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468 Commits

Author SHA1 Message Date
Ward Fisher
9d91a9684a Merge branch 'gh252' 2016-04-12 10:03:40 -06:00
Ward Fisher
baec7157a3 Clean up lingering 'make distcheck' errors. 2016-04-12 09:48:21 -06:00
Ward Fisher
3f773258bd Corrected an issue with hashmap and missing random() function on Windows using Visual Studio 2013 2016-04-11 16:07:27 -06:00
Ward Fisher
cc803f5c00 Merge branch 'nc3-hashmap-fix' of https://github.com/gsjaardema/netcdf-c into merge-gh246 2016-04-05 15:31:06 -06:00
Ward Fisher
33e43e15f1 Merge branch 'master' into gh240 in preparation for final merge. 2016-04-05 20:28:03 +00:00
Ward Fisher
6409b11640 Modified nc_inq_type so that it will return valid information for valid data types even if the associated ncid doesn't have access to those data types. See https://github.com/Unidata/netcdf-c/issues/240 for more information. 2016-04-05 20:13:42 +00:00
Greg Sjaardema
09454cba09 Fix accessing deleted memory 2016-04-05 09:47:12 -06:00
Greg Sjaardema
1f9eb8093c Fix duplicate key issues in nc_hashmap 
The addition of the nc_hashmap to facilitate quick
retrieval of var and dim by name did not take into
account key collisions -- two or more names hashed
to the same value.  If the keys matched, it assumed
that the names matched also.

This change fixes this incorrect assumption and
checks both the key (which is the hash of the name)
and if the keys match, it also checks that the names
match.

While there have been no instances of duplicate keys,
they are certain to occur and cause difficult to
debug issues. This fix eliminates that defect.
 2016-04-05 09:07:40 -06:00
Greg Sjaardema
43ef27a407 Revert array geometric growth option 2016-03-24 06:44:41 -06:00
Greg Sjaardema
a248e0dfbe Free hashmap to eliminate memory leaks 2016-03-24 06:38:45 -06:00
Greg Sjaardema
d5cb4b9e3e Add hashmap for quick retrieval of dim and var 2016-03-24 06:38:45 -06:00
Greg Sjaardema
3bb86e417d Update var.c 2016-03-22 07:52:41 -06:00
Greg Sjaardema
362e28948d Add hashmap for quick retrieval of dim and var 2016-03-22 07:29:00 -06:00
Ward Fisher
fb2ff0c24b Refactored old ENOERR code into NC_NOERR error code in libsrc. This is done in support of https://github.com/Unidata/netcdf-c/issues/213. 2016-03-07 10:58:02 -07:00
Ward Fisher
e10ad6bed8 Removing duplicated errors, in support of https://github.com/Unidata/netcdf-c/issues/213 2016-03-07 10:48:04 -07:00
Ward Fisher
b19b807e8b Working around a couple of problematic calls to fstat in support of https://github.com/Unidata/netcdf-c/issues/188 . No idea why these were a problem in VS14 (Visual Studio 2015) and not in VS12 (Visual Studio 2013). It's possible there are other, similar issues out there. We'll see what turns up when we run all the tests. These changes were tested against nc_test4/tst_large2.c 2016-03-02 13:03:29 -07:00
Ward Fisher
a81f150e88 Modified fstat call in fgrow2 to use filelengthi64 on Windows, where available. 2016-03-02 10:51:11 -07:00
Ward Fisher
fbdea5c4a0 Working in support of https://github.com/Unidata/netcdf-c/issues/188 . Exploratory work. 2016-02-29 15:08:09 -07:00
Ward Fisher
0ee9a4f59e Further cleanup of generated files. 2016-01-22 12:04:43 -07:00
Dennis Heimbigner
d15f277252 The max dimension sizes do not take CDF-5 format into account. 
NetCDF-c Github issue #185

The code in libsrc/dim.c has not been upgraded to support
CDF-5 format.

Rule we are implementing sets the max dimension sizes as follows:

Classic:	CDF-1	NC_MAX_INT - 3    = 2147483647 - 3
64 bit Offset:	CDF-2	NC_MAX_UINT - 3	  =  4294967295 - 3
64 bit Data:	CDF-5	NC_MAX_UINT64 - 3 = 18446744073709551615 - 3

The -3 is to handle rounding.
 2016-01-05 21:26:25 -07:00
Ward Fisher
023356ba9b Fixed typos. 2015-12-29 12:39:35 -07:00
Ward Fisher
cee769cc1e Converting CHAR_IS_SIGNED over to autoconf-style __CHAR_UNSIGNED__ 2015-12-28 21:27:27 +00:00
Ward Fisher
8e4a8f4225 Chasing down implicit char cast which rounds a value to 0 when a negative value is cast to a different unsigned type. 2015-12-28 20:24:56 +00:00
Ward Fisher
bd92caa176 More changes towards fixing the issue where the file is read incorrectly. 2015-12-28 17:36:05 +00:00
Ward Fisher
103863ca24 More architecture-specific fenceposting. 2015-12-24 16:42:54 +00:00
Ward Fisher
d71e9ed5f6 Fenceposting the bug fixes with __arm__ ifdefs. 2015-12-24 09:35:32 -07:00
Ward Fisher
925da14d2a Some additional errors reared up after fixing the main frustrating one. Working towards fixing them. 2015-12-24 01:37:42 +00:00
Ward Fisher
6eec405e13 Added explit cast from signed in ncx.m4 to address https://github.com/Unidata/netcdf-c/issues/159. It is likely overly broad; I will refine it once I've had a chance to read up on m4. 2015-12-23 22:16:49 +00:00
Ward Fisher
612b35a84c Merge branch 'master' into cdf-5, in preparation for merging the CDF-5 functionality into the master branch. This will be the key new feature for netcdf 4.4.0. 2015-11-05 13:40:35 -07:00
Ward Fisher
bf02ded6f4 Merge branch 'ncf344' of https://github.com/Unidata/netcdf-c into ncf344 2015-11-02 12:15:19 -07:00
Ward Fisher
acc4993b19 Changes to modified files. 2015-11-02 12:14:19 -07:00
Ward Fisher
c87d792cfc Applied the patch provided by Wei-keng Liao in support of [NCF-344]. 2015-10-30 16:45:32 +00:00
Ward Fisher
f7b7996f7e Added brackets for clarity around some code in question. 2015-10-28 11:04:34 -06:00
Ward Fisher
7c8ce85a5f Removing a couple of generated files from version control. 2015-10-22 13:03:31 -06:00
Ward Fisher
36b6230b3d Working on debugging cdf-5 branch on Windows. Currently, nctest fails. 2015-10-21 16:13:31 -06:00
Ward Fisher
5e9fe31ae7 Updating .m4 file. 2015-10-21 15:04:59 -06:00
Ward Fisher
0d1f013bb7 Removed generated ncx.c file from version control. 2015-10-21 13:41:50 -06:00
Ward Fisher
adbdf84fdb Regenerated ncx.c 2015-10-21 13:34:20 -06:00
Ward Fisher
225050c4b7 Tweaked .m4 file for a specific case. 2015-10-21 19:11:22 +00:00
Ward Fisher
4aca5795ac Regenerated source files from m4 to make things work on Windows. 2015-10-21 11:27:41 -06:00
Ward Fisher
519a56019f Merge branch 'fix-typos' of https://github.com/tbeu/netcdf-c into tbeu-fix-typos 2015-10-16 14:16:09 -06:00
Dennis Heimbigner
cd7a06b193 pull request 2015-10-12 17:09:37 -06:00
dmh
39ccdc5ee3 conflicts 2015-10-11 13:43:19 -06:00
dmh
ed57a337ec add ptrdiff_t checks 2015-10-11 13:35:44 -06:00
Ward Fisher
76621d3ae2 Regenerated files. 2015-10-09 13:06:41 -06:00
Ward Fisher
ef586766e3 Added STDIO option to CMake-based build. 2015-10-09 13:06:32 -06:00
Dennis Heimbigner
554034b712 1. Added temporary work-around for cygwin where 
AC_CHECK_SIZEOF is not working because anti-virus
   will not allow very rapid creation/deletion of a
   file with same name.
2. modified some test baselines to attempt to fix
   Ward's issue
 2015-10-09 10:33:40 -06:00
dmh
9f65c3b808 cleanup and squash changes vav master 2015-10-09 10:26:49 -06:00
dmh
8fc86035b2 merge-squash 2015-10-09 10:22:00 -06:00
Dennis Heimbigner
dccbc87d24 1. Added temporary work-around for cygwin where 
AC_CHECK_SIZEOF is not working because anti-virus
   will not allow very rapid creation/deletion of a
   file with same name.
2. modified some test baselines to attempt to fix
   Ward's issue
 2015-10-09 10:14:45 -06:00
dmh
087ae58ffd cleanup and squash changes vav master 2015-10-09 10:12:11 -06:00
dmh
49597a64af merge-squash 2015-10-09 10:12:11 -06:00
Ward Fisher
163b6575a5 Fixed a bug in 'make dist'. 2015-10-06 15:29:18 -06:00
Ward Fisher
8515ece987 Corrected a dead-code issue reported by Coverity (that I introduced). 2015-09-24 11:32:41 -06:00
Ward Fisher
720fe78ea2 Coverity: 1302444, addressed a potential negative argument being passed to memory allocation routine. 2015-09-22 15:42:52 -06:00
Ward Fisher
f1d2470776 Corrected minor null check issue reported by Coverity: 1302448 2015-09-22 15:35:30 -06:00
Ward Fisher
a8df681331 Addressed a potential null dereference bug reported by Coverity static analysis. 2015-09-22 15:31:48 -06:00
Dennis Heimbigner
a1be2456eb 1. Added temporary work-around for cygwin where 
AC_CHECK_SIZEOF is not working because anti-virus
   will not allow very rapid creation/deletion of a
   file with same name.
2. modified some test baselines to attempt to fix
   Ward's issue
 2015-09-15 15:18:59 -06:00
Ward Fisher
8c70437580 Added a check for a null pointer based on the bug fix documented in [NCF-340]. 2015-09-11 12:29:35 -06:00
Ward Fisher
dffaff8406 Further progress on [NCF-340], capturing previously-lost error code NC_EGLOBAL 2015-09-10 15:55:06 -06:00
Ward Fisher
7aa22d275b Turned search back on in developer documentation. Applied part of fix for [NCF-340] in putget.m4 2015-09-10 15:35:14 -06:00
tbeu
e2820e4d8a Fix common typos 
Detected by https://github.com/vlajos/misspell_fixer
 2015-08-20 11:42:05 +02:00
dmh
b8f0522c91 add experimental stdio based ncio module 2015-08-19 17:14:13 -06:00
dmh
2bfe9bba32 cleanup and squash changes vav master 2015-08-16 21:44:18 -06:00
dmh
859f105005 merge-squash 2015-08-15 16:26:35 -06:00
dmh
fab66699d1 Moved libsrc5 to libsrcp 
because pnetcdf is used for
more than CDF-5 files.
 2015-08-14 20:39:56 -06:00
Russ Rew
6a6cbf4005 More clang warnings eliminated. 2015-08-02 17:19:35 -06:00
Russ Rew
ec89eb5806 Fix ncdump clang warnings. Fix invalid encodings for some non-ascii strings in tests. 2015-08-02 16:09:47 -06:00
Ward Fisher
1f5e6379e4 Fixed a memory corruption. Coverity issue: 1265729: Out-of-bounds access. 2015-07-29 14:58:34 -06:00
Ward Fisher
95cbe52b37 Additional changes to hopefully get autotools and tst_swap4b working together in service of addressing [NCF-338] 2015-07-28 13:43:15 -06:00
Ward Fisher
8f2bf0089e Some tweaks, trying to debug autotools-based build. 2015-07-28 12:38:52 -06:00
Ward Fisher
ac18154e98 Added test for function swap4b. 2015-07-27 15:31:23 -06:00
Ward Fisher
1ea348ce3d Applied patch suggested for in-place big-little-endian conversion. [NCF-338] 2015-07-27 11:09:01 -06:00
Ward Fisher
8bda7fdf67 Fleshed out comments a little more, added a specific check for older systems which return -1 instead of bytes read when the read() call is interrupted and errno is EINTR. 2015-07-21 14:08:44 -06:00
Ward Fisher
7164a99cbc Added some comments. 2015-07-21 14:00:37 -06:00
Ward Fisher
382b24c2c9 Addressing a signal-interrupted read which sets errno to EINTR [NCF-337] 2015-07-21 13:55:59 -06:00
Ward Fisher
39c9d10ede Removed a stray debugging message. 2015-06-18 14:37:31 -06:00
Ward Fisher
952b73e51e Modified how m4 is detected/handled, made it less a straight platform check. 2015-06-11 14:28:39 -06:00
Ward Fisher
bb42e4639e Addressed conflict between master, mem2. 2015-06-02 15:03:12 -06:00
Dennis Heimbigner
0d082d79ea synch oc 2015-05-29 17:31:42 -06:00
dmh
dbc7215063 1. fix nc_open_mem doxygen description 
2. fix some bugs wrt to cygwin vs linux.
3. add to RELEASE_NOTES
4. try to fix tst_inmemory fd error by putting the first
   arg to dotest in quotes.
 2015-05-28 19:23:33 -06:00
Ward Fisher
64e0d2a44e Added a new test for h4 endianness. [NCF332] 2015-05-28 17:13:15 -06:00
dmh
3dd807a155 The original mem branch somehow got 
hosed, so I rebuilt it as a new mem2 branch.
 2015-05-28 15:10:10 -06:00
Ward Fisher
6ed4770e0a Added a typedef int pid_t for Windows platforms, solves a unix compatibility issue. 2015-05-28 10:14:45 -06:00
dmh
c2f880f0f3 conflicts 2015-05-16 15:53:48 -06:00
dmh
ab5022256d need to set -e many of the .sh programs 2015-05-16 15:46:39 -06:00
Ward Fisher
fa1d61b980 Additional debugging for [NCF-331] 2015-05-12 13:52:52 -06:00
Ward Fisher
0d8be16398 Removed some debugging stanzas. 2015-05-08 14:02:11 -06:00
Ward Fisher
b7289cdfa4 Further debugging for [NCF-330]. Making decent progress using the debug flags Microsoft provides. See JIRA issue for links to documentation describing these flags. 2015-05-08 14:02:11 -06:00
Ward Fisher
211806b89f Merge branch 'master' of https://github.com/posophe/netcdf-c into posophe-master 2015-04-22 14:37:28 -06:00
Ward Fisher
c366bec8b3 Activated a couple new tests on MSVC builds when bash is available. 2015-04-20 16:06:20 -06:00
posophe
327731852e correct casting 2015-04-18 13:09:46 +02:00
Ward Fisher
6009ccef7e Trimmed some unnecessary files. 2015-04-13 01:42:49 -06:00
Ward Fisher
9043ae3644 Corrected several static-analysis reported issues. 2015-03-11 14:48:43 -06:00
Ward Fisher
017f196628 Added the [NCF-326] test to CMake build system. 2015-03-10 09:53:13 -06:00
dmh
06a11e51df 1. Allow for the user specified rc file via the env variable 
NCRCFILE.  Note that the value of this environment
   variable should be the absolute path of the rc file, not
   the path to its containing directory.
 2015-03-03 20:17:27 -07:00
Ward Fisher
9c87a7466b Corrected a sloppy error on my part. 2015-02-23 15:58:30 -07:00
Ward Fisher
a8494773f8 Addressed an 'unallocated memory' warning generated by clang. 2015-02-23 13:38:18 -07:00
dmh
f423f27693 Sync with oc project. 
This supports better authorization
handling for DAP requests, especially redirection
based authorization. I also added a new test case
ncdap_tests/testauth.sh.

Specifically, suppose I have a netrc file /tmp/netrc
containing this.
    machine uat.urs.earthdata.nasa.gov login xxxxxx password yyyyyy
Also suppose I have a .ocrc file containing these lines
    HTTP.COOKIEJAR=/tmp/cookies
    HTTP.NETRC=/tmp/netrc
Assume that .ocrc is in the local directory or HOME.

Then this command should work (assuming a valid login and password).
    ncdump -h "https://54.86.135.31/opendap/data/nc/fnoc1.nc"
 2014-12-24 10:22:47 -07:00
Ward Fisher
f9fa4793c2 Revert "Corrected several static analysis issues related to potential null pointer dereferences and memory leaks." 
This caused problems with large file support.  Reverting, will examine more closely and attempt a different fix.

This reverts commit 074603293f.
 2014-12-09 11:49:32 -07:00
Rob Latham
af4eb0fb1d sync lines for generated C files 
m4 can emit 'sync lines' which tell the toolchain "hey, this code
actually came from this other file over here".  Should help prevent
anyone accidentally editing a generated file.
 2014-12-05 12:55:49 -06:00
Rob Latham
3b61804ff7 fix m4 dealing with split lines 
Wei-keng Liao fixed this for pnetcdf. See pnetcdf revision 1904.
 2014-12-05 12:55:38 -06:00
Ward Fisher
074603293f Corrected several static analysis issues related to potential null pointer dereferences and memory leaks. 2014-11-11 15:05:55 -07:00
Ward Fisher
9f9de5a493 Added a fix for a 'garbage/undefined value' bug reported by clang. in var.c, when varp->shape was being allocated, it was not being initialized properly and as a result, in some circustances, could potentially be dereferenced and evaluated without having a proper value. It is now initialized to 0. Hopefully this does not cause a problem. All the tests continue to pass, but I'm leaving a verbose comment here in case there is a knock-on problem discovered somewhere down the line. 2014-11-06 14:43:09 -07:00
Ward Fisher
52189b7725 Corrected an an issue where memcpy might be passed a NULL destination buffer. 2014-10-01 16:31:57 -06:00
Ward Fisher
461c96cdbe Fixed a clang-reported NULL pointer dereference issue. 2014-09-30 11:30:00 -06:00
Ward Fisher
9b1eb01923 Modified comment to adhere to doxygen format. 2014-09-18 13:31:30 -06:00
Ward Fisher
056de3f69d Corrected a logic error introduced in previous commit. 2014-08-27 15:40:41 -06:00
Ward Fisher
dac65bdab8 Removed a commented-out block of code. 2014-08-27 14:40:40 -06:00
Ward Fisher
4286822b91 Moved lseek call out of assert statement into an explicit check. JIRA NCF-312. 2014-08-27 14:26:54 -06:00
Ward Fisher
ae927f3c84 Fixed a dereference issue where ndims was greater than 0 but the allocation for dimids would fail. Identified by clang static analysis. 2014-07-09 12:45:06 -06:00
Ward Fisher
7f812b367e Manual merge of pull request https://github.com/Unidata/netcdf-c/pull/64 contributed by nschloe. Assorted CMake improvements. 2014-06-11 15:51:31 -06:00
Ward Fisher
05aaa4b376 Renamed man4 directory to docs. 2014-05-21 14:40:39 -06:00
Ward Fisher
44fae42214 Cleaned up indentation, white space in multiple CMakeLists.txt files. 2014-04-21 11:15:33 -06:00
Russ Rew
4a90e9a888 Change assertions that indicate file corruption into error status return. 2014-04-16 08:04:00 -06:00
Dennis Heimbigner
576cd84754 Merge branch 'master' of https://github.com/Unidata/netcdf-c 2014-03-29 13:36:02 -06:00
Dennis Heimbigner
4e68a3b8d3 add some jna personal scripts 2014-03-29 13:35:52 -06:00
Ward Fisher
76e5e0f1fa Addressed several minor issues revealed by static analysis (coverity, clang). Mostly to do with extreme corner cases in which a null pointer would be dereferenced, or dereferencing a non-null (but non-initialized) pointer would result in garbage. 2014-03-28 17:11:26 -06:00
Quincey Koziol
4bfd9b27a0 Merge remote-tracking branch 'upstream/master' 
Conflicts:
	libdap2/common34.c
	oc2/ocutil.c
 2014-02-11 17:26:09 -06:00
Quincey Koziol
b2dfacbcfa Big clean up to type handling in libsrc4, which makes fill-values work 
correctly for variables with string datatype, plus a few other minor changes.
 2014-02-11 17:12:08 -06:00
Ward Fisher
5600bd327e Updated CMake file. 2014-02-06 11:35:35 -07:00
Ward Fisher
7786b78cfc Reorganized Windows includes. 2014-02-04 11:10:27 -07:00
Ward Fisher
c1407c3239 Removed stray debugging message. 2014-02-03 14:42:56 -07:00
Quincey Koziol
cd71eb525c Corrected "BAIL" macros to avoid infinite loop when logging is disabled and an 
error occurs after an "exit:" label.

Corrected a dozen Coverity errors (mainly allocation issues, along with a few
    other things):
        711711, 711802, 711803, 711905, 970825, 996123, 996124, 1025787,
        1047274, 1130013, 1130014, 1139538

Refactored internal fill-value code to correctly handle string types, and
    especially to allow NULL pointers and null strings (ie. "") to be
    distinguished.  The code now avoids partially aliasing the two together
    (which only happened on the 'write' side of things and wasn't reflected on
    the 'read' side, adding to the previous confusion).

    Probably still weak on handling fill-values of variable-length and compound
    datatypes.

Refactored the recursive metadata reads a bit more, to process HDF5 named
    datatypes and datasets immediately, avoiding chewing up memory for those
    types of objects, etc.

Finished uncommenting and updating the nc_test4/tst_fills2.c code (as I'm
    proceeding alphabetically through the nc_test4 code files).
 2013-12-29 01:12:43 -06:00
dmh
582410a407 [NCF-273]/HZY-708311 
Add a new function called nc_inq_format_extended that
returns more detailed format information (vis-a-vis
nc_inq_format) about an open dataset.

Note that the netcdf API will present the file as if it had
the format specified by nc_inq_format.  The true file
format, however, may not even be a netcdf file; it might be
DAP, HDF4, or PNETCDF, for example. This function returns
that true file type.  It also returns the effective mode for
the file.

signature: nc_inq_format_extended(int ncid, int* formatp, int* modep)
where
* ncid is the NetCDF ID from a previous call to nc_open() or
  nc_create().
* formatp is a pointer to a location for returned true format.
* modep is a pointer to a location for returned mode flags.

Refer to the actual list in the file netcdf.h to see the
currently defined set.

Also added test cases (tst_formatx*).
 2013-12-22 12:53:20 -07:00
Ward Fisher
b3388178b4 Corrected a double-free issue reported by Coverity. 2013-12-17 15:54:14 -07:00
Quincey Koziol
b3044de434 Refactored read_scale(), memio_new(), var_create_dataset() and makespecial() 
to clean up resources properly on failure.

Refactored doubly-linked list code for objects in the libsrc4 directory,
    cleaning up the add/del routines, breaking out the common next/prev
    pointers into a struct and extracting the add/del operations on them,
    changed the list of dims to add new dims in the same order as the other
    types, made all add routines able to optionally return a pointer to the
    newly created object.

Removed some dead code (pg_var(), nc4_pg_var1(), nc4_pg_varm(), misc. small
    routines, etc)

Fixed fill value handling for string types in nc4_get_vara().

Changed many malloc()+strcpy() pairs into calls to strdup().

Cleaned up misc. other minor Coverity issues.
 2013-12-08 03:29:26 -06:00
Ward Fisher
5566cbb772 Added a check for _filelengthi64 in configuration. When found, this will be used instead of fstat when computing file length. 2013-11-04 12:58:33 -07:00
Ward Fisher
bda59030cb Replaced call to fstat with call to filelength, on apropriate system. 2013-11-01 16:30:33 -06:00
Ward Fisher
3a4d8252c3 Corrected an issue on OSX 'Mavericks'. 2013-10-21 17:39:13 -06:00
Ward Fisher
e636881aa7 Debugging an issue with LFS tests on Windows. 2013-09-03 14:22:55 -06:00
Ward Fisher
dae5e2f697 Added a short copyright message at head of a couple CMakeLists files; this will be propegated to the others. 
Updated version in configure.ac to 4.3.1-rc2.
 2013-08-15 09:43:59 -06:00
Ward Fisher
85465d8c10 Added stanza to only invoke m4 in non-MSVC environments. 2013-08-13 15:57:53 -06:00
Ward Fisher
43532c4193 Updated revision to rc2. 
Refactored CMakeLists.txt in libsrc to generate, install netcdf.3 man page.
 2013-08-13 15:42:45 -06:00
Ward Fisher
d91aa28110 Corrected a couple resource leak issues reported by Coverity static analysis. 2013-08-09 16:19:45 -06:00
Dennis Heimbigner
b85d3568ec Added the necessary code to support 
group renaming. The primary API
is 'nc_rename_grp(int grpid, const char* name)'.
No test cases provided yet.
This also required adding a rename_grp entry
to the dispatch tables.
 2013-07-19 21:48:37 +00:00
Ward Fisher
1c23ec06b8 Merging latest from netcdf-cmake branch. Includes a handful 
of fixes for coverity-identified errors.
 2013-07-19 21:32:27 +00:00
Ward Fisher
33d3d06971 Added initial 'make dist', 'make distcheck' support to 
CMake-based builds.
 2013-06-03 16:42:04 +00:00
Russ Rew
946a7ab8b5 Fix contributed by Nath Gopalaswamy to large file problem reading 
netCDF classic or 64-bit offset files that have a UINT32_MAX flag for
large last record size of a variable that has values larger than 1
byte.  This problem had previously been fixed for *writing* such data,
but was only tested with an ncbyte variable.  Fixed test to
demonstrate problem and the fix.

More updates to chunking documentation, cosmetic fixes for some
"--option=" documentation that doxygen turns into mdash.
 2013-05-31 20:18:18 +00:00
Ward Fisher
da16fc1cde Fixed an issue with Windows builds 
not compiling due to how
ssize_t was being detected/defined.
 2013-05-24 21:19:07 +00:00
Dennis Heimbigner
c659633d2e merge from trunk 2013-03-26 16:45:02 +00:00
Dennis Heimbigner
4b7817e69e Return EACCES instead of NC_EMETADATA when failing to create an HDF5 file 2013-03-26 16:31:56 +00:00
Ward Fisher
89ea9a4631 Added include for Windows in order to make use of alloca. 2013-03-25 21:02:11 +00:00
Dennis Heimbigner
9b4db7a039 Make some things static that do not need to be externally visible 2013-03-24 17:33:17 +00:00
Ward Fisher
f26a4a559a Merged latest from netcdf-cmake branch. 
Addressed several cmake-related issues, in terms of
building on Windows.  Also added XGetopt.c to 
EXTRA_dist in Makefile.am files.
 2013-03-19 22:40:15 +00:00
Dennis Heimbigner
dea3c726c8 merge trunk into this branch 2013-03-15 20:31:07 +00:00
Dennis Heimbigner
9eaac2a595 Apply Wei-Keng's fix 
for JIRA issue NCF-241.
This is only temporary
until I can make pnetcdf
operate as a separate dispatch table.

Also, fix nc_test4/tst_pnetcdf
to open with nc_open_par;
this is necessary because a pnetcdf
created file cannot be opened
as a netcdf classic file.
 2013-03-13 17:34:47 +00:00
Dennis Heimbigner
c18c90b012 removed some unused local variables 2013-03-12 20:45:58 +00:00
Ward Fisher
c23a97dd7f Fixed a windows-related issue (required malloc.h include), 
update documentation related to netcdf for Windows.
 2013-03-11 22:45:26 +00:00
Russ Rew
4b89b3c392 Applied Wei-keng Liao's patch for fixing bug NCF-234, fixing variable offsets in files created by pnetcdf but rewritten by calling nc_enddef. 2013-03-10 01:09:06 +00:00
Dennis Heimbigner
80cf3a2c75 fix typo in previous checkin 2013-03-08 18:27:45 +00:00
Dennis Heimbigner
841f7c7148 Move onstack.h from libsrc 
to include because it is used
both in libsrc and libdispatch
 2013-03-08 18:08:11 +00:00
Ward Fisher
0444a6c711 Fixed a couple of tests on Windows, 
Fixed some compile errors on Windows.
 2013-02-21 23:56:15 +00:00
Ward Fisher
ddf3c31bb0 Corrected a handful of syntax issues in CMake config files, 
probably introduced more.  

Added CMake-related files to Makefile.am files for inclusion
when creating a distribution package.
 2013-02-20 23:28:28 +00:00
Ward Fisher
21523c8582 Merged changes from cmake branch. oc2 changes are just 
'file property' changes, not sure what exactly.
 2012-12-20 21:50:45 +00:00
Dennis Heimbigner
5f2eb8afbf Fix a number of potential problems by changing calls to nc_XXX to NC3/4_XXX 2012-12-12 20:05:06 +00:00
Ward Fisher
81280c7878 Merge from latest netcdf-cmake branch. 
- Fixes for Windows.
- CMake-based changes (functionality, tests).
- Smattering of coverity-informed bug-fixes.
 2012-12-05 18:35:42 +00:00
Russ Rew
f8ec45d20d Fix NCF-209, bug causing netcdf-fortran build to get assertion violation in 'make check' 2012-12-03 21:15:30 +00:00
Dennis Heimbigner
a53682fc66 fix Jira NCF-207: double call to del_from_NCLIST 2012-11-21 17:52:49 +00:00
Ward Fisher
ff631c8156 Merged latest changes from cmake branch. 
o Improved CMake support.
o Cmake module compatibility (netcdf-config*.cmake.in).
 2012-11-19 21:43:12 +00:00
Ward Fisher
afa67452f6 Took some time to address a handful of errors identified by Coverity. 
Primarily focused on memory errors falling into a couple different types:

1) Static overrun errors.
2) Dereference uninitialized memory errors.

make distcheck works after applying these fixes, and coverity no longer sees an issue, so hopefully they are properly resolved.
 2012-11-14 18:24:45 +00:00
Ward Fisher
057701e1fa Added man pages to 'make install' 2012-10-17 21:14:30 +00:00
Ward Fisher
d0a665f83f Including .c files generated from .m4 to accomodate 
Windows users (who generally will lack m4).  This policy
can be re-evaluated if need be.
 2012-10-02 16:45:27 +00:00
Dennis Heimbigner
076e78e91c Fix Jira bug NC-198 2012-10-02 14:54:19 +00:00
Ward Fisher
cb10672d0d 2012-09-14 22:54:55 +00:00
Ward Fisher
1a72ec6adb 2012-09-14 21:38:46 +00:00
Ward Fisher
59af056da6 2012-09-14 16:15:18 +00:00
Ward Fisher
2de3388cf1 Additional CMake usage. 2012-09-13 18:27:23 +00:00
Ward Fisher
a83c1bd851 2012-09-12 20:18:48 +00:00
Ward Fisher
53843f134e 2012-09-10 22:37:38 +00:00
Ward Fisher
f820e5e5ee 2012-09-10 21:19:57 +00:00
Ward Fisher
54a3c8290a 2012-09-07 16:34:23 +00:00
Ward Fisher
776e179f23 Corrected CMakeList files. 2012-09-06 21:50:00 +00:00
Ward Fisher
e55d002dbc Merged Dennis' changes from trunk. 2012-09-06 21:15:37 +00:00
Dennis Heimbigner
5ca78309cc The effect of this change is to make the struct NC structure 
contain as little file-type specific info as possible.  It
modifies especially libsrc so that all of the netcdf-3 data
that used to be in struct NC is now kept in a separate chunk
of data pointed to by the struct NC. This makes all of
current protocols consistent: netcdf-3, netcdf-4, and dap.
 2012-09-06 19:44:03 +00:00
Ward Fisher
04e61d5894 Added MSVC-compatibility items. 2012-08-27 21:19:25 +00:00
Ward Fisher
d5d15cbdd1 Added a minor change from the trunk. 2012-08-24 18:42:40 +00:00
Ward Fisher
e8453be1e5 Merged from trunk into branch 2012-08-20 18:30:04 +00:00
Russ Rew
4d6f11288b Fix Coverity complaint about passing big parameter by value 2012-08-17 22:00:36 +00:00
Ward Fisher
c8febf92ed Modified related to m4 file conversion macro. 2012-08-13 16:10:36 +00:00
Ward Fisher
14619ec4c4 2012-08-09 18:40:41 +00:00
Ward Fisher
0607b62375 Added coverage test flags to CMakeLists.txt files. 2012-08-09 17:07:41 +00:00
Ward Fisher
0d90326575 Integrated latest changes to trunk, added preliminary CPack support. 2012-08-02 22:56:57 +00:00
Dennis Heimbigner
bc3a732e25 fix e-support YOP-841363 plus a number of coverity found bugs 2012-08-02 18:43:21 +00:00
Ward Fisher
111ea759e1 CMake Integration 2012-07-19 22:30:05 +00:00
Ward Fisher
86b9a01f2d Merged changes from trunk. 2012-07-19 21:38:43 +00:00
Ward Fisher
71075cee2e Additional changes in support of CMake. 2012-07-18 21:12:58 +00:00
Dennis Heimbigner
cd36ff7682 fix #elif problem 2012-07-18 16:14:08 +00:00
Dennis Heimbigner
8c01f7437f fixed valgrind error in tst_h_strings.c 2012-07-18 15:50:29 +00:00
Ward Fisher
d66293beca More changes in support of CMake support 2012-07-17 21:44:41 +00:00
Ward Fisher
2dc39563cc Changes in suport of CMake 2012-07-16 22:31:35 +00:00
Ward Fisher
ec4b3dd141 2012-07-13 16:49:20 +00:00
Ward Fisher
8f508bedba Updatec CMakeLists.txt 2012-07-13 16:37:14 +00:00
Ward Fisher
b2210e7166 Added missing CMakeLists.txt file. 2012-07-10 17:45:28 +00:00
Ward Fisher
75a48b9e9e Integrated changes from trunk, began adding CMake support, updated 'build everything' script. 2012-07-02 22:59:59 +00:00
Dennis Heimbigner
60b3f3b6f3 change file permissions for memio and mmapio 2012-06-28 17:12:02 +00:00
Russ Rew
3e37e69b8e Fixed ncdump to return failure status when unknown option specified. 
Removed extra netcdf_par.h include file.
 2012-06-27 15:03:19 +00:00
Dennis Heimbigner
a6b932826b add NC_MMAP flag and tests 2012-06-23 19:25:49 +00:00
Russ Rew
74f8a38e2a Test for macro definitions of LLONG_MAX, LLONG_MIN, ULONG_MAX in <limits.h> to fix portability problem. 2012-06-05 17:02:43 +00:00
Russ Rew
d6d38094c2 Cleaned up tst_atts3.c test program. Fixed several bugs in detection 
of NC_ERANGE errors, especially with unsigned types, resolving most
NCF-172 issues and confusion between long and long long types in
llibsrc/ncx.m4.  Eliminated some unnecessary tests, e.g. tests
for negative values for unsigned types.
 2012-05-31 01:28:42 +00:00
Russ Rew
1f4eeafcb9 Fixed doxygen installation guide source file to preserve line breaks 
in code and scripts.

Fixed bug NCF-171: error reading external int into longlong or writing
from longlong array to external int on 32-bit platforms and classic
format files.

Promoted test demonstrating NCF-171 bug from longlong array from
"extra test" to "test".
 2012-05-29 15:50:15 +00:00
Dennis Heimbigner
5b2aee44a7 windows support fixes plus add --disable-diskless 2012-05-15 17:48:27 +00:00
Dennis Heimbigner
14c3dae49e more win32 fixes 2012-05-15 03:47:52 +00:00
Dennis Heimbigner
4f68d6c5f8 win32/mingw fixes 2012-05-15 03:13:08 +00:00
Dennis Heimbigner
00e50f5a44 1. changed from using port 8080 to 8081 for motherlode 
2. Fixed Ward's IGNORE problem with oc
3. Mmap support now works.
4. Fix an uninitialized variable pointed out by Russ in dnclog.c
 2012-04-22 20:34:21 +00:00
Dennis Heimbigner
e29a6fb164 added list of configure flags to man4/install.doc 2012-04-13 02:41:00 +00:00
Dennis Heimbigner
353b7ebf53 fix bug in memio.c realloc code 2012-04-12 02:06:28 +00:00
Dennis Heimbigner
48ca394d2e diskless: make read and write loop to read/write whole file when persisting 2012-04-09 22:03:02 +00:00
Dennis Heimbigner
5536bccee1 allow NC_DISKLESS with nc_open() to operate as a in-memory cache 2012-04-08 22:47:38 +00:00
Russ Rew
8a9599c850 Merge my branch back into trunk! 2012-04-01 23:42:53 +00:00
Dennis Heimbigner
7a9802dc7c forgot to check the case when HAVE_MEMMOVE is false 2012-03-28 17:46:25 +00:00
Dennis Heimbigner
7e27052f87 - Implemented diskless files for both netcdf classic and extended. 
The in-memory files can be made persistent if nc_create is called with
  NC_DISKLESS|NC_WRITE flags set. Initial test case also included.
- Modified ncio mechanism to support
  multiple ncio packages; this is so we
  can have posixio and memio operating
  at the same time.
- cleanup up a bunch of lint issues (unused variables, etc).
 2012-03-26 01:34:32 +00:00
Dennis Heimbigner
25c3167841 ckp 2012-03-26 01:30:22 +00:00
Russ Rew
7592240cb1 recommit Khroulev fix I thought I committed in January 2012-03-20 19:06:08 +00:00
Dennis Heimbigner
99eef24bc2 - Fix NCF-158 to modify ncgen flag defaults. 
- Fix NCF-157 to modify DAP code to support
  partial variable retrieval.
- Fix of NCF-154 to solve problem of ncgen
  improperly processing data lists for variables
  of size greater than 2**18 bytes.
- Fix ncgen processing of char variables that have
  multiple unlimited dimensions.
- Partly fix Jira issue: NCF-145 (vlen issues).
- Benchmark program nc_test4/tst_ar4_*) requires arguments
  and should only be invoked inside a shell
  script; fixed so that they terminate cleanly
  if invoked with no arguments.
- Fix the Doxygen processing so it will work
  with make distcheck.
- Begin switchover to using an alternative to ncio.
- Begin support for in-memory (diskless) files.
 2012-03-14 23:26:48 +00:00
Dennis Heimbigner
3e592a2604 fix dap string handling 2012-02-03 21:31:50 +00:00
Dennis Heimbigner
7b3c25b9db restore hashbig visibility 2012-01-30 17:06:59 +00:00
Dennis Heimbigner
76f9b30ea9 fix reference to hashbig 2012-01-30 16:55:39 +00:00
Dennis Heimbigner
aebd11348a 1)Integrate the oc with improved performance 2012-01-29 18:56:29 +00:00
Ed Hartnett
7b47adf3a1 removed executable permissions from all code files 2011-10-04 16:05:11 +00:00
Dennis Heimbigner
1578ddac0c 2011-09-20 20:39:04 +00:00
Dennis Heimbigner
732fbff7ce 2011-09-20 17:30:02 +00:00
Dennis Heimbigner
12d4f46668 2011-09-18 20:57:51 +00:00
Russ Rew
75af04d4a8 Fix NCF-101 bug, and add test for fix. Delete debugging leftover in nccopy.c. Fix typo in installation guide. 2011-07-18 19:11:28 +00:00
Dennis Heimbigner
4f30d3694c cleanup misc. issues 2011-07-14 22:24:02 +00:00
Ed Hartnett
296ca23237 minor changes to improve visual studio and vxworks builds 2011-07-13 12:36:22 +00:00
Ed Hartnett
17d09ddac5 moved string.c to libdispatch 2011-07-12 17:58:42 +00:00
Dennis Heimbigner
fec4cdb230 Fixed the following Jira minor bugs: 
NCF-42: _Format attribute sometimes being ignored
NCF-43: Fixed unsigned long long parsing.
NCF-47: Make opendap code properly handle illegal names like "x.y" by
        supressing them
NCF-49: check for uint type
NCF-50: properly handle username:pwd embedded in urls.
 2011-05-12 17:51:32 +00:00
Russ Rew
74c9b713bd Fix for nofill bug and test 2011-04-28 19:50:56 +00:00
Ed Hartnett
4de8b33251 rolled everything back to 1119 2011-04-28 17:11:21 +00:00
Russ Rew
0f4a94518d Fixed nofill bug, cosmetic updates to tutrial 2011-04-28 15:08:03 +00:00
Dennis Heimbigner
80d8926bad fix user+password;also the bad-name problem;also merged libncdap3+ncdap4->libdap2 2011-04-27 20:50:27 +00:00
Ed Hartnett
965a3aac70 minor refactor of the build system to work better for cross-compiling 2011-03-15 10:19:08 +00:00
Dennis Heimbigner
bc5abe766e fixed opendap perf. bug for nc_get_vars 2011-02-23 17:37:11 +00:00
Ed Hartnett
1a3ba4a6d8 cywin-mingw32 dlls now building 2011-01-06 20:12:06 +00:00
Dennis Heimbigner
f7e41dde66 add cdmremote skeleton code 2010-12-15 21:45:05 +00:00
Ed Hartnett
184b2d0945 freed new path string for nc3 and nc4 files 2010-12-01 18:21:47 +00:00
Ed Hartnett
03f63a5f1c many changes for memory fixes 2010-11-29 22:23:16 +00:00
Ed Hartnett
8cc0fd982f fixed valgrind problems 2010-11-29 21:07:09 +00:00
Russ Rew
23307ac97b Fix bug in name/hash code for renaming a dimension. 2010-11-23 18:10:51 +00:00
Dennis Heimbigner
b2c05fa4d0 fixed: 
ncgen: nan bug
       made semicolons optional after type decls
libncdap{3,4}: revamped the NC surrogate to better match
       with libsrc
libdispatch: Added a new_nc function to the dispatch table; its purpose
                 is to allow hierarchical use of NC compatible data structures.
libsrc: cleaned up the NC structure by removing drno field
general: removed --with-oc options
 2010-11-09 22:53:03 +00:00
Ed Hartnett
a658960034 added more valgrind testing 2010-10-13 22:53:25 +00:00
Ed Hartnett
a27fd4390c added opendap memory test 2010-08-20 17:20:32 +00:00
Ed Hartnett
1aedb82327 fixed some memory problems, more progress towards nc_inq_path 2010-08-19 17:37:29 +00:00
Ed Hartnett
a0e1b037e5 added nc_inq_path in dispatch tables 2010-08-18 15:11:17 +00:00
Russ Rew
bd267e503b merge recent trunk changes 2010-08-09 22:27:24 +00:00
Dennis Heimbigner
ea8379719c fixed char datalist bug and did some more dispatch cleanup 2010-08-09 20:39:36 +00:00
Russ Rew
252fbb9b9b merge with latest trunk changes 2010-08-08 23:17:15 +00:00
Dennis Heimbigner
7e1ce62211 fix undefined fsync warning: HT to Larry Baker 2010-08-06 01:16:48 +00:00
Dennis Heimbigner
dd4fe6d25c dispatch.h->ncdispatch.h to avoid visualstudio filename conflict 2010-08-05 02:44:59 +00:00