Merge branch 'azamat/homme/fix-io-init' (PR #1684)

Initialize HOMME netcdf file open var:
netcdf_io_mod::nf_open_file routine does not initialize ncFileID,
which is used by other routines to drive MPI calls. All IO tasks
should have a non-negative value for ncFileID (e.g. masterproc
has ncFileID=0) to avoid hangs.
This PR sets it to 0 for all tasks that call nf_open_file.

Also, this PR updates Mira/Cetus machine config:
* link to correct HDF5 and Zlib libraries
* use pre-installed cprnc, instead of building a new one
* suppress nested-omp compiler warnings.

[BFB]
Fixes #1683

config/acme/machines/config_compilers.xml

@@ -109,10 +109,10 @@ for mct, etc.
   <FC_AUTO_R8> -qrealsize=8 </FC_AUTO_R8>
   <ADD_FFLAGS DEBUG="FALSE"> -O2 -qstrict -Q </ADD_FFLAGS>
   <ADD_CFLAGS DEBUG="FALSE"> -O3  </ADD_CFLAGS>
-  <ADD_FFLAGS DEBUG="FALSE" compile_threaded="true"> -qsmp=omp:nested_par </ADD_FFLAGS>
-  <ADD_CFLAGS DEBUG="FALSE" compile_threaded="true"> -qsmp=omp:nested_par </ADD_CFLAGS>
-  <ADD_FFLAGS DEBUG="TRUE"  compile_threaded="true"> -qsmp=omp:nested_par:noopt </ADD_FFLAGS>
-  <ADD_CFLAGS DEBUG="TRUE"  compile_threaded="true"> -qsmp=omp:nested_par:noopt </ADD_CFLAGS>
+  <ADD_FFLAGS DEBUG="FALSE" compile_threaded="true"> -qsmp=omp:nested_par -qsuppress=1520-045 </ADD_FFLAGS>
+  <ADD_CFLAGS DEBUG="FALSE" compile_threaded="true"> -qsmp=omp:nested_par -qsuppress=1520-045 </ADD_CFLAGS>
+  <ADD_FFLAGS DEBUG="TRUE"  compile_threaded="true"> -qsmp=omp:nested_par:noopt -qsuppress=1520-045 </ADD_FFLAGS>
+  <ADD_CFLAGS DEBUG="TRUE"  compile_threaded="true"> -qsmp=omp:nested_par:noopt -qsuppress=1520-045 </ADD_CFLAGS>
   <ADD_FFLAGS DEBUG="TRUE"> -qinitauto=7FF7FFFF -qflttrap=ov:zero:inv:en </ADD_FFLAGS>
   <ADD_FFLAGS DEBUG="TRUE" MODEL="pop"> -C </ADD_FFLAGS>
   <HAS_F2008_CONTIGUOUS>TRUE</HAS_F2008_CONTIGUOUS>