/*! \page dap2 DAP2 Support \tableofcontents \section dap_introduction DAP2 (OPeNDAP) Introduction Beginning with netCDF version 4.1, optional support is provided for accessing data through OPeNDAP servers using the DAP protocol. Currently, only DAP protocol version 2 is supported; DAP protocol version 4 support is under development. DAP support is automatically enabled if a usable curl library can be set using the LDFLAGS environment variable (similar to the way that the HDF5 libraries are referenced). DAP support can forcibly be enabled or disabled using the --enable-dap flag or the --disable-dap flag, respectively. If enabled, then DAP2 support requires access to the curl library. Refer to the installation manual for details DAP uses a data model that is different from that supported by netCDF, either classic or enhanced. Generically, the DAP data model is encoded textually in a DDS (Dataset Descriptor Structure). There is a second data model for DAP attributes, which is encoded textually in a DAS (Dataset Attribute Structure). For detailed information about the DAP DDS and DAS, refer to the OPeNDAP web site http://opendap.org. \subsection dap_dap_information OPeNDAP Documentation See the following pages for more information. - \subpage dap_accessing_data - netCDF Authorization Support - \subpage dap_to_netcdf - \subpage dap2_reserved_keywords - \subpage var_dim_trans - \subpage var_name_trans \page dap_accessing_data Accessing OPeNDAP Data In order to access an OPeNDAP data source through the netCDF API, the file name normally used is replaced with a URL with a specific format. The URL is composed of three parts. - URL - this is a standard form URL such as http://remotetest.unidata.ucar.edu/dts/test.01 - Constraints - these are suffixed to the URL and take the form “?\&\”. The meaning of the terms projection and selection is somewhat complicated; and the OPeNDAP web site, http://www.opendap.org , should be consulted. The interaction of DAP constraints with netCDF is complex and at the moment requires an understanding of how DAP is translated to netCDF. - Client parameters - these may be specified in either of two ways. The older, deprecated form prefixes text to the front of the url and is of the the general form [\] or [\=value]. Examples include [show=fetch] and [noprefetch]. The newer, preferred form prefixes the parameters to the end of the url using the semi-standard '#' format: e.g. http://....#show=fetch&noprefetch. It is possible to see what the translation does to a particular DAP data source in either of two ways. First, one can examine the DDS source through a web browser and then examine the translation using the ncdump -h command to see the netCDF Classic translation. The ncdump output will actually be the union of the DDS with the DAS, so to see the complete translation, it is necessary to view both. For example, if a web browser is given the following, the first URL will return the DDS for the specified dataset, and the second URL will return the DAS for the specified dataset. \code http://remotetest.unidata.ucar.edu/dts/test.01.dds http://remotetest.unidata.ucar.edu/dts/test.01.das \endcode Then by using the following ncdump command, it is possible to see the equivalent netCDF Classic translation. \code ncdump -h http://remotetest.unidata.ucar.edu/dts/test.01 \endcode The DDS output from the web server should look like this. \code Dataset { Byte b; Int32 i32; UInt32 ui32; Int16 i16; UInt16 ui16; Float32 f32; Float64 f64; String s; Url u; } SimpleTypes; \endcode The DAS output from the web server should look like this. \code Attributes { Facility { String PrincipleInvestigator ``Mark Abbott'', ``Ph.D''; String DataCenter ``COAS Environmental Computer Facility''; String DrifterType ``MetOcean WOCE/OCM''; } b { String Description ``A test byte''; String units ``unknown''; } i32 { String Description ``A 32 bit test server int''; String units ``unknown''; } } \endcode The output from ncdump should look like this. \code netcdf test { dimensions: stringdim64 = 64 ; variables: byte b ; b:Description = "A test byte" ; b:units = "unknown" ; int i32 ; i32:Description = "A 32 bit test server int" ; i32:units = "unknown" ; int ui32 ; short i16 ; short ui16 ; float f32 ; double f64 ; char s(stringdim64) ; char u(stringdim64) ; } \endcode Note that the fields of type String and type URL have suddenly acquired a dimension. This is because strings are translated to arrays of char, which requires adding an extra dimension. The size of the dimension is determined in a variety of ways and can be specified. It defaults to 64 and when read, the underlying string is either padded or truncated to that length. Also note that the Facility attributes do not appear in the translation because they are neither global nor associated with a variable in the DDS. Alternately, one can get the text of the DDS as a global attribute by using the client parameters mechanism . In this case, the parameter “show=dds” can be used, and the data retrieved using the following command \code ncdump -h http://remotetest.unidata.ucar.edu/dts/test.01.dds#show=dds \endcode The ncdump -h command will then show both the translation and the original DDS. In the above example, the DDS would appear as the global attribute “_DDS” as follows. \code netcdf test { ... variables: :_DDS = "Dataset { Byte b; Int32 i32; UInt32 ui32; Int16 i16; UInt16 ui16; Float32 f32; Float64 f64; Strings; Url u; } SimpleTypes;" byte b ; ... } \endcode \page dap_to_netcdf DAP to NetCDF Translation Rules Currently only one translation available: DAP 2 Protocol to netCDF-3. There used to be a DAP 2 Protocol to netCDF-4 translation but that has been removed until the DAP4 protocol is available. \section nc3_trans_rules netCDF-3 Translation Rules The current default translation code translates the OPeNDAP protocol to netCDF-3 (classic). This netCDF-3 translation converts an OPeNDAP DAP protocol version 2 DDS to netCDF-3 and is designed to mimic as closely as possible the translation provided by the libnc-dap system, except that some errors in that older translation have been fixed. For illustrative purposes, the following example will be used. \code Dataset { Int32 f1; Structure { Int32 f11; Structure { Int32 f1[3]; Int32 f2; } FS2[2]; } S1; Structure { Grid { Array: Float32 temp[lat=2][lon=2]; Maps: Int32 lat[lat=2]; Int32 lon[lon=2]; } G1; } S2; Grid { Array: Float32 G2[lat=2][lon=2]; Maps: Int32 lat[2]; Int32 lon[2]; } G2; Int32 lat[lat=2]; Int32 lon[lon=2]; } D1; \endcode \section var_def Variable Definition The set of netCDF variables is derived from the fields with primitive base types as they occur in Sequences, Grids, and Structures. The field names are modified to be fully qualified initially. For the above, the set of variables are as follows. The coordinate variables within grids are left out in order to mimic the behavior of libnc-dap. \code f1 S1.f11 S1.FS2.f1 S1.FS2.f2 S2.G1.temp S2.G2.G2 lat lon \endcode \page dap2_reserved_keywords DAP2 Reserved Keywords In the OPeNDAP DAP2 protocol, there are a number of reserved keywords. These keywords are case insensitive and if you use one as a netCDF variable name, you may encounter odd behavior such as case changes (depending on the client DDS/DAS parser). The list of reserved keywords as used by the netCDF-C library parser are as follows: - alias - array - attributes - byte - dataset - error - float32 - float64 - grid - int16 - int32 - maps - sequence - string - structure - uint16 - uint32 - url - code - message - program_type - program \page var_dim_trans Variable Dimension Translation A variable's rank is determined from three sources. - The variable has the dimensions associated with the field it represents (e.g. S1.FS2.f1[3] in the above example). - The variable inherits the dimensions associated with any containing structure that has a rank greater than zero. These dimensions precede those of case 1. Thus, we have in our example, f1[2][3], where the first dimension comes from the containing Structure FS2[2]. - The variable's set of dimensions are altered if any of its containers is a DAP DDS Sequence. This is discussed more fully below. If the type of the netCDF variable is char, then an extra string dimension is added as the last dimension. \section dim_trans Dimension translation For dimensions, the rules are as follows. Fields in dimensioned structures inherit the dimension of the structure; thus the above list would have the following dimensioned variables. \code S1.FS2.f1 -> S1.FS2.f1[2][3] S1.FS2.f2 -> S1.FS2.f2[2] S2.G1.temp -> S2.G1.temp[lat=2][lon=2] S2.G1.lat -> S2.G1.lat[lat=2] S2.G1.lon -> S2.G1.lon[lon=2] S2.G2.G2 -> S2.G2.lon[lat=2][lon=2] S2.G2.lat -> S2.G2.lat[lat=2] S2.G2.lon -> S2.G2.lon[lon=2] lat -> lat[lat=2] lon -> lon[lon=2] \endcode Collect all of the dimension specifications from the DDS, both named and anonymous (unnamed) For each unique anonymous dimension with value NN create a netCDF dimension of the form "XX_=NN", where XX is the fully qualified name of the variable and i is the i'th (inherited) dimension of the array where the anonymous dimension occurs. For our example, this would create the following dimensions. \code S1.FS2.f1_0 = 2 ; S1.FS2.f1_1 = 3 ; S1.FS2.f2_0 = 2 ; S2.G2.lat_0 = 2 ; S2.G2.lon_0 = 2 ; \endcode If however, the anonymous dimension is the single dimension of a MAP vector in a Grid then the dimension is given the same name as the map vector This leads to the following. \code S2.G2.lat_0 -> S2.G2.lat S2.G2.lon_0 -> S2.G2.lon \endcode For each unique named dimension "=NN", create a netCDF dimension of the form "=NN", where name has the qualifications removed. If this leads to duplicates (i.e. same name and same value), then the duplicates are ignored. This produces the following. \code S2.G2.lat -> lat S2.G2.lon -> lon \endcode Note that this produces duplicates that will be ignored later. At this point the only dimensions left to process should be named dimensions with the same name as some dimension from step number 3, but with a different value. For those dimensions create a dimension of the form "M=NN" where M is a counter starting at 1. The example has no instances of this. Finally and if needed, define a single UNLIMITED dimension named "unlimited" with value zero. Unlimited will be used to handle certain kinds of DAP sequences (see below). This leads to the following set of dimensions. \code dimensions: unlimited = UNLIMITED; lat = 2 ; lon = 2 ; S1.FS2.f1_0 = 2 ; S1.FS2.f1_1 = 3 ; S1.FS2.f2_0 = 2 ; \endcode \page var_name_trans Variable Name Translation The steps for variable name translation are as follows. Take the set of variables captured above. Thus for the above DDS, the following fields would be collected. \code f1 S1.f11 S1.FS2.f1 S1.FS2.f2 S2.G1.temp S2.G2.G2 lat lon \endcode All grid array variables are renamed to be the same as the containing grid and the grid prefix is removed. In the above DDS, this results in the following changes. \code G1.temp -> G1 G2.G2 -> G2 \endcode It is important to note that this process could produce duplicate variables (i.e. with the same name); in that case they are all assumed to have the same content and the duplicates are ignored. If it turns out that the duplicates have different content, then the translation will not detect this. YOU HAVE BEEN WARNED. The final netCDF-3 schema (minus attributes) is then as follows. \code netcdf t { dimensions: unlimited = UNLIMITED ; lat = 2 ; lon = 2 ; S1.FS2.f1_0 = 2 ; S1.FS2.f1_1 = 3 ; S1.FS2.f2_0 = 2 ; variables: int f1 ; int lat(lat) ; int lon(lon) ; int S1.f11 ; int S1.FS2.f1(S1.FS2.f1_0, S1.FS2.f1_1) ; int S1.FS2.f2(S1_FS2_f2_0) ; float S2.G1(lat, lon) ; float G2(lat, lon) ; } \endcode In actuality, the unlimited dimension is dropped because it is unused. There are differences with the original libnc-dap here because libnc-dap technically was incorrect. The original would have said this, for example. \code int S1.FS2.f1(lat, lat) ; \endcode Note that this is incorrect because it dimensions S1.FS2.f1(2,2) rather than S1.FS2.f1(2,3). \section dap_translation Translating DAP DDS Sequences Any variable (as determined above) that is contained directly or indirectly by a Sequence is subject to revision of its rank using the following rules. Let the variable be contained in Sequence Q1, where Q1 is the innermost containing sequence. If Q1 is itself contained (directly or indirectly) in a sequence, or Q1 is contained (again directly or indirectly) in a structure that has rank greater than 0, then the variable will have an initial UNLIMITED dimension. Further, all dimensions coming from "above" and including (in the containment sense) the innermost Sequence, Q1, will be removed and replaced by that single UNLIMITED dimension. The size associated with that UNLIMITED is zero, which means that its contents are inaccessible through the netCDF-3 API. Again, this differs from libnc-dap, which leaves out such variables. Again, however, this difference is backward compatible. If the variable is contained in a single Sequence (i.e. not nested) and all containing structures have rank 0, then the variable will have an initial dimension whose size is the record count for that Sequence. The name of the new dimension will be the name of the Sequence. Consider this example. \code Dataset { Structure { Sequence { Int32 f1[3]; Int32 f2; } SQ1; } S1[2]; Sequence { Structure { Int32 x1[7]; } S2[5]; } Q2; } D; \endcode The corresponding netCDF-3 translation is pretty much as follows (the value for dimension Q2 may differ). \code dimensions: unlimited = UNLIMITED ; // (0 currently) S1.SQ1.f1_0 = 2 ; S1.SQ1.f1_1 = 3 ; S1.SQ1.f2_0 = 2 ; Q2.S2.x1_0 = 5 ; Q2.S2.x1_1 = 7 ; Q2 = 5 ; variables: int S1.SQ1.f1(unlimited, S1.SQ1.f1_1) ; int S1.SQ1.f2(unlimited) ; int Q2.S2.x1(Q2, Q2.S2.x1_0, Q2.S2.x1_1) ; \endcode Note that for example S1.SQ1.f1_0 is not actually used because it has been folded into the unlimited dimension. Note that for sequences without a leading unlimited dimension, there is a performance cost because the translation code has to walk the data to determine how many records are associated with the sequence. Since libnc-dap did essentially the same thing, it can be assumed that the cost is not prohibitive. \section dap_caching Caching In an effort to provide better performance for some access patterns, client-side caching of data is available. The default is no caching, but it may be enabled by prefixing the URL with the parameter "cache". Caching operates basically as follows. When a URL is first accessed using nc_open(), netCDF automatically does a pre-fetch of selected variables. These include all variables smaller than a specified (and user definable) size. This allows, for example, quick access to coordinate variables. This can be suppressed with the parameter "noprefetch". Whenever a request is made using some variant of the nc_get_var() API procedures, the complete variable is fetched and stored in the cache as a new cache entry. Subsequence requests for any part of that variable will access the cache entry to obtain the data. The cache may become too full, either because there are too many entries or because it is taking up too much disk space. In this case cache entries are purged until the cache size limits are reached. The cache purge algorithm is LRU (least recently used) so that variables that are repeatedly referenced will tend to stay in the cache. The cache is completely purged when nc_close() is invoked. In order to decide if you should enable caching, you will need to have some understanding of the access patterns of your program. The ncdump program always dumps one or more whole variables so it turns on caching. If your program accesses only parts of a number of variables, then caching should probably not be used since fetching whole variables will probably slow down your program for no purpose. Unfortunately, caching is currently an all or nothing proposition, so for more complex access patterns, the decision to cache or not may not have an obvious answer. Probably a good rule of thumb is to avoid caching initially and later turn it on to see its effect on performance. \section dap_defined_params Defined Client Parameters Currently, a limited set of client parameters is recognized. Parameters not listed here are ignored, but no error is signalled. Parameter Name Legal Values Semantics - "log" | "log=" - Turn on logging and send the log output to the specified file. If no file is specified, then output is sent to standard error. - "show=... das|dds|url" - This causes information to appear as specific global attributes. The currently recognized tags are "dds" to display the underlying DDS, "das" similarly, and "url" to display the url used to retrieve the data. This parameter may be specified multiple times (e.g. “show=dds&show=url”). - "show=fetch" - This parameter causes the netCDF code to log a copy of the complete url for every HTTP get request. If logging is enabled, then this can be helpful in checking to see the access behavior of the netCDF code. - "stringlength=NN" - Specify the default string length to use for string dimensions. The default is 64. - "stringlength_=NN" - Specify the default string length to use for a string dimension for the specified variable. The default is 64. - "cache" - This enables caching. - "cachelimit=NN" - Specify the maximum amount of space allowed for the cache. - "cachecount=NN" - Specify the maximum number of entries in the cache. - "noprefetch" - This disables prefetch of small variables. \section dap_debug Notes on Debugging OPeNDAP Access The OPeNDAP support makes use of the logging facility of the underlying oc system (see http://www.opendap.org/oc). Note that this is currently separate from the existing netCDF logging facility. Turning on this logging can sometimes give important information. Logging can be enabled by using the client parameter "log" or "log=filename", where the first case will send log output to standard error and the second will send log output to the specified file. Users should also be aware that if one is accessing data over an NFS mount, one may see some .nfsxxxxx files; those can be ignored. \subsection http_config HTTP Configuration. Limited support for configuring the http connection is provided via parameters in the “.dodsrc” configuration file. The relevant .dodsrc file is located by first looking in the current working directory, and if not found, then looking in the directory specified by the “$HOME” environment variable. Entries in the .dodsrc file are of the form: \code ['['']']= \endcode That is, it consists of a key name and value pair and optionally preceded by a url enclosed in square brackets. For given KEY and URL strings, the value chosen is as follows: If URL is null, then look for the .dodsrc entry that has no url prefix and whose key is same as the KEY for which we are looking. If the URL is not null, then look for all the .dodsrc entries that have a url, URL1, say, and for which URL1 is a prefix (in the string sense) of URL. For example, if URL = http//x.y/a, then it will match entries of the form \code 1. [http//x.y/a]KEY=VALUE 2. [http//x.y/a/b]KEY=VALUE \endcode It will not match an entry of the form \code [http//x.y/b]KEY=VALUE \endcode because “http://x.y/b” is not a string prefix of “http://x.y/a”. Finally from the set so constructed, choose the entry with the longest url prefix: “http//x.y/a/b]KEY=VALUE” in this case. Currently, the supported set of keys (with descriptions) are as follows.
    HTTP.VERBOSE
        Type: boolean ("1"/"0")
        Description: Produce verbose output, especially using SSL.
        Related CURL Flags: CURLOPT_VERBOSE
    HTTP.DEFLATE
        Type: boolean ("1"/"0")
        Description: Allow use of compression by the server.
        Related CURL Flags: CURLOPT_ENCODING
    HTTP.COOKIEJAR
        Type: String representing file path
        Description: Specify the name of file into which to store cookies. Defaults to in-memory storage.
        Related CURL Flags:CURLOPT_COOKIEJAR
    HTTP.CREDENTIALS.USER
        Type: String representing user name
        Description: Specify the user name for Digest and Basic authentication.
        Related CURL Flags:
    HTTP.CREDENTIALS.PASSWORD
        Type: String representing password
        Type: boolean ("1"/"0")
        Description: Specify the password for Digest and Basic authentication.
        Related CURL Flags:
    HTTP.SSL.CERTIFICATE
        Type: String representing file path
        Description: Path to a file containing a PEM cerficate.
        Related CURL Flags: CURLOPT_CERT
    HTTP.SSL.KEY
        Type: String representing file path
        Description: Same as HTTP.SSL.CERTIFICATE, and should usually have the same value.
        Related CURL Flags: CURLOPT_SSLKEY
    HTTP.SSL.KEYPASSWORD
        Type: String representing password
        Description: Password for accessing the HTTP.SSL.KEY/HTTP.SSL.CERTIFICATE
        Related CURL Flags: CURLOPT_KEYPASSWORD
    HTTP.SSL.CAPATH
        Type: String representing directory
        Description: Path to a directory containing trusted certificates for validating server sertificates.
        Related CURL Flags: CURLOPT_CAPATH
    HTTP.SSL.VALIDATE
        Type: boolean ("1"/"0")
        Description: Cause the client to verify the server's presented certificate.
        Related CURL Flags: CURLOPT_SSL_VERIFYPEER, CURLOPT_SSL_VERIFYHOST
    HTTP.TIMEOUT
        Type: String ("dddddd")
        Description: Specify the maximum time in seconds that you allow the http transfer operation to take.
        Related CURL Flags: CURLOPT_TIMEOUT, CURLOPT_NOSIGNAL
    HTTP.PROXY_SERVER
        Type: String representing url to access the proxy: (e.g.http://[username:password@]host[:port])
        Description: Specify the needed information for accessing a proxy.
        Related CURL Flags: CURLOPT_PROXY, CURLOPT_PROXYHOST, CURLOPT_PROXYUSERPWD
The related curl flags line indicates the curl flags modified by this key. See the libcurl documentation of the curl_easy_setopt() function for more detail (http://curl.haxx.se/libcurl/c/curl_easy_setopt.html). For ESG client side key support, the following entries must be specified: \code HTTP.SSL.VALIDATE HTTP.COOKIEJAR HTTP.SSL.CERTIFICATE HTTP.SSL.KEY HTTP.SSL.CAPATH \endcode Additionally, for ESG, the HTTP.SSL.CERTIFICATE and HTTP.SSL.KEY entries should have same value, which is the file path for the certificate produced by MyProxyLogon. The HTTP.SSL.CAPATH entry should be the path to the "certificates" directory produced by MyProxyLogon. */