1. When model is detected as NC_FORMATX_NC3 and is called from
nc_create_par, change the model to NC_FORMATX_PNETCDF.
2. When called from nc_create() or nc_open(), using NC_MPIIO or
NC_MPIPOSIX is considered invalid.
3. Handle the case when NETCDF4 is not enabled but cmode/omode
contains NC_NETCDF4.
4. Handle the case when PNETCDF is not enabled but cmode/omode
contains NC_PNETCDF.
5. Correct comments about PnetCDF only handles CDF-5 files.
6. Add a check for MPI_ERR_NO_SUCH_FILE error class.
Make NC_check_file_type() static, as it is used in dfile.c only.
re: github issue https://github.com/Unidata/netcdf-c/issues/1111
One of the less common use cases for the in-memory feature is
apparently failing with HDF5-1.10.x. The fix is complicated and
requires significant changes to libhdf5/nc4memcb.c. The current
setup is detailed in the file docs/inmeminternal.dox.
Additionally, it was discovered that the program
nc_test/tst_inmemory.c, which is invoked by
nc_test/run_inmemory.sh, actually was failing because of the
above problem. But the failure is not detected since the script
does not return non-zero value.
Other Changes:
1. Fix nc_test_tst_inmemory to return errors correctly.
2. Make ncdap_tests/findtestserver.c and dap4_tests/findtestserver4.c
be generated from ncdap_test/findtestserver.c.in.
3. Make LOG() print output to stderr instead of stdout to
avoid contaminating e.g. ncdump output.
4. Modify the handling of NC_INMEMORY and NC_DISKLESS flags
to properly handle that NC_DISKLESS => NC_INMEMORY. This
affects a number of code pieces, especially memio.c.
The fix includes the following changes.
1. Checking and using the default file format at file create time is now
done only when the create mode (argument cmode) does not include any
format related flags, i.e. NC_64BIT_OFFSET, NC_64BIT_DATA,
NC_CLASSIC_MODEL, and NC_NETCDF4.
2. Adjustment of cmode based on the default format is now done in
NC_create() only. The idea is to adjust cmode before entering the
dispatcher's file create subroutine.
3. Any adjustment of cmode is removed from all I/O dispatchers, i.e.
NC4_create(), NC3_create(), and NCP_create().
4. Checking for illegal cmode has been done in check_create_mode() called
in NC_create(). This commit removes the redundant checking from
NCP_create().
5. Remove PnetCDF tests in nc_test/tst_names.c, so it can focus on testing
all classic formats and netCDF4 formats.
Two new test programs are added. They can be used to test netCDF with and
without this commit.
1. nc_test/tst_default_format.c
2. nc_test/tst_default_format_pnetcdf.c (use when PnetCDF is enabled).
in the docs directory.
1. Add a new internal document -- testserver.dox -- to describe
how to set up and maintain the dap test server.
2. It moves the internal documentation (internal.dox, indexing.dox,
and testserver.dox) to later in the documentation table of contents.
3. Cleanup the formatting of the internal documents.
4. Cleanup some minor doxygen issues in other files.
Fix https://github.com/Unidata/netcdf-c/issues/962
1. remove the --disable-diskless option since it is no
longer needed. Similarly for CMakeLists.txt.
2. Fixed nc4files.c where BAIL and return were mixed
leading to situation where cleanup code was not
being invoked. This probably occurs elsewhere,
but I did not find any specifically.
and https://github.com/Unidata/netcdf-c/issues/708
Expand the NC_INMEMORY capabilities to support writing and accessing
the final modified memory.
Three new functions have been added:
nc_open_memio, nc_create_mem, and nc_close_memio.
The following new capabilities were added.
1. nc_open_memio() allows the NC_WRITE mode flag
so a chunk of memory can be passed in and be modified
2. nc_create_mem() allows the NC_INMEMORY flag to be set
to cause the created file to be kept in memory.
3. nc_close_mem() allows the final in-memory contents to be
retrieved at the time the file is closed.
4. A special flag, NC_MEMIO_LOCK, is provided to ensure that
the provided memory will not be freed or reallocated.
Note the following.
1. If nc_open_memio() is called with NC_WRITE, and NC_MEMIO_LOCK is not set,
then the netcdf-c library will take control of the incoming memory.
This means that the original memory block should not be freed
but the block returned by nc_close_mem() must be freed.
2. If nc_open_memio() is called with NC_WRITE, and NC_MEMIO_LOCK is set,
then modifications to the original memory may fail if the space available
is insufficient.
Documentation is provided in the file docs/inmemory.md.
A test case is provided: nc_test/tst_inmemory.c driven by
nc_test/run_inmemory.sh
WARNING: changes were made to the dispatch table for
the close entry. From int (*close)(int) to int (*close)(int,void*).
(I hope) metadata mechanism. This mostly just adds new pieces of
code (e.g. nclistmap) and does some minor fixes.
It should be transparent to everything else.
The next set of changes will be the big step.
2. Fixed plugin building (nc_test4/hdf5plugins)
to be done properly by cmake and automake.
4. Duplicated part of the nc_test4 filter test code
in examples/C
An incomplete and untested set of hooks exist
for OS-X in nc_test4/findplugins.in. They need testing.
strlcat provides better protection against buffer overflows.
Code is taken from the FreeBSD project source code. Specifically:
https://github.com/freebsd/freebsd/blob/master/lib/libc/string/strlcat.c
License appears to be acceptable, but needs to be checked by e.g. Debian.
Step 1:
1. Add to netcdf-c/include/ncconfigure.h to use our version
if not already available as determined by HAVE_STRLCAT in config.h.
2. Add the strlcat code to libdispatch/dstring.c
3. Turns out that strlcat was already defined in several places.
So remove it from:
ncgen3/genlib.c
ncdump/dumplib.c
3. Define strlcat extern definition in ncconfigure.h.
4. Modify following directories to use strlcat:
libdap2 libdap4 ncdap_test dap4_test
Will do others in subsequent steps.
