2010-06-03 21:24:43 +08:00
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## This is a automake file, part of Unidata's netCDF package.
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2018-12-07 06:40:43 +08:00
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# Copyright 2008, see the COPYRIGHT file for more information.
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2010-06-03 21:24:43 +08:00
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# This file builds and runs the ncgen program.
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2011-03-22 04:31:56 +08:00
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# Put together AM_CPPFLAGS and AM_LDFLAGS.
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include $(top_srcdir)/lib_flags.am
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2011-05-12 03:51:11 +08:00
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LDADD = ${top_builddir}/liblib/libnetcdf.la
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2010-06-29 02:07:35 +08:00
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2010-06-03 21:24:43 +08:00
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# Build ncgen from the listed sources.
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bin_PROGRAMS = ncgen
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This PR adds EXPERIMENTAL support for accessing data in the
cloud using a variant of the Zarr protocol and storage
format. This enhancement is generically referred to as "NCZarr".
The data model supported by NCZarr is netcdf-4 minus the user-defined
types and the String type. In this sense it is similar to the CDF-5
data model.
More detailed information about enabling and using NCZarr is
described in the document NUG/nczarr.md and in a
[Unidata Developer's blog entry](https://www.unidata.ucar.edu/blogs/developer/en/entry/overview-of-zarr-support-in).
WARNING: this code has had limited testing, so do use this version
for production work. Also, performance improvements are ongoing.
Note especially the following platform matrix of successful tests:
Platform | Build System | S3 support
------------------------------------
Linux+gcc | Automake | yes
Linux+gcc | CMake | yes
Visual Studio | CMake | no
Additionally, and as a consequence of the addition of NCZarr,
major changes have been made to the Filter API. NOTE: NCZarr
does not yet support filters, but these changes are enablers for
that support in the future. Note that it is possible
(probable?) that there will be some accidental reversions if the
changes here did not correctly mimic the existing filter testing.
In any case, previously filter ids and parameters were of type
unsigned int. In order to support the more general zarr filter
model, this was all converted to char*. The old HDF5-specific,
unsigned int operations are still supported but they are
wrappers around the new, char* based nc_filterx_XXX functions.
This entailed at least the following changes:
1. Added the files libdispatch/dfilterx.c and include/ncfilter.h
2. Some filterx utilities have been moved to libdispatch/daux.c
3. A new entry, "filter_actions" was added to the NCDispatch table
and the version bumped.
4. An overly complex set of structs was created to support funnelling
all of the filterx operations thru a single dispatch
"filter_actions" entry.
5. Move common code to from libhdf5 to libsrc4 so that it is accessible
to nczarr.
Changes directly related to Zarr:
1. Modified CMakeList.txt and configure.ac to support both C and C++
-- this is in support of S3 support via the awd-sdk libraries.
2. Define a size64_t type to support nczarr.
3. More reworking of libdispatch/dinfermodel.c to
support zarr and to regularize the structure of the fragments
section of a URL.
Changes not directly related to Zarr:
1. Make client-side filter registration be conditional, with default off.
2. Hack include/nc4internal.h to make some flags added by Ed be unique:
e.g. NC_CREAT, NC_INDEF, etc.
3. cleanup include/nchttp.h and libdispatch/dhttp.c.
4. Misc. changes to support compiling under Visual Studio including:
* Better testing under windows for dirent.h and opendir and closedir.
5. Misc. changes to the oc2 code to support various libcurl CURLOPT flags
and to centralize error reporting.
6. By default, suppress the vlen tests that have unfixed memory leaks; add option to enable them.
7. Make part of the nc_test/test_byterange.sh test be contingent on remotetest.unidata.ucar.edu being accessible.
Changes Left TO-DO:
1. fix provenance code, it is too HDF5 specific.
2020-06-29 08:02:47 +08:00
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ncgen_SOURCES = bindata.c bytebuffer.c cdata.c cvt.c data.c \
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debug.c dump.c escapes.c f77data.c genbin.c \
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genc.c genchar.c generate.c generr.c genf77.c \
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genj.c genlib.c getfill.c jdata.c list.c \
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main.c ncgeny.c semantics.c \
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util.c bytebuffer.h data.h debug.h dump.h \
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generate.h generr.h genlib.h includes.h list.h \
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ncgen.h ncgeny.h util.h
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# Obsolete
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OBSOLETE = odom.c odom.h jdatastd.c jdatajni.c genjni.c cdfdata.c cmldata.c
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2010-06-03 21:24:43 +08:00
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# This is the man page.
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man_MANS = ncgen.1
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# These files all need to be distributed.
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2015-11-20 04:44:07 +08:00
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EXTRA_DIST = ncgen.y ncgen.l ncgenl.c $(man_MANS) internals.html \
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2017-05-25 04:25:22 +08:00
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c0.cdl c0_4.cdl ref_camrun.cdl \
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2020-05-19 09:36:28 +08:00
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ncf199.cdl CMakeLists.txt c5.cdl \
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2017-03-25 08:56:14 +08:00
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compound_datasize_test.cdl compound_datasize_test2.cdl \
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tst_gattenum.cdl tst_usuffix.cdl
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2010-06-03 21:24:43 +08:00
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# This shell script causes ncgen to build a classic and a 64-bit
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# offset file from a cdl file shipped with the distribution.
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2012-05-24 04:27:34 +08:00
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#if !BUILD_DLL
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2017-05-25 04:33:55 +08:00
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##
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# Moved to ncdump as these tests rely on ncdump having been built.
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##
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#TESTS = run_tests.sh
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2020-08-18 09:15:47 +08:00
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#if USE_HDF5
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2017-05-25 04:33:55 +08:00
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#TESTS += run_nc4_tests.sh
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2020-08-18 09:15:47 +08:00
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#endif # USE_HDF5
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2012-05-24 04:27:34 +08:00
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#endif # !BUILD_DLL
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2010-06-03 21:24:43 +08:00
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2012-11-01 04:07:11 +08:00
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CLEANFILES = c0.nc c0_64.nc c0_4.nc c0_4c.nc ref_camrun.c \
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2016-11-18 06:29:32 +08:00
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ncf199.nc c5.nc compound_datasize_test.nc compound_datasize_test2.nc \
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2016-11-19 05:09:01 +08:00
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tst_compound_datasize_test.cdl tst_compound_datasize_test2.cdl tst_ncf199.cdl \
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2017-03-21 03:50:44 +08:00
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tst_tst_gattenum.cdl tst_gattenum.nc \
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2017-03-25 08:56:14 +08:00
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tst_tst_usuffix.cdl tst_usuffix.nc \
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2016-11-19 05:09:01 +08:00
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tst_c0.cdl tst_c0_4.cdl tst_c0_4c.cdl tst_c0_64.cdl
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2010-06-03 21:24:43 +08:00
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2015-11-20 04:44:07 +08:00
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# These rules are used if someone wants to rebuild ncgenl.c or ncgeny.c
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2010-06-03 21:24:43 +08:00
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# Otherwise never invoked, but records how to do it.
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# BTW: note that renaming is essential because otherwise
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# autoconf will forcibly delete files of the name *.tab.*
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2017-02-23 06:56:29 +08:00
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# Note also that this should be built under linux or cygwin
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# using bison version 3 or later.
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2017-08-13 05:50:31 +08:00
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# Note also that this code is in a shell script if you do
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# not want to other to ./configure.
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2010-08-26 03:01:07 +08:00
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makeparser::
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2018-12-06 10:20:43 +08:00
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rm -f ncgenl.c lex.ncg.c
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Enhance/Fix filter support
re: Discussion https://github.com/Unidata/netcdf-c/discussions/2214
The primary change is to support so-called "standard filters".
A standard filter is one that is defined by the following
netcdf-c API:
````
int nc_def_var_XXX(int ncid, int varid, size_t nparams, unsigned* params);
int nc_inq_var_XXXX(int ncid, int varid, int* usefilterp, unsigned* params);
````
So for example, zstandard would be a standard filter by defining
the functions *nc_def_var_zstandard* and *nc_inq_var_zstandard*.
In order to define these functions, we need a new dispatch function:
````
int nc_inq_filter_avail(int ncid, unsigned filterid);
````
This function, combined with the existing filter API can be used
to implement arbitrary standard filters using a simple code pattern.
Note that I would have preferred that this function return a list
of all available filters, but HDF5 does not support that functionality.
So this PR implements the dispatch function and implements
the following standard functions:
+ bzip2
+ zstandard
+ blosc
Specific test cases are also provided for HDF5 and NCZarr.
Over time, other specific standard filters will be defined.
## Primary Changes
* Add nc_inq_filter_avail() to netcdf-c API.
* Add standard filter implementations to test use of *nc_inq_filter_avail*.
* Bump the dispatch table version number and add to all the relevant
dispatch tables (libsrc, libsrcp, etc).
* Create a program to invoke nc_inq_filter_avail so that it is accessible
to shell scripts.
* Cleanup szip support to properly support szip
when HDF5 is disabled. This involves detecting
libsz separately from testing if HDF5 supports szip.
* Integrate shuffle and fletcher32 into the existing
filter API. This means that, for example, nc_def_var_fletcher32
is now a wrapper around nc_def_var_filter.
* Extend the Codec defaulting to allow multiple default shared libraries.
## Misc. Changes
* Modify configure.ac/CMakeLists.txt to look for the relevant
libraries implementing standard filters.
* Modify libnetcdf.settings to list available standard filters
(including deflate and szip).
* Add CMake test modules to locate libbz2 and libzstd.
* Cleanup the HDF5 memory manager function use in the plugins.
* remove unused file include//ncfilter.h
* remove tests for the HDF5 memory operations e.g. H5allocate_memory.
* Add flag to ncdump to force use of _Filter instead of _Deflate
or _Shuffle or _Fletcher32. Used for testing.
2022-03-15 02:39:37 +08:00
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flex -L -Pncg -8 ncgen.l
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2015-11-20 04:44:07 +08:00
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sed -e s/lex.ncg.c/ncgenl.c/g <lex.ncg.c >ncgenl.c
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2013-01-04 04:45:34 +08:00
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bison -pncg -t -d ncgen.y
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2020-09-10 00:24:33 +08:00
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rm -f ncgeny.c ncgeny.h
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2015-11-20 04:44:07 +08:00
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sed -e s/ncgen.tab.c/ncgeny.c/g -e s/ncgen.tab.h/ncgeny.h/g <ncgen.tab.c >ncgeny.c
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sed -e s/ncgen.tab.c/ncgeny.c/g -e s/ncgen.tab.h/ncgeny.h/g <ncgen.tab.h >ncgeny.h
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2018-12-06 10:20:43 +08:00
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rm -f lex.ncg.c ncgen.tab.h ncgen.tab.c
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