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<!-- $Id: frmt_hdf5.html 8067 2005-08-13 00:12:59Z dnadeau $ --><html><head><title>HDF5 --- Hierarchical Data Format Release 5 (HDF5)</title></head><body bgcolor="#ffffff"><h1>HDF5 --- Hierarchical Data Format Release 5 (HDF5)</h1>This driver intended for HDF5 file formats importing.   This modification issuited for use with remote sensing data and fully compatible withunderlying HDF5.  This driver can import HDF5-EOS files.  Currently EOS useHDF5 for data storing (telemetry form `Aura' satellites). Inthe future they will switch to HDF5 format, which will be used fortelemetry from `Aura' satellite.<p><h2>Multiple Image Handling (Subdatasets)</h2>Hierarchical Data Format is a container for several different datasets.For data storing. HDF contains multidimensional arrays filled by data.  One HDF file may contain several arrays.  They may differ in size, number of dimensions.<p>The first step is to get a report of the components images (arrays) in the file using <b>gdalinfo</b>, andthen to import the desired images using gdal_translate.The <b>gdalinfo</b> utility lists all multidimensional subdatasets from the input HDF file. The name of individual images (subdatasets) are assigned to the <b>SUBDATASET_n_NAME</b> metadata item.  The description for each image isfound in the <b>SUBDATASET_n_DESC</b> metadata item.  For HDF5 images thesubdataset names will be formatted like this:<p><i>HDF5:file_name:subdataset</i><p>where:<br> <i>file_name</i> is the name of the input file, and<br><i>subdataset</i> is the dataset name of the array to use (for internal use in GDAL).<p>On the second step you should provide this name for <b>gdalinfo</b> or<b>gdal_translate</b> for actual reading of the data.<p>For example, we want to read data from the OMI/Aura Ozone (O3)  dataset:<p><pre>$ gdalinfo OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5Driver: HDF5/Hierarchical Data Format Release 5Size is 512, 512Coordinate System is `'Subdatasets:  SUBDATASET_-1_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":APrioriLayerO3  SUBDATASET_-1_DESC=[1645x60x11] APrioriLayerO3 (32-bit floating-point)  SUBDATASET_0_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":AlgorithmFlags  SUBDATASET_0_DESC=[1645x60] AlgorithmFlags (8-bit unsigned character)  SUBDATASET_1_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":CloudFraction  SUBDATASET_1_DESC=[1645x60] CloudFraction (32-bit floating-point)  SUBDATASET_2_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":CloudTopPressure  SUBDATASET_2_DESC=[1645x60] CloudTopPressure (32-bit floating-point)  SUBDATASET_3_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":ColumnAmountO3  SUBDATASET_3_DESC=[1645x60] ColumnAmountO3 (32-bit floating-point)  SUBDATASET_4_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":LayerEfficiency  SUBDATASET_4_DESC=[1645x60x11] LayerEfficiency (32-bit floating-point)  SUBDATASET_5_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":NValue  SUBDATASET_5_DESC=[1645x60x10] NValue (32-bit floating-point)  SUBDATASET_6_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":O3BelowCloud  SUBDATASET_6_DESC=[1645x60] O3BelowCloud (32-bit floating-point)  SUBDATASET_7_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":QualityFlags  SUBDATASET_7_DESC=[1645x60] QualityFlags (8-bit unsigned integer)  SUBDATASET_8_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Reflectivity331  SUBDATASET_8_DESC=[1645x60] Reflectivity331 (32-bit floating-point)  SUBDATASET_9_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Reflectivity360  SUBDATASET_9_DESC=[1645x60] Reflectivity360 (32-bit floating-point)  SUBDATASET_10_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Residual  SUBDATASET_10_DESC=[1645x60x10] Residual (32-bit floating-point)  SUBDATASET_11_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":ResidualStep1  SUBDATASET_11_DESC=[1645x60x10] ResidualStep1 (32-bit floating-point)  SUBDATASET_12_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":ResidualStep2  SUBDATASET_12_DESC=[1645x60x10] ResidualStep2 (32-bit floating-point)  SUBDATASET_13_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":SO2index  SUBDATASET_13_DESC=[1645x60] SO2index (32-bit floating-point)  SUBDATASET_14_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Sensitivity  SUBDATASET_14_DESC=[1645x60x10] Sensitivity (32-bit floating-point)  SUBDATASET_15_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":StepOneO3  SUBDATASET_15_DESC=[1645x60] StepOneO3 (32-bit floating-point)  SUBDATASET_16_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":StepTwoO3  SUBDATASET_16_DESC=[1645x60] StepTwoO3 (32-bit floating-point)  SUBDATASET_17_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":TerrainPressure  SUBDATASET_17_DESC=[1645x60] TerrainPressure (32-bit floating-point)  SUBDATASET_18_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":UVAerosolIndex  SUBDATASET_18_DESC=[1645x60] UVAerosolIndex (32-bit floating-point)  SUBDATASET_19_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":dN_dR  SUBDATASET_19_DESC=[1645x60x10] dN_dR (32-bit floating-point)  SUBDATASET_20_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":dN_dT  SUBDATASET_20_DESC=[1645x60x10] dN_dT (32-bit floating-point)  SUBDATASET_21_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":GroundPixelQualityFlags  SUBDATASET_21_DESC=[1645x60] GroundPixelQualityFlags (8-bit unsigned integer)  SUBDATASET_22_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Latitude  SUBDATASET_22_DESC=[1645x60] Latitude (32-bit floating-point)  SUBDATASET_23_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":Longitude  SUBDATASET_23_DESC=[1645x60] Longitude (32-bit floating-point)  SUBDATASET_24_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":RelativeAzimuthAngle  SUBDATASET_24_DESC=[1645x60] RelativeAzimuthAngle (32-bit floating-point)  SUBDATASET_25_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":SolarAzimuthAngle  SUBDATASET_25_DESC=[1645x60] SolarAzimuthAngle (32-bit floating-point)  SUBDATASET_26_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":SolarZenithAngle  SUBDATASET_26_DESC=[1645x60] SolarZenithAngle (32-bit floating-point)  SUBDATASET_27_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":TerrainHeight  SUBDATASET_27_DESC=[1645x60] TerrainHeight (8-bit integer)  SUBDATASET_28_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":ViewingAzimuthAngle  SUBDATASET_28_DESC=[1645x60] ViewingAzimuthAngle (32-bit floating-point)  SUBDATASET_29_NAME=HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":ViewingZenithAngle  SUBDATASET_29_DESC=[1645x60] ViewingZenithAngle (32-bit floating-point)Corner Coordinates:Upper Left  (    0.0,    0.0)Lower Left  (    0.0,  512.0)Upper Right (  512.0,    0.0)Lower Right (  512.0,  512.0)Center      (  256.0,  256.0)</pre>Now select one of the subdatasets, described as<tt>[1645x60] CloudFraction (32-bit floating-point)</tt>:<p><pre>$ gdalinfo HDF5:"OMI-Aura_L2-OMTO3_2005m0326t2307-o03709_v002-2005m0428t201311.he5":CloudFraction Driver: HDF5Image/HDF5 DatasetSize is 60, 1645Coordinate System is:GEOGCS["WGS 84",    DATUM["WGS_1984",        SPHEROID["WGS 84",6378137,298.257223563,            AUTHORITY["EPSG","7030"]],        TOWGS84[0,0,0,0,0,0,0],        AUTHORITY["EPSG","6326"]],    PRIMEM["Greenwich",0,        AUTHORITY["EPSG","8901"]],    UNIT["degree",0.0174532925199433,        AUTHORITY["EPSG","9108"]],    AXIS["Lat",NORTH],    AXIS["Long",EAST],    AUTHORITY["EPSG","4326"]]GCP Projection = GEOGCS["WGS 84",DATUM["WGS_1984",SPHEROID["WGS 84",6378137,298.257223563,AUTHORITY["EPSG","7030"]],TOWGS84[0,0,0,0,0,0,0],AUTHORITY["EPSG","6326"]],PRIMEM["Greenwich",0,AUTHORITY["EPSG","8901"]],UNIT["degree",0.0174532925199433,AUTHORITY["EPSG","9108"]],AXIS["Lat",NORTH],AXIS["Long",EAST],AUTHORITY["EPSG","4326"]]GCP[  0]: Id=, Info=          (0.5,0.5) -> (261.575,-84.3495,0)GCP[  1]: Id=, Info=          (2.5,0.5) -> (240.826,-85.9928,0)GCP[  2]: Id=, Info=          (4.5,0.5) -> (216.754,-86.5932,0)GCP[  3]: Id=, Info=          (6.5,0.5) -> (195.5,-86.5541,0)GCP[  4]: Id=, Info=          (8.5,0.5) -> (180.265,-86.2009,0)GCP[  5]: Id=, Info=          (10.5,0.5) -> (170.011,-85.7315,0)GCP[  6]: Id=, Info=          (12.5,0.5) -> (162.987,-85.2337,0)<pre>... 3000 GCPs are read from the file if Latitude and Longitude arrays are presents </pre>Corner Coordinates:Upper Left  (    0.0,    0.0)Lower Left  (    0.0, 1645.0)Upper Right (   60.0,    0.0)Lower Right (   60.0, 1645.0)Center      (   30.0,  822.5)Band 1 Block=60x1 Type=Float32, ColorInterp=UndefinedOpen GDAL Datasets:  1 N DriverIsNULL 512x512x0</pre>You may use <b>gdal_translate</b> for reading image bands from thisdataset.<p>Note that you should provide exactly the contents of the line marked <b>SUBDATASET_n_NAME</b> to GDAL, including the <b>HDF5:</b> prefix.<p>This driver is intended only for importing remote sensing and geospatial datasets in form of raster images(2D or 3D arrays). If you want explore all data contained in HDF file you should use another tools (you can find information about different HDF tools using links at end of this page).<h2>Georeference</h2>There is no universal way of storing georeferencing in HDF files.  However,some product types have mechanisms for saving georeferencing, and some ofthese are supported by GDAL.  Currently supported are (<i>subdataset_type</i>shown in parenthesis):<p><ul>	<li> HDF5 OMI/Aura Ozone (O3) Total Column 1-Orbit L2 Swath 13x24km (<B>Level-2 OMTO3</B>)</ul><h2>Metadata</h2>No Metadata are read at this time from the HDF5 files.<h2>Driver building</h2>This driver builded on top of NCSA HDF5 library, so you need to dowload prebuild HDF5 librariesI HDF5-1.6.4 library or higher.  You also need zlib 1.2 and szlib 2.0.  For windows user be sure to set the attributes writable (especialy if you are using cygwin) and that the DLLs can be located somewhere by your PATH environment variable.You may also download source code  NCSA HDFHome Page (see links below).<p><h2>See Also:</h2><ul><li> Implemented as <tt>gdal/frmts/hdf5/hdf5dataset.cpp</tt>and <tt>gdal/frmts/hdf5/hdf5imagedataset.cpp</tt>.<p><li> <a href="http://hdf.ncsa.uiuc.edu/HDF5/release/obtain5.html">The NCSA HDF5 Dowload Page</a>at the<a href="http://www.ncsa.uiuc.edu/">National Center for Supercomputing Applications</a><li> <a href="http://hdf.ncsa.uiuc.edu/hdf-java-html/hdfview/">The HDFView is a visual tool for browsing and editing NCSA HDF4 and HDF5 files.</a><p>Documentation to individual products, supported by this driver:<p><ul><li> <a href="http://disc.gsfc.nasa.gov/Aura/OMI/omto3.shtml">Aura OMI  Total Ozone Data Product-OMTO3</a></ul></body></html>
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