netcdf-c/docs/byterange.dox

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Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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/**
@if INTERNAL
@page byterange Remote Dataset Access Using HTTP Byte Ranges
\tableofcontents
<!-- Note that this file has the .dox extension, but is mostly markdown -->
<!-- Begin MarkDown -->
# Introduction {#byterange_intro}
Suppose that you have the URL to a remote dataset
which is a normal netcdf-3 or netcdf-4 file.
The netCDF-c library now supports read-only access to such
datasets using the HTTP byte range capability [], assuming that
the remote server supports byte-range access.
Two examples:
1. An Amazon S3 object containing a netcdf classic file.
- location: "http://149.165.169.123:8080/thredds/fileServer/testdata/2004050300_eta_211.nc#mode=bytes"
Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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2. A Thredds Server dataset supporting the Thredds HTTPServer protocol.
and containing a netcdf enhanced file.
- location: "http://noaa-goes16.s3.amazonaws.com/ABI-L1b-RadC/2017/059/03/OR_ABI-L1b-RadC-M3C13_G16_s20170590337505_e20170590340289_c20170590340316.nc#mode=bytes"
Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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Other remote servers may also provide byte-range access in a similar form.
It is important to note that this is not intended as a true
production capability because it is believed that this kind of access
Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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can be quite slow. In addition, the byte-range IO drivers do not
currently do any sort of optimization or caching.
# Configuration {#byterange_config}
This capability is enabled using the option *--enable-byterange* option
to the *./configure* command for Automake. For Cmake, the option flag is
*-DENABLE_BYTERANGE=true*.
This capability requires access to *libcurl*, and an error will occur
if byterange is enabled, but no *libcurl* could not be located.
In this, it is similar to the DAP2 and DAP4 capabilities.
Note also that here, the term "http" is often used as a synonym for *byterange*.
Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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# Run-time Usage {#byterange_url}
In order to use this capability at run-time, with *ncdump* for
example, it is necessary to provide a URL pointing to the basic
dataset to be accessed. The URL must be annotated to tell the
netcdf-c library that byte-range access should be used. This is
indicated by appending the phrase ````#mode=bytes````
Provide byte-range reading of remote datasets re: issue https://github.com/Unidata/netcdf-c/issues/1251 Assume that you have the URL to a remote dataset which is a normal netcdf-3 or netcdf-4 file. This PR allows the netcdf-c to read that dataset's contents as a netcdf file using HTTP byte ranges if the remote server supports byte-range access. Originally, this PR was set up to access Amazon S3 objects, but it can also access other remote datasets such as those provided by a Thredds server via the HTTPServer access protocol. It may also work for other kinds of servers. Note that this is not intended as a true production capability because, as is known, this kind of access to can be quite slow. In addition, the byte-range IO drivers do not currently do any sort of optimization or caching. An additional goal here is to gain some experience with the Amazon S3 REST protocol. This architecture and its use documented in the file docs/byterange.dox. There are currently two test cases: 1. nc_test/tst_s3raw.c - this does a simple open, check format, close cycle for a remote netcdf-3 file and a remote netcdf-4 file. 2. nc_test/test_s3raw.sh - this uses ncdump to investigate some remote datasets. This PR also incorporates significantly changed model inference code (see the superceded PR https://github.com/Unidata/netcdf-c/pull/1259). 1. It centralizes the code that infers the dispatcher. 2. It adds support for byte-range URLs Other changes: 1. NC_HDF5_finalize was not being properly called by nc_finalize(). 2. Fix minor bug in ncgen3.l 3. fix memory leak in nc4info.c 4. add code to walk the .daprc triples and to replace protocol= fragment tag with a more general mode= tag. Final Note: Th inference code is still way too complicated. We need to move to the validfile() model used by netcdf Java, where each dispatcher is asked if it can process the file. This decentralizes the inference code. This will be done after all the major new dispatchers (PIO, Zarr, etc) have been implemented.
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to the end of the URL.
The two examples above show how this will look.
In order to determine the kind of file being accessed, the
netcdf-c library will read what is called the "magic number"
from the beginning of the remote dataset. This magic number
is a specific set of bytes that indicates the kind of file:
classic, enhanced, cdf5, etc.
# Architecture {#byterange_arch}
Internally, this capability is implemented with three files:
1. libdispatch/dhttp.c -- wrap libcurl operations.
2. libsrc/httpio.c -- provide byte-range reading to the netcdf-3 dispatcher.
3. libhdf5/H5FDhttp.c -- provide byte-range reading to the netcdf-4 dispatcher.
Both *httpio.c* and *H5FDhttp.c* are adapters that use *dhttp.c*
to do the work. Testing for the magic number is also carried out
by using the *dhttp.c* code.
## NetCDF Classic Access
The netcdf-3 code in the directory *libsrc* is built using
a secondary dispatch mechanism called *ncio*. This allows the
netcdf-3 code be independent of the lowest level IO access mechanisms.
This is how in-memory and mmap based access is implemented.
The file *httpio.c* is the dispatcher used to provide byte-range
IO for the netcdf-3 code.
Note that *httpio.c* is mostly just an
adapter between the *ncio* API and the *dhttp.c* code.
## NetCDF Enhanced Access
Similar to the netcdf-3 code, the HDF5 library
provides a secondary dispatch mechanism *H5FD*. This allows the
HDF5 code to be independent of the lowest level IO access mechanisms.
The netcdf-4 code in libhdf5 is built on the HDF5 library, so
it indirectly inherits the H5FD mechanism.
The file *H5FDhttp.c* implements the H5FD dispatcher API
and provides byte-range IO for the netcdf-4 code
(and for the HDF5 library as a side effect).
Note that *H5FDhttp.c* is mostly just an
adapter between the *H5FD* API and the *dhttp.c* code.
# The dhttp.c Code {#byterange_dhttp}
The core of all this is *dhttp.c* (and its header
*include/nchttp.c*). It is a wrapper over *libcurl*
and so exposes the libcurl handles -- albeit as _void*_.
The API for *dhttp.c* consists of the following procedures:
- int nc_http_open(const char* objecturl, void** curlp, fileoffset_t* filelenp);
- int nc_http_read(void* curl, const char* url, fileoffset_t start, fileoffset_t count, NCbytes* buf);
- int nc_http_close(void* curl);
- typedef long long fileoffset_t;
The type *fileoffset_t* is used to avoid use of *off_t* or *off64_t*
which are too volatile. It is intended to be represent file lengths
and offsets.
## nc_http_open
The *nc_http_open* procedure creates a *Curl* handle and returns it
in the *curlp* argument. It also obtains and searches the headers
looking for two headers:
1. "Accept-Ranges: bytes" -- to verify that byte-range access is supported.
2. "Content-Length: ..." -- to obtain the size of the remote dataset.
The dataset length is returned in the *filelenp* argument.
## nc_http_read
The *nc_http_read* procedure reads a specified set of contiguous bytes
as specified by the *start* and *count* arguments. It takes the *Curl*
handle produced by *nc_http_open* to indicate the server from which to read.
The *buf* argument is a pointer to an instance of type *NCbytes*, which
is a dynamically expandable byte vector (see the file *include/ncbytes.h*).
This procedure reads *count* bytes from the remote dataset starting at
the offset *start* position. The bytes are stored in *buf*.
## nc_http_close
The *nc_http_close* function closes the *Curl* handle and does any
necessary cleanup.
# Point of Contact {#byterange_poc}
__Author__: Dennis Heimbigner<br>
__Email__: dmh at ucar dot edu<br>
__Initial Version__: 12/30/2018<br>
__Last Revised__: 12/30/2018
<!-- End MarkDown -->
@endif
*/