Update main_v11.1-ref after #2653 (#2656)

Co-authored-by: John Halley Gotway <johnhg@ucar.edu> Co-authored-by: Seth Linden <linden@seneca.rap.ucar.edu> Co-authored-by: jprestop <jpresto@ucar.edu> Co-authored-by: Daniel Adriaansen <dadriaan@ucar.edu> Co-authored-by: John and Cindy <halleygotway@Halleys-Mac-mini.local> Co-authored-by: Howard Soh <hsoh@seneca.rap.ucar.edu> Co-authored-by: George McCabe <23407799+georgemccabe@users.noreply.github.com> Co-authored-by: hsoh-u <hsoh@ucar.edu> Co-authored-by: MET Tools Test Account <met_test@seneca.rap.ucar.edu> Co-authored-by: Seth Linden <linden@ucar.edu> Co-authored-by: lisagoodrich <33230218+lisagoodrich@users.noreply.github.com> Co-authored-by: davidalbo <dave@ucar.edu> Co-authored-by: Lisa Goodrich <lisag@ucar.edu> Co-authored-by: metplus-bot <97135045+metplus-bot@users.noreply.github.com> Co-authored-by: j-opatz <59586397+j-opatz@users.noreply.github.com> Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Jonathan Vigh <jvigh@ucar.edu> Co-authored-by: David Albo <dave@ucar.edu> Co-authored-by: Tracy Hertneky <39317287+hertneky@users.noreply.github.com> Co-authored-by: Dan Adriaansen <dadriaan@ucar.edu> Fix Python environment issue (#2407) fix definitions of G172 and G220 based on comments in NOAA-EMC/NCEPLIBS-w3emc#157. (#2406) fix #2380 develop override (#2382) fix #2408 develop empty config (#2410) fix #2390 develop compile zlib (#2404) fix #2412 develop climo (#2422) fix #2437 develop convert (#2439) fix for develop, for #2437, forgot one reference to the search_parent for a dictionary lookup. fix #2452 develop airnow (#2454) fix #2449 develop pdf (#2464) fix #2402 develop sonarqube (#2468) fix #2426 develop buoy (#2475) fix 2518 dtypes appf docs (#2519) fix 2531 compilation errors (#2533) fix #2531 compilation_errors_configure (#2535) fix 2596 main v11.1 rpath compilation (#2614) fix #2514 main_v11.1 clang (#2628) fix #2644 main_v11.1 percentile (#2646)
dtcenter · Aug 21, 2023 · adfe398 · adfe398
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diff --git a/.github/workflows/testing.yml b/.github/workflows/testing.yml
@@ -114,13 +114,13 @@ jobs:
     needs: [job_control]
     if: ${{ needs.job_control.outputs.run_unit_tests == 'true' }}
     steps:
-      - uses: dtcenter/metplus-action-data-update@v2
+      - uses: dtcenter/metplus-action-data-update@v3
         with:
           docker_name: ${{ secrets.DOCKER_USERNAME }}
           docker_pass: ${{ secrets.DOCKER_PASSWORD }}
           repo_name: ${{ github.repository }}
           data_prefix: unit_test
-          branch_name: ${{ needs.job_control.outputs.branch_name }}
+          branch_name: ${{ needs.job_control.outputs.truth_data_version }}
           docker_data_dir: /data/input/MET_test_data
           data_repo_dev: met-data-dev
 

diff --git a/docs/Users_Guide/appendixB.rst b/docs/Users_Guide/appendixB.rst
@@ -136,8 +136,6 @@ The NCEP verification regions that are implemented in MET as lat/lon polylines a
 
 * NAK.poly for Northern Alaska
 
-* NAO.poly for Northern Atlantic Ocean
-
 * NEC.poly for the Northern East Coast
 
 * NMT.poly for the Northern Mountain Region
@@ -162,8 +160,6 @@ The NCEP verification regions that are implemented in MET as lat/lon polylines a
 
 * SPL.poly for the Southern Plains
 
-* SPO.poly for the Southern Pacific Ocean
-
 * SWC.poly for the Southern West Coast
 
 * SWD.poly for the Southwest Desert

diff --git a/internal/scripts/installation/config/install_met_env.wcoss2_py3.10 b/internal/scripts/installation/config/install_met_env.wcoss2_py3.10
@@ -2,7 +2,7 @@ module reset
 module use /apps/ops/para/libs/modulefiles/compiler/intel/19.1.3.304
 export HPC_OPT=/apps/ops/para/libs
 module use /apps/dev/modulefiles/
-module load ve/evs/1.0
+module load ve/evs/2.0
 module load netcdf/4.7.4
 module load hdf5/1.10.6
 module load bufr/11.6.0
@@ -12,13 +12,13 @@ module load libpng/1.6.37
 module load gsl/2.7
 module load g2c/1.6.4
 
-#export TEST_BASE=/apps/ops/para/libs/intel/19.1.3.304/met/11.1.0-rc1
+#export TEST_BASE=/apps/ops/para/libs/intel/19.1.3.304/met/11.1.0
 export TEST_BASE=$(pwd)
 export LIB_DIR=${TEST_BASE}/external_libs
 export BIN_DIR_PATH=${TEST_BASE}/bin
 export COMPILER=intel_19.1.3.304
 export MET_SUBDIR=${TEST_BASE}
-export MET_TARBALL=v11.1.0-rc1.tar.gz
+export MET_TARBALL=v11.1.0.tar.gz
 export USE_MODULES=TRUE
 export ADDTL_DIR=/apps/spack/gettext/0.21/intel/19.1.3.304/at2kdo4edvuhyzrt5g6zhwrdb7bdui4s/lib64
 export PYTHON_MODULE=python_3.10.4

diff --git a/internal/test_unit/xml/unit_plot_data_plane.xml b/internal/test_unit/xml/unit_plot_data_plane.xml
@@ -564,4 +564,18 @@
     </output>
   </test>
 
+  <test name="plot_data_plane_NCCF_not_standard_vertical_levels">
+    <exec>&MET_BIN;/plot_data_plane</exec>
+    <param> \
+      &DATA_DIR_MODEL;/nccf/percentile_extract_20230729T1200Z-B20230725T0030Z-visibility_at_screen_level.nc \
+      &OUTPUT_DIR;/plot_data_plane/visibility_in_air_by_percentile.ps \
+      'name="visibility_in_air"; level="(6,*,*)";' \
+      -title "Visibility in air" \
+      -v 1
+    </param>
+    <output>
+      <ps>&OUTPUT_DIR;/plot_data_plane/visibility_in_air_by_percentile.ps</ps>
+    </output>
+  </test>
+
 </met_test>
diff --git a/src/basic/vx_math/ptile.cc b/src/basic/vx_math/ptile.cc
@@ -23,6 +23,7 @@ using namespace std;
 #include "is_bad_data.h"
 
 #include "nint.h"
+#include "vx_log.h"
 
 
 ///////////////////////////////////////////////////////////////////////////////
@@ -63,10 +64,31 @@ int index;
 double delta; 
 double p = bad_data_double;
 
+// Range check
+if ( t < 0.0 || t > 1.0 ) {
+
+   mlog << Error << "\npercentile() -> "
+        << "requested percentile value (" << t
+        << ") must be between 0 and 1!\n\n";
+
+   exit ( 1 );
+
+}
+
 if ( n > 0 ) {
+
    index = nint(floor((n - 1)*t));
-   delta = (n-1)*t - index;
-   p = (1 - delta)*ordered_array[index] + delta*ordered_array[index+1];
+
+   // Use the last value
+   if ( index == (n - 1) ) {
+      p = ordered_array[index];
+   }
+   // Interpolate linearly between two values
+   else if ( index >= 0 && index < (n - 1) ) {
+      delta = (n - 1)*t - index;
+      p = (1 - delta)*ordered_array[index] + delta*ordered_array[index + 1];
+   }
+
 }
 
 return ( p );
@@ -101,13 +123,30 @@ int index;
 float delta; 
 float p = bad_data_float;
 
+// Range check
+if ( t < 0.0 || t > 1.0 ) {
+
+   mlog << Error << "\npercentile_f() -> "
+        << "requested percentile value (" << t
+        << ") must be between 0 and 1!\n\n";
+
+   exit ( 1 );
+
+}
+
 if ( n > 0 ) {
 
    index = nint(floor((n - 1)*t));
 
-   delta = (n - 1)*t - index;
-
-   p = (1 - delta)*(ordered_array[index]) + delta*(ordered_array[index + 1]);
+   // Use the last value
+   if ( index == (n - 1) ) {
+      p = ordered_array[index];
+   }
+   // Interpolate linearly between two values
+   else if ( index >= 0 && index < (n - 1) ) {
+      delta = (n - 1)*t - index;
+      p = (1 - delta)*ordered_array[index] + delta*ordered_array[index + 1];
+   }
 
 }
 

diff --git a/src/libcode/vx_data2d_nccf/data2d_nccf.cc b/src/libcode/vx_data2d_nccf/data2d_nccf.cc
@@ -227,15 +227,19 @@ bool MetNcCFDataFile::data_plane(VarInfo &vinfo, DataPlane &plane)
       }
       else {
         long z_cnt = (long)_file->vlevels.n();
-        if (z_cnt > 0) {
-
-          zdim_slot = idx;
+        // Checks if the data veriable has a vertical dimension
+        if (0 <= data_var->z_slot) {
           org_z_offset = dim_offset;
           long z_offset = dim_offset;
           string z_dim_name;
+
+          zdim_slot = idx;
           if (0 <= data_var->z_slot) {
              NcDim z_dim = get_nc_dim(data_var->var, data_var->z_slot);
-             if (IS_VALID_NC(z_dim)) z_dim_name = GET_NC_NAME(z_dim);
+             if (IS_VALID_NC(z_dim)) {
+                z_dim_name = GET_NC_NAME(z_dim);
+                z_cnt = get_dim_size(&z_dim);   // override the virtical level count
+             }
           }
           if (!is_offset[idx]) {
             // convert the value to index for slicing
@@ -663,12 +667,11 @@ long MetNcCFDataFile::convert_value_to_offset(double z_value, string z_dim_name)
       }
    }
 
-   if (!found && 0 < z_dim_name.length()) {
-      NcVarInfo *var_info = find_var_info_by_dim_name(_file->Var, z_dim_name, _file->Nvars);
-      if (var_info) {
-         long new_offset = get_index_at_nc_data(var_info->var, z_value, z_dim_name);
-         if (new_offset != bad_data_int) z_offset = new_offset;
-      }
+   // Overrides if the variable specific vertical dimension exists
+   NcVarInfo *var_info = find_var_info_by_dim_name(_file->Var, z_dim_name, _file->Nvars);
+   if (var_info) {
+      long new_offset = get_index_at_nc_data(var_info->var, z_value, z_dim_name);
+      z_offset = new_offset;
    }
 
    return z_offset;

diff --git a/src/libcode/vx_data2d_nccf/nccf_file.cc b/src/libcode/vx_data2d_nccf/nccf_file.cc
@@ -257,9 +257,9 @@ bool NcCfFile::open(const char * filepath)
       else if( "latitude" == att_value ) _latVar = Var[j].var;
       else if( "longitude" == att_value ) _lonVar = Var[j].var;
       else if( ("air_pressure" == att_value || "height" == att_value)
-               && (0 == z_var) ) z_var = Var[j].var;
+               && (nullptr==z_var && 1==get_dim_count(Var[j].var))) z_var = Var[j].var;
     }
-    if ( Var[j].name == "time" && (valid_time_var == 0)) {
+    if ( Var[j].name == "time" && (valid_time_var == nullptr)) {
       valid_time_var = Var[j].var;
       _time_var_info = &Var[j];
     }
@@ -490,6 +490,13 @@ bool NcCfFile::open(const char * filepath)
     if (info) z_var = info->var;
   }
 
+  mlog << Debug(5) << method_name << "coordinate variables:"
+       << " x=" << (IS_VALID_NC_P(_xCoordVar) ? GET_NC_NAME_P(_xCoordVar) : "N/A")
+       << ", y=" << (IS_VALID_NC_P(_yCoordVar) ? GET_NC_NAME_P(_yCoordVar) : "N/A")
+       << ", z=" << (IS_VALID_NC_P(z_var) ? GET_NC_NAME_P(z_var) : "N/A")
+       << ", t=" << (IS_VALID_NC_P(valid_time_var) ? GET_NC_NAME_P(valid_time_var) : "N/A")
+       << "\n";
+
   // Pull out the vertical levels
   if (IS_VALID_NC_P(z_var)) {
 

diff --git a/src/libcode/vx_grid/.find_grid_by_name.h.swp b/src/libcode/vx_grid/.find_grid_by_name.h.swp