update for new release of 1.12.2

Author: wkliao

Release/pnetcdf-1.12.2.tar.gz

@@ -1,4 +1,5 @@
 [PnetCDF](https://parallel-netcdf.github.io) Version 1.12.1 Release Notes (December 9, 2019)
+------------------------------------------------------------------------------
 
 * New/updated utility program
   + A new command-line option `-t` is added to utility program `cdfdiff` to

Release_notes/1.12.1.md

@@ -0,0 +1,67 @@
+[PnetCDF](https://parallel-netcdf.github.io) Version 1.12.2 Release Notes (January 15, 202)
+------------------------------------------------------------------------------
+
+* Build recipes
+  + Starting from GNU Fortran 10.0.0, function/subroutine argument type
+    mismatch becomes a compile error. A new compile command-line option
+    "-fallow-argument-mismatch" can turn these errors into warnings. This
+    command-line option is added automatically in PnetCDF version 1.12.2 and
+    later. When building PnetCDF of version 1.12.1 and earlier versions using
+    GNU Fortran 10.0.0 and later, please add "-fallow-argument-mismatch" to
+    environment variables FFLAGS and FCFLAGS.
+    See [issue #61](https://github.com/Parallel-NetCDF/PnetCDF/issues/61)
+    and [GCC 10 Release note](https://gcc.gnu.org/gcc-10/changes.html).
+  + README.CRAY has been revised to reflect the recent changes of default
+    compiling environment on Cori at NERSC.
+
+* Updated utility program
+  + ncvalidator now reports the name of variable that violates the NetCDF
+    limitation on large variables for CDF-2 files
+  + add corrupted file bad_large_fixed_var.nc2 that contains one large
+    fixed-size variables that is not defined last
+  + add corrupted file bad_large_rec_2_vars.nc2 that contains 2 large record
+    variables
+  + add corrupted file bad_large_rec_var.nc2 that contains 1 large record
+    variable that is not defined last
+  + add URLs of NetCDF limitations on large variables for CDF-1 and 2 file
+    formats
+
+* Other updates:
+  + When calling ncmpi_create() with NC_CLOBBER flag, PnetCDF now calls
+    access() to check whether file exists first. If the file does not exist,
+    successive calls to truncate() or unlink() can be skipped.
+  + Improve detection of HDF5 signature. The HDF5 signature is located at the
+    beginning of the HDF5 superblock, but the location of HDF5 superblock may
+    not be at the beginning of the file. It is located at byte offset 0, byte
+    offset 512, and at successive locations in the file, each a multiple of two
+    of the previous location; in other words, at these byte offsets: 0, 512,
+    1024, 2048, and so on.
+
+* Bug fixes
+  + Fix more strict aliasing bug when building PnetCDF with -O3 flag. Thanks to
+    Gianfranco Costamagna for reporting
+    [issue #55](https://github.com/Parallel-NetCDF/PnetCDF/issues/55). See
+    [pull request r65](https://github.com/Parallel-NetCDF/PnetCDF/pull/65) for
+    the fix.
+  + Fix NC_CLOBBER mode for ncmpi_create() when files are existing symbolic
+    links. Prior to this release, symbolic links, like other regular files, was
+    first deleted and then created. This can result in an unexpected outcome,
+    i.e. the deletion of symbolic link. NetCDF-4 library implements this
+    differently, by adding O_TRUNC flag when calling open() to truncate the
+    file to length 0. Historically, PnetCDF did not adopt the same approach
+    because MPI does not define a similar flag to O_TRUNC and the only way to
+    achieve the file clobber effect is to through MPI_File_set_size(), which
+    can be expensive as the function takes an MPI file handler argument, which
+    requires to open the file first with a call to MPI_File_open().
+  + Fix various compile and link bugs when NAG Fortran is used. Bugs include
+    flag needed to verbose linking output, unrecognized link option -pthread,
+    unmatched C compiler underneath. Thanks Sergey Kosukhin for providing the
+    fix in [PR #59](https://github.com/Parallel-NetCDF/PnetCDF/pull/59)
+    and [PR #60](https://github.com/Parallel-NetCDF/PnetCDF/pull/60)
+  + Fix a bug of calling Fortran getarg() with the first argument k with a
+    value > 0 when there is no command-line argument is used. NAG Fortran may
+    crash the program. See
+    [f16bd3c](https://github.com/Parallel-NetCDF/PnetCDF/commit/f16bd3c1ba1b08eade2384f094c519f3f2dc114e)
+  + Fix a bug that limits FLASH-IO to run on less than 16K MPI processes. See
+    [1d84fa5](https://github.com/Parallel-NetCDF/PnetCDF/commit/1d84fa5d54ca9179da4a5b1a4ee3b92cc92287ed)
+

Release_notes/1.12.2.md

@@ -21,7 +21,7 @@ <h1>PnetCDF: A Parallel I/O Library for NetCDF File Access</h1>
 
 <h2 id="News">News</h2>
 <ul>
-<li><strong>December 9, 2019</strong>: Release of 1.12.1 is available.</li>
+<li><strong>January 15, 2021</strong>: Release of 1.12.2 is available.</li>
 <li><strong>November 2, 2018</strong>: The official PnetCDF project web pages
 have migrated to github.com from its previous location at <a
 href=https://trac.mcs.anl.gov/projects/parallel-netcdf>

index.html

@@ -33,7 +33,7 @@
 <center> <h2>PnetCDF Source Code Downloads</h2> </center>
 <br>
 
-The latest stable release of <a href="../index.html">PnetCDF</a> is version 1.12.1.
+The latest stable release of <a href="../index.html">PnetCDF</a> is version 1.12.2.
 <p>
 We encourage PnetCDF users to use the latest released version. If for some
 reason you would like to try out older versions, below is a table of (most of)
@@ -47,6 +47,13 @@
    <th>Size</th>
    <th>SHA-1 Checksum</th>
  </tr>
+ <tr>
+   <td align=center>January 15, 2021</td>
+   <td align=center><a href=https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/blob/master/Release_notes/1.12.2.md>1.12.2</a></td>
+   <td><a href="../Release/pnetcdf-1.12.2.tar.gz" onClick="var that=this; ga('send', 'event', 'PnetCDF', 'Source Download (GZ)', 'pnetcdf-1.12.2.tar.gz', 1); ga('pnetcdfTracker.send', 'event', 'PnetCDF', 'Source Download (GZ)', 'pnetcdf-1.12.2.tar.gz', 1); ga('parallelnetcdfTracker.send', 'event', 'PnetCDF', 'Source Download (GZ)', 'pnetcdf-1.12.2.tar.gz', 1); setTimeout(function(){location.href=that.href;},500); return false;">pnetcdf-1.12.2.tar.gz</a></td>
+   <td>2.3 MB</td>
+   <td>3ab82ea878e321f6c0fd9afb44c8707949485d09</td>
+ </tr>
  <tr>
    <td align=center>December 9, 2019</td>
    <td align=center><a href=https://github.com/Parallel-NetCDF/Parallel-NetCDF.github.io/blob/master/Release_notes/1.12.1.md>1.12.1</a></td>