temperature and salinity profile)
  25. XBT Data – Bureau of Meteorology, Australia
  26. OTIS or  TMD: Global tidal atlas
  27.  FES2004 : Ocean tidal model
  28. NAO99:
  30. The time series of the sea level from Univ. of Hawaii

No special treatment how to install zlib in OS Lion or Linux. In Macintosh, you can install them via Fink, but i prefer not to do that to make sure where the library of zlib goes. Even zlib for Mac OS X is already included as part of Mac OS X

1. Download the source code here. I used zlib1.2.5 version.

2. tar xzf zlib-1.2.5.tar.gz

3. cd zlib-1.2.5

4. ./configure –prefix=/usr/local

5. make

6. make install


Basically the latest HDF5 1.8.7 version does not officially support OS Lion. I found several people had segfault problems on hard testing in OS Lion. The result of “make check” stops at testing hard as the following:

—start example

Testing hard unsigned long long -> long double conversions             PASSED
Testing hard normalized float -> signed char conversions               PASSED
Testing hard normalized double -> signed char conversions              PASSED
Testing hard normalized float -> unsigned char conversions             PASSED
Testing hard normalized double -> unsigned char conversions            PASSED
Testing hard normalized float -> short conversions                     PASSED
Testing hard normalized double -> short conversions                    PASSED
Testing hard normalized float -> unsigned short conversions            PASSED
Testing hard normalized double -> unsigned short conversions           PASSED
Testing hard normalized float -> int conversions                       PASSED
Testing hard normalized double -> int conversions                      PASSED
Testing hard normalized float -> unsigned int conversions              PASSED
Testing hard normalized double -> unsigned int conversions             PASSED
Testing hard normalized float -> long long conversions                 PASSED
Testing hard normalized double -> long long conversions                PASSED
Testing hard float -> unsigned long long conversions                   -SKIP-
Test skipped due to hardware conversion error.
Testing hard double -> unsigned long long conversions                  -SKIP-
Test skipped due to hardware conversion error.
Testing hard normalized long double -> signed char conversions        Command terminated by signal 11
0.31user 0.04system 0:01.64elapsed 21%CPU (0avgtext+0avgdata 19936maxresident)k
824inputs+360outputs (6major+14996minor)pagefaults 0swaps
make[4]: *** [dt_arith.chkexe_] Error 1

—-example ends

Thanks to the software engineer of HDF5 especially Madam Barbara Jones who helped me figure it out my difficulties on HDF5 installation at OS Lion. Here, I put the step by step how to install HDF5 1.8.7 for lion.

1. Download the source code of HDF5 1.8.7 from HDF5 URL. I used Mac OS X 10.7.0 (Intel 64-bit) static version

2. Open terminal and tar them

3. If you previously failed to install them, get a clean copy of the HDF5 source code.  (Alternately, run “make distclean”)

4. In the top directory of the HDF5 source code, you will see the config/ directory.  Go into the config/ directory. using “cd config”

5. You will see a file called: “gnu-flags”

6. Edit the “gnu-flags” file using emacs or vi and search for “PROD_CFLAGS”. Change the value of PROD_CFLAGS to “-O0” (capital “O” letter + zero) for “gcc-4.*”.

7. ./configure –with-zlib=/usr/local –prefix=/usr/local –enable-fortran . Here you download HDF5 under “/usr/local” root.

8. make

9. make check

10. make install

11. sudo make install

That’s it. Have a nice try.

Here, I would like to post how to install NetCDF 3.6.3  and/or NetCDF 4.1.3 in Macintosh Lion. NetCDF (network Common Data Form) is an interface for array-oriented data access and a library that provides an implementation of the interface. It is useful when you want to read *.nc file or you want to create small size unformatted input/output data.

Most of the time NetCDF requires zlib or slim and HDF5  libraries. I will show you how to install them too in my blog. It is important to finish job installation of HDF5 and zlib successfully. Therefore, I suggest you to install zlib and HDF5 before moving to NetCDF installation process.

@ iMac Lion

I assumed that you have installed free “gfortran” compiler in your iMac. If you don’t know how to install gfortran in your iMac, please follow how to install gfortran first.

NetCDF 3 installation:

This process is relatively easy compared to NetCDF4. NetCDF3 is enough if you want to read or write netCDF format, but when it goes to the utilization of MPI you need NetCDF4. NetCDF3.6.3 is a very stable version, so you can depend on that. First I will show you to the step by step installing netCDF3 @ iMac lion.

1. Go to netCDF website and download the source code of netCDF3. http://www.unidata.ucar.edu/downloads/netcdf/netcdf-3_6_3/index.jsp. Usually mac automatically makes *tar.gz file into only *tar file.

2. Open terminal and go to the place where you saved the *tar file

3. tar it using “tar xvf netcdf*.tar”

4. export FC=gfortran

5. export F77=gfortran

6. export F90=gfortran

7. export CXX=g++

8. export FFLAGS=’-O3′

9. go to the folder where you extracted netCDF source file *tar.gz file

10 ./configure –prefix=/opt/gfortran/serial/netcdf3

11. make

12. make check

13. sudo make install, enter your password

14. Wait until finish.

NetCDF4 installation:

1. Download the 4.1.3 release source code is available from the following URL (http://www.unidata.ucar.edu/blogs/news/entry/netcdf_c_fortran_c_version)

2. open “terminal”

3. write “tar xvf netcdf-4.1.3.tar” on terminal and continue to write the below commands:

4. export FC=gfortran

5. export F77=gfortran

6. export F90=gfortran

7. export CFLAGS=’-O3′

8. go to the folder where you extracted netCDF source file *tar.gz file:  “cd netcdf-4.1.3”

9.  ./configure –prefix=/opt/netcdf4/gfortran –enable-netcdf-4 –with-hdf5=/usr/local . Here you installed netCDF file under /opt/netcdf4/gfortran folder. If you have different compilers such as “ifort” , you can later installed another netCDF4 under different folder, let say “/opt/netcdf4/ifort”.

10. make

11. make check

12. sudo make install

13. enter your password and wait until finish.

Flow like a current and stand like a rock

Don’t afraid to change  because everyday is learning

Some people are so easy to describe who they are, but some are not. They even don’t have any idea about themselve. Don’t get frustated for those who don’t know about yourself. Look closely to what you have done, what makes you laugh, cry, like or dislike. Probably that’s who you are.

You might say that you are a moody person. Where everyday is not same and depend to what your feel on that day. What make you laugh now is not same like yesterday and so with the other things.

Probably you can check on what things do you like to read listen and watch. Do you like to open news, hotgossip, war movie, or comedy?…..from that you can answer who you are. We are not the linux who always ask ‘whoami’ command right?

So do not ever think that you don’t know your self. Every of you has specific task in this world. Be a part for other people’s happiness. I hope I can give the best for others too.


Sepertinya udah puluhan text books and ratusan papers dibidang kelautan udah saya baca. Ilmu tentang laut sudah saya geluti dan cintai sejak lama, kurang lebih dari semenjak bangku kuliah ditahun 2000. Namun delapan tahun berlalu tanpa pernah melihat bagaimana iman islam yg saya pegang teguh berbicara mengenai profesi yg saya cintai.

Saya akan menyinggung bagaimana Internal wave, Black/White smoke, ocean front and Solitary wave-like, SST change telah dicantumkan didalam al-quran.

Sebenarnya ini bukan yg pertama, sebelumnya saya pernah melihat dokumentasi sejenis tentang blog yg menuliskan sebuah ayat al quran yg berbicara tentang internal wave didalam surat an nur ayat 40. Menarik bukan, bagaimana ilmu yg sekarang lagi exist di Indonesia, telah diungkap didalam ayat suci al quran sejak 13 abad silam sebelum remote sensing and super computer lahir dan bahkan sebelum ilmu numerical discretization lahir. Continue Reading »

There are many ways nowadays to enter train station in Japan.

First you can buy ticket directly from the machines in front of station. What you have to do is to decide you destination by finding your line or route then you can trace your desire station along that line. Below the station’s name listed the price that you have to pay. This price is an input parameter to the machines. If you can’t find your station, because it writes in kanji…don’t worry. Just select the smallest price but you have to re-adjust your ticket after your stop at your desire station. You can find readjustment machine before leave the exit gate or ask officer on duty.

Another option is you can use electronic card or hand phone. For electronic card you have to charge it or at least you have enough balance in your e-card. You have to touch your card on screening point on the entrance gate. Your balance will be reduced after your leave your station.

This is the example how smart monkey(Pan-kun) and James go to the nearest/closest station by using ticket. Funny…enjoy.