Update main_v11.1-ref after #2634 (#2635)

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)
dtcenter · Jul 31, 2023 · ca66893 · ca66893
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diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md
@@ -30,6 +30,6 @@ See the [METplus Workflow](https://metplus.readthedocs.io/en/latest/Contributors
 Select: **Reviewer(s)**
 Select: **Organization** level software support **Project** or **Repository** level development cycle **Project**
 Select: **Milestone** as the version that will include these changes
-- [ ] After submitting the PR, select **Development** issue with the original issue number.
+- [ ] After submitting the PR, select the :gear: icon in the **Development** section of the right hand sidebar. Search for the issue that this PR will close and select it, if it is not already selected.
 - [ ] After the PR is approved, merge your changes. If permissions do not allow this, request that the reviewer do the merge.
 - [ ] Close the linked issue and delete your feature or bugfix branch from GitHub.
diff --git a/data/config/GridStatConfig_default b/data/config/GridStatConfig_default
@@ -207,6 +207,13 @@ distance_map = {
 
 ////////////////////////////////////////////////////////////////////////////////
 
+//
+// Threshold for SEEPS p1 (Probability of being dry)
+//
+seeps_p1_thresh = >=0.1&&<=0.85;
+
+////////////////////////////////////////////////////////////////////////////////
+
 //
 // Statistical output types
 // May be set separately in each "obs.field" entry
@@ -255,11 +262,6 @@ nc_pairs_flag = {
    apply_mask   = TRUE;
 }
 
-////////////////////////////////////////////////////////////////////////////////
-// Threshold for SEEPS p1 (Probability of being dry)
-
-seeps_p1_thresh = NA;
-
 ////////////////////////////////////////////////////////////////////////////////
 
 grid_weight_flag = NONE;

diff --git a/data/config/PointStatConfig_default b/data/config/PointStatConfig_default
@@ -261,6 +261,13 @@ hira = {
 
 ////////////////////////////////////////////////////////////////////////////////
 
+//
+// Threshold for SEEPS p1 (Probability of being dry)
+//
+seeps_p1_thresh = >=0.1&&<=0.85;
+
+////////////////////////////////////////////////////////////////////////////////
+
 //
 // Statistical output types
 // May be set separately in each "obs.field" entry
@@ -290,10 +297,6 @@ output_flag = {
    seeps_mpr = NONE;
 }
 
-////////////////////////////////////////////////////////////////////////////////
-// Threshold for SEEPS p1 (Probability of being dry)
-
-seeps_p1_thresh = NA;
 ////////////////////////////////////////////////////////////////////////////////
 
 tmp_dir        = "/tmp";

diff --git a/docs/Users_Guide/config_options.rst b/docs/Users_Guide/config_options.rst
@@ -1471,7 +1471,7 @@ all pairs into a single climatological bin.
      direct_prob = FALSE; or TRUE
   }
 
-climato_data
+climate_data
 ^^^^^^^^^^^^
 
 When specifying climatology data for probability forecasts, either supply a
@@ -1499,13 +1499,15 @@ In this way, the number of bins impacts the resolution of the climatological
 probabilities. These derived probability values are used to compute the
 climatological Brier Score and Brier Skill Score.
 
+seeps_p1_thresh
+^^^^^^^^^^^^^^^
 
 The "seeps_p1_thresh" option controls the threshold of p1 (probability of being dry) values.
+The default setting is >=0.1&&<=0.85.
 
 .. code-block:: none
-		
-  seeps_p1_thresh = >=0.1&&<=0.85;
 
+  seeps_p1_thresh = >=0.1&&<=0.85;
 
 mask_missing_flag
 ^^^^^^^^^^^^^^^^^

diff --git a/docs/Users_Guide/release-notes.rst b/docs/Users_Guide/release-notes.rst
@@ -9,105 +9,38 @@ When applicable, release notes are followed by the GitHub issue number which des
 enhancement, or new feature (`MET GitHub issues <https://github.com/dtcenter/MET/issues>`_).
 Important issues are listed **in bold** for emphasis.
 
-MET Version 11.1.0-rc1 release notes (20230616)
------------------------------------------------
+MET Version 11.1.0 release notes (20230731)
+-------------------------------------------
 
   .. dropdown:: Repository, build, and test
 
+     * Add modulefiles for supported systems to the repository (`#2415 <https://github.com/dtcenter/MET/issues/2415>`_).
+     * Add LICENSE.md to the repository (`#2461 <https://github.com/dtcenter/MET/issues/2461>`_).
+     * Update the copyright year to 2023 and increase the version number to 11.1.0 (`#2469 <https://github.com/dtcenter/MET/issues/2469>`_).
      * Enhance compile_MET_all.sh to allow the user to specify the compiler and Python versions to load (`#2485 <https://github.com/dtcenter/MET/issues/2485>`_).
      * Enhance compile_MET_all.sh to include the library/app name in the log filename (`#2540 <https://github.com/dtcenter/MET/issues/2540>`_).
+     * Add free_disk_space.sh script to the MET repository (`#2597 <https://github.com/dtcenter/MET/issues/2597>`_).
 
-  .. dropdown:: Documentation
-
-     * Update the documentation for the HSS and HSS_EC statistics (`#2492 <https://github.com/dtcenter/MET/issues/2492>`_).
-     * Update the documentation for the ens, NEP, and NMEP configuration options (`#2513 <https://github.com/dtcenter/MET/issues/2513>`_).
-
-  .. dropdown:: Enhancements
-
-    .. dropdown:: Common Libraries
-
-       * Add support for the Lambert Azimuthal Equal Area grids (`#1693 <https://github.com/dtcenter/MET/issues/1693>`_).
-       * Update the default ASCII2NC message_type_map configuration option for Little R input data (`#2487 <https://github.com/dtcenter/MET/issues/2487>`_).
-       * Merge older and newer MRMS GRIB2 table files (`#2508 <https://github.com/dtcenter/MET/issues/2508>`_).
-       * SonarQube: Further reduce findings for MET-11.1.0-rc1 (`#2521 <https://github.com/dtcenter/MET/issues/2521>`_).
-
-    .. dropdown:: Application Code
-
-       * **Enhance Gen-Vx-Mask shapefile masking to support multiple shapes and specify shape metadata** (`#1060 <https://github.com/dtcenter/MET/issues/1060>`_).
-       * **Enhance Multivariate MODE to generate object statistics for each input field requested by the user** (`#1283 <https://github.com/dtcenter/MET/issues/1283>`_).
-       * Enhance MODE to bound check interest_function corner points in the range 0 to 1 (`#2545 <https://github.com/dtcenter/MET/issues/2545>`_).
-
-    .. dropdown:: Tropical Cyclone Tools
-
-       * **Create an initial development version of a new TC-Diag tool to support the computation of tropical cyclone diagnostics** (`#2168 <https://github.com/dtcenter/MET/issues/2168>`_).
-       * **Enhance TC-Stat to write the RIRW job CTC/CTS output to a .stat output file** (`#2425 <https://github.com/dtcenter/MET/issues/2425>`_).
-       * **Enhance TC-Pairs to derive the full circle wind radius from the wind radius quadrants** (`#2532 <https://github.com/dtcenter/MET/issues/2532>`_).
-       * Enhance TC-RMW to reorder the dimensions of the NetCDF output to store the gridded dimensions last (`#2523 <https://github.com/dtcenter/MET/issues/2523>`_).
-       * Enhance TC-Gen to parse GTWO shapefile lead times from the data rather than assuming them to be 2, 5, and 7 days (`#2552 <https://github.com/dtcenter/MET/issues/2552>`_).
-
-  .. dropdown:: Bugfixes
-
-     * Bugfix: Fix the Clang compilation of MET version 11 (`#2514 <https://github.com/dtcenter/MET/issues/2514>`_).
-     * Bugfix: Fix the fill value setting used in the write_tmp_dataplane internal Python embedding script (`#2525 <https://github.com/dtcenter/MET/issues/2525>`_).
-     * Bugfix: Fix the TC-Stat RIRW runtime error when computing CTS statistics from an empty contingency table (`#2542 <https://github.com/dtcenter/MET/issues/2542>`_).
-     * Bugfix: Fix logic for Python embedding with data censoring and/or conversion (`#2575 <https://github.com/dtcenter/MET/issues/2575>`_).
-
-MET Version 11.1.0-beta2 release notes (20230505)
--------------------------------------------------
-
-**Note** that the 11.1.0-beta2 release was originally created on 20230423 but was recreated on 20230428 and 20230505 to include critical bugfixes.
-
-  .. dropdown:: Documentation
+  .. dropdown:: Documentation 
 
+     * Enhance the Release Notes by adding dropdown menus (`#2146 <https://github.com/dtcenter/MET/issues/2146>`_).
      * Improve documentation on Python Embedding for point observations (`#2303 <https://github.com/dtcenter/MET/issues/2303>`_).
      * Create dropdown menus for Appendix A (`#2460 <https://github.com/dtcenter/MET/issues/2460>`_).
      * Clarify MET Compile Time Python requirements (`#2490 <https://github.com/dtcenter/MET/issues/2490>`_).
-
-  .. dropdown:: Enhancements
-
-     * Enhance the MET point processing tools to read the Python 'point_data' variable instead of just 'met_point_data' (`#2285 <https://github.com/dtcenter/MET/issues/2285>`_).
-     * SonarQube: Further reduce bugs for MET-11.1.0-beta2 (`#2474 <https://github.com/dtcenter/MET/issues/2474>`_).
-     * SonarQube: Replace all instances of NULL with nullptr (`#2504 <https://github.com/dtcenter/MET/issues/2504>`_).
-     * SonarQube: Remove code that will never be executed (`#2506 <https://github.com/dtcenter/MET/issues/2506>`_).
+     * Update the documentation for the HSS and HSS_EC statistics (`#2492 <https://github.com/dtcenter/MET/issues/2492>`_).
+     * Update the documentation for the ens, NEP, and NMEP configuration options (`#2513 <https://github.com/dtcenter/MET/issues/2513>`_).
+     * Revise TC-Diag documentation for version 11.1.0 (`#2558 <https://github.com/dtcenter/MET/issues/2558>`_).
 
   .. dropdown:: Bugfixes
 
-     * Bugfix: Correct the branch name for the SonarQube scanning nightly (`#2401 <https://github.com/dtcenter/MET/issues/2401>`_).
-     * Bugfix: Fix support for the YYYYMMDD format in NetCDF level timestrings (`#2482 <https://github.com/dtcenter/MET/issues/2482>`_).
-     * Bugfix: AERONET the lat/lon is not changed with different station ID (`#2493 <https://github.com/dtcenter/MET/issues/2493>`_).
-     * Bugfix: dtype in Python embedding example script and appendixF correction (`#2518 <https://github.com/dtcenter/MET/issues/2518>`_).
-     * Bugfix: write_tmp_dataplane uses fill_value unrecognized by MET (`#2525 <https://github.com/dtcenter/MET/issues/2525>`_).
-     * **Bugfix: Resolve compilation problems due to need for \-std=c++11** (`#2531 <https://github.com/dtcenter/MET/issues/2531>`_).
-
-MET Version 11.1.0-beta1 release notes (20230228)
--------------------------------------------------
-
-  .. dropdown:: Repository, build, and test
-
-     * Add modulefiles for supported systems to the repository (`#2415 <https://github.com/dtcenter/MET/issues/2415>`_).
-     * Add LICENSE.md to the repository (`#2461 <https://github.com/dtcenter/MET/issues/2461>`_).
-     * Update the copyright year to 2023 and increase the version number to 11.1.0 (`#2469 <https://github.com/dtcenter/MET/issues/2469>`_).
-
-  .. dropdown:: Documentation 
-
-     * Enhance the Release Notes by adding dropdown menus (`#2146 <https://github.com/dtcenter/MET/issues/2146>`_).
-
-  .. dropdown:: Enhancements 
-
-     * Convert the python list to the numpy array for the python embedding at the base class (`#2386 <https://github.com/dtcenter/MET/issues/2386>`_).
-     * Refine Python runtime environment (`#2388 <https://github.com/dtcenter/MET/issues/2388>`_).
-     * Upgrade to using Python 3.10.4 (`#2421 <https://github.com/dtcenter/MET/issues/2421>`_).
-     * **Enhance TC-Pairs to disable the output of consensus track members** (`#2429 <https://github.com/dtcenter/MET/issues/2429>`_).
-
-  .. dropdown:: Bugfixes 
-
      * Bugfix: Fix the MET CF-Compliant NetCDF library code to Polar Stereographic data from NSIDC Sea Ice Edge NetCDF files (`#2218 <https://github.com/dtcenter/MET/issues/2218>`_).
      * Bugfix: Remove override keyword to avoid C++11 dependency (`#2380 <https://github.com/dtcenter/MET/issues/2380>`_).
      * Bugfix: Fix ASCII2NC to not compute AOD 550 if other inputs are negative values (`#2383 <https://github.com/dtcenter/MET/issues/2383>`_).
      * Bugfix: Fix PB2NC to report accurate total observation counts in log messages (`#2387 <https://github.com/dtcenter/MET/issues/2387>`_).
      * Bugfix: Update the MET flowchart for version 11.0.0 (`#2389 <https://github.com/dtcenter/MET/issues/2389>`_).
      * Bugfix: Fix issues with the met_compile_all.sh script and associated tar files (`#2390 <https://github.com/dtcenter/MET/issues/2390>`_).
      * Bugfix: Correct definitions of NCEP grid numbers 172 and 220 (`#2399 <https://github.com/dtcenter/MET/issues/2399>`_).
+     * Bugfix: Correct the branch name for the SonarQube scanning nightly (`#2401 <https://github.com/dtcenter/MET/issues/2401>`_).
      * Bugfix: Address MET-11.0.0 SonarQube Blocker Bugs (`#2402 <https://github.com/dtcenter/MET/issues/2402>`_).
      * Bugfix: Refine fix for handling empty configuration files (`#2408 <https://github.com/dtcenter/MET/issues/2408>`_).
      * Bugfix: Fix time interpolation of monthly climatology data between December 15 and January 15 (`#2412 <https://github.com/dtcenter/MET/issues/2412>`_).
@@ -116,6 +49,56 @@ MET Version 11.1.0-beta1 release notes (20230228)
      * Bugfix: Refine the regrid dictionary's data conversion and censoring operations and fix climo time matching logic for a single monthly climo file (`#2437 <https://github.com/dtcenter/MET/issues/2437>`_).
      * Bugfix: Fix the creation of the MET User's Guide PDF (`#2449 <https://github.com/dtcenter/MET/issues/2449>`_).
      * Bugfix: Fix inconsistent ASCII2NC AIRNOW location lookup logic (`#2452 <https://github.com/dtcenter/MET/issues/2452>`_).
+     * Bugfix: Fix support for the YYYYMMDD format in NetCDF level timestrings (`#2482 <https://github.com/dtcenter/MET/issues/2482>`_).
+     * Bugfix: AERONET the lat/lon is not changed with different station ID (`#2493 <https://github.com/dtcenter/MET/issues/2493>`_).
+     * Bugfix: Fix the Clang compilation of MET version 11 (`#2514 <https://github.com/dtcenter/MET/issues/2514>`_).
+     * Bugfix: dtype in Python embedding example script and appendixF correction (`#2518 <https://github.com/dtcenter/MET/issues/2518>`_).
+     * Bugfix: Fix the fill value setting used in the write_tmp_dataplane internal Python embedding script (`#2525 <https://github.com/dtcenter/MET/issues/2525>`_).
+     * **Bugfix: Resolve compilation problems due to need for \-std=c++11** (`#2531 <https://github.com/dtcenter/MET/issues/2531>`_).
+     * Bugfix: Fix the TC-Stat RIRW runtime error when computing CTS statistics from an empty contingency table (`#2542 <https://github.com/dtcenter/MET/issues/2542>`_).\
+     * Bugfix: Refine support for LAEA grids via NetCDF and GRIB2 files (`#2565 <https://github.com/dtcenter/MET/issues/2565>`_).
+     * Bugfix: Fix logic for Python embedding with data censoring and/or conversion (`#2575 <https://github.com/dtcenter/MET/issues/2575>`_).
+     * Bugfix: Fix reading of upside-down CF-compliant NetCDF Rotated Lat/Lon data (`#2578 <https://github.com/dtcenter/MET/issues/2578>`_).
+     * Bugfix: Unknown ld Flag on Macos causes MET compilation to fail (`#2596 <https://github.com/dtcenter/MET/issues/2596>`_).
+     * Bugfix: Problem compiling MET on MacOS using GCC 12.3.0 (`#2615 <https://github.com/dtcenter/MET/issues/2615>`_).
+
+  .. dropdown:: Enhancements 
+
+    .. dropdown:: SonarQube
+
+       * SonarQube: Further reduce bugs for MET-11.1.0-beta2 (`#2474 <https://github.com/dtcenter/MET/issues/2474>`_).
+       * SonarQube: Replace all instances of NULL with nullptr (`#2504 <https://github.com/dtcenter/MET/issues/2504>`_).
+       * SonarQube: Remove code that will never be executed (`#2506 <https://github.com/dtcenter/MET/issues/2506>`_).
+       * SonarQube: Further reduce findings for MET-11.1.0-rc1 (`#2521 <https://github.com/dtcenter/MET/issues/2521>`_).
+
+    .. dropdown:: Python Embedding
+
+       * Convert the python list to the numpy array for the python embedding at the base class (`#2386 <https://github.com/dtcenter/MET/issues/2386>`_).
+       * Refine Python runtime environment (`#2388 <https://github.com/dtcenter/MET/issues/2388>`_).
+       * **Upgrade to using Python 3.10.4** (`#2421 <https://github.com/dtcenter/MET/issues/2421>`_).
+       * **Enhance the MET point processing tools to read the Python 'point_data' variable instead of just 'met_point_data'** (`#2285 <https://github.com/dtcenter/MET/issues/2285>`_).
+
+    .. dropdown:: Common Libraries
+
+       * **Add support for the Lambert Azimuthal Equal Area grids** (`#1693 <https://github.com/dtcenter/MET/issues/1693>`_).
+       * Update the default ASCII2NC message_type_map configuration option for Little R input data (`#2487 <https://github.com/dtcenter/MET/issues/2487>`_).
+       * Merge older and newer MRMS GRIB2 table files (`#2508 <https://github.com/dtcenter/MET/issues/2508>`_).
+
+    .. dropdown:: Application Code
+
+       * **Enhance Gen-Vx-Mask shapefile masking to support multiple shapes and specify shape metadata** (`#1060 <https://github.com/dtcenter/MET/issues/1060>`_).
+       * **Enhance Multivariate MODE to generate object statistics for each input field requested by the user** (`#1283 <https://github.com/dtcenter/MET/issues/1283>`_).
+       * Update NDBC locations prior to the MET-11.1.0 release (`#2511 <https://github.com/dtcenter/MET/issues/2511>`_).
+       * Enhance MODE to bound check interest_function corner points in the range 0 to 1 (`#2545 <https://github.com/dtcenter/MET/issues/2545>`_).
+
+    .. dropdown:: Tropical Cyclone Tools
+
+       * **Create an initial development version of a new TC-Diag tool to support the computation of tropical cyclone diagnostics** (`#2168 <https://github.com/dtcenter/MET/issues/2168>`_).
+       * **Enhance TC-Stat to write the RIRW job CTC/CTS output to a .stat output file** (`#2425 <https://github.com/dtcenter/MET/issues/2425>`_).
+       * **Enhance TC-Pairs to disable the output of consensus track members** (`#2429 <https://github.com/dtcenter/MET/issues/2429>`_).
+       * Enhance TC-RMW to reorder the dimensions of the NetCDF output to store the gridded dimensions last (`#2523 <https://github.com/dtcenter/MET/issues/2523>`_).
+       * **Enhance TC-Pairs to derive the full circle wind radius from the wind radius quadrants** (`#2532 <https://github.com/dtcenter/MET/issues/2532>`_).
+       * Enhance TC-Gen to parse GTWO shapefile lead times from the data rather than assuming them to be 2, 5, and 7 days (`#2552 <https://github.com/dtcenter/MET/issues/2552>`_).
 
 MET Version 11.0.0 release notes (20221209)
 -------------------------------------------
@@ -256,6 +239,14 @@ MET Version 11.1.0 upgrade instructions
 
 * If running TC-Pairs to generate consensus tracks, update your TC-Pairs configuration file to include the new **write_members** option (`#2429 <https://github.com/dtcenter/MET/issues/2429>`_).
 
+* If using Python embedding for point observations, and the following lines of code are in your Python script please remove them and refactor your Python script following the instructions in the `User's Guide for Python embedding for point observations <https://met.readthedocs.io/en/main_v11.1/Users_Guide/appendixF.html#python-script-requirements-for-point-observations>`_:
+
+  .. code-block:: Python
+
+    from met_point_obs import convert_point_data
+    ...
+    met_point_data = convert_point_data(point_data)
+
 MET Version 11.0.0 upgrade instructions
 ---------------------------------------