From 16718e8b3b05ceb3bdca6a18ad23a42c1586606f Mon Sep 17 00:00:00 2001
From: stemiglio <stefano.migliorini@metoffice.gov.uk>
Date: Fri, 7 Feb 2025 16:18:50 +0000
Subject: [PATCH] add MTG-IRS ctests

---
 test/testinput/cx_globalnamelist_mtgirs.nc4   | Bin 0 -> 16441 bytes
 .../cxwriter_globalnamelist_mtgirs.yaml       |  58 +++++++++++++++
 .../varobs_globalnamelist_mtgirs.nc4          | Bin 0 -> 20585 bytes
 .../varobswriter_globalnamelist_mtgirs.yaml   |  68 ++++++++++++++++++
 4 files changed, 126 insertions(+)
 create mode 100644 test/testinput/cx_globalnamelist_mtgirs.nc4
 create mode 100644 test/testinput/cxwriter_globalnamelist_mtgirs.yaml
 create mode 100644 test/testinput/varobs_globalnamelist_mtgirs.nc4
 create mode 100644 test/testinput/varobswriter_globalnamelist_mtgirs.yaml

diff --git a/test/testinput/cx_globalnamelist_mtgirs.nc4 b/test/testinput/cx_globalnamelist_mtgirs.nc4
new file mode 100644
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diff --git a/test/testinput/cxwriter_globalnamelist_mtgirs.yaml b/test/testinput/cxwriter_globalnamelist_mtgirs.yaml
new file mode 100644
index 00000000..b45be73c
--- /dev/null
+++ b/test/testinput/cxwriter_globalnamelist_mtgirs.yaml
@@ -0,0 +1,58 @@
+time window:
+  begin: 2018-01-01T00:00:00Z
+  end: 2018-01-01T01:00:00Z
+
+observations:
+  - obs space:
+      name: MTGIRS
+      obsdatain:
+        engine:
+          type: H5File
+          obsfile: Data/varobs_globalnamelist_mtgirs.nc4
+      observed variables: [radiance]
+      simulated variables: [brightnessTemperature]
+      derived variables: [brightnessTemperature]
+      channels: &all_channels 1, 3
+    geovals:
+      filename: Data/cx_globalnamelist_mtgirs.nc4
+    obs filters:
+    # Set the flag of observations with missing values to "pass": we want to check if these
+    # values are encoded correctly in the VarObsFile.
+    - filter: Reset Flags to Pass
+      flags_to_reset: [10, 15]  # missing, Hfailed
+    ### Assign nominal error (ensure not missing values) ###
+    - filter: Perform Action
+      filter variables:
+      - name: brightnessTemperature
+        channels: *all_channels
+      action:
+        name: assign error
+        error parameter: 10.0
+    - filter: BlackList
+      filter variables:
+      - name: brightnessTemperature
+        channels: *all_channels
+      where:
+      - variable:
+          name: MetaData/latitude #ensures ob2 is failed
+        value: is_not_valid
+    - filter: Cx Writer
+      variables_for_quality_control:
+      - name: brightnessTemperature
+        channels: *all_channels
+      namelist_directory: ../etc/global/cx
+      reject_obs_with_all_variables_failing_qc: true
+      general_mode: debug
+      IC_PLevels: 5
+    - filter: Cx Checker
+      expected_surface_variables: ["1","2","3","4","5","6","13","16","17"]
+      expected_upper_air_variables: ["1","5","11","29","30","31","34","35"]
+      expected_main_table_columns:
+      - # batch 1 - 9 1dvalues first ; then 2d values in expected order
+        # observation 3 is rejected by the tests above hence only 3 (1,2,4) columns
+        - ["27.10","37.10","67.10","77.10","47.10","57.10","7.10","87.10","17.10","1.10","1.20","1.30","11.10","11.20","11.30","41.10","41.20","41.30","21.10","21.20","21.30","31.10","31.20","31.30","51.10","51.20","51.30","71.10","71.20","71.30","61.10","61.20","61.30"]  # column 1 - 1st observation
+        - ["27.30","37.30","67.30","77.30","47.30","57.30","7.30","87.30","17.30","3.10","3.20","3.30","13.10","13.20","13.30","43.10","43.20","43.30","23.10","23.20","23.30","33.10","33.20","33.30","53.10","53.20","53.30","73.10","73.20","73.30","63.10","63.20","63.30"]  # column 3 - 3rd observation
+        - ["27.40","37.40","67.40","77.40","47.40","57.40","7.40","87.40","17.40","4.10","4.20","4.30","14.10","14.20","14.30","44.10","44.20","44.30","24.10","24.20","24.30","34.10","34.20","34.30","54.10","54.20","54.30","74.10","74.20","74.30","64.10","64.20","64.30"] # column 4 - 4th observation
+    HofX: ObsValue # just a placeholder -- not used, but needed to force calls to postFilter.
+    benchmarkFlag: 1000 # just to keep the ObsFilters test happy
+    flaggedBenchmark: 0
diff --git a/test/testinput/varobs_globalnamelist_mtgirs.nc4 b/test/testinput/varobs_globalnamelist_mtgirs.nc4
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HcmV?d00001

diff --git a/test/testinput/varobswriter_globalnamelist_mtgirs.yaml b/test/testinput/varobswriter_globalnamelist_mtgirs.yaml
new file mode 100644
index 00000000..66dec7e5
--- /dev/null
+++ b/test/testinput/varobswriter_globalnamelist_mtgirs.yaml
@@ -0,0 +1,68 @@
+time window:
+  begin: 1999-01-01T00:00:00Z
+  end: 2032-01-01T02:00:00Z
+
+observations:
+  - obs space:
+      name: MTGIRS
+      obsdatain:
+        engine:
+          type: H5File
+          obsfile: Data/varobs_globalnamelist_mtgirs.nc4
+      observed variables: [radiance]
+      simulated variables: [brightnessTemperature]
+      derived variables: [brightnessTemperature]
+      channels: &all_channels 1, 3
+    obs filters:
+    # Set the flag of observations with missing values to "pass": we want to check if these
+    # values are encoded correctly in the VarObsFile.
+    - filter: Reset Flags to Pass
+      flags_to_reset: [10, 15]  # missing, Hfailed
+    ### Assign nominal error (ensure not missing values) ###
+    - filter: Perform Action
+      filter variables:
+      - name: brightnessTemperature
+        channels: *all_channels
+      action:
+        name: assign error
+        error parameter: 10.0
+    - filter: BlackList
+      filter variables:
+      - name: brightnessTemperature
+        channels: *all_channels
+      where:
+      - variable:
+          name: MetaData/latitude #ensures ob2 is failed
+        value: is_not_valid
+    - filter: VarObs Writer
+      namelist_directory: ../etc/global/varobs
+      variables_for_quality_control:
+      - name: brightnessTemperature
+        channels: *all_channels
+      reject_obs_with_all_variables_failing_qc: true
+      general_mode: verbose
+      output_varbc_predictors: true
+      size_of_varobs_array: 4
+      fill_obstype_from_ops_subtype: true
+    - filter: VarObs Checker
+      expected_main_table_columns:
+        # Only channels 1 and 3 are simulated and hence written to the VarObs file.
+        # In the arrays below, rows denote locations and columns are the varobs channels are consecutive.
+        field:    ["10","10","10","10","11","18","19","21","28","31","35","36","54","55","55","57","57","57","57","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80",
+                   "10","10","10","10","11","18","19","21","28","31","35","36","54","55","55","57","57","57","57","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80",
+                   "10","10","10","10","11","18","19","21","28","31","35","36","54","55","55","57","57","57","57","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80","80"]
+        level:    ["1","2","3","4","1","1","1","1","1","1","1","1","1","1","2","1","2","3","4","1","2","3","4","5","6","7","8","9","10","11","12","13","14","15","16","17","18","19","20","21","22","23","24","25","26","27","28","29","30","31",
+                   "1","2","3","4","1","1","1","1","1","1","1","1","1","1","2","1","2","3","4","1","2","3","4","5","6","7","8","9","10","11","12","13","14","15","16","17","18","19","20","21","22","23","24","25","26","27","28","29","30","31",
+                   "1","2","3","4","1","1","1","1","1","1","1","1","1","1","2","1","2","3","4","1","2","3","4","5","6","7","8","9","10","11","12","13","14","15","16","17","18","19","20","21","22","23","24","25","26","27","28","29","30","31"]
+        ob value: ["41.10000","41.30000","-1073741824.00000","-1073741824.00000","27.10000","77.10000","37.10000","3.00000","13.00000","47.10000","57.10000","67.10000","2.00000","1.00000","2.00000","31.10000","31.30000","-1073741824.00000","-1073741824.00000","0.00000","112.20000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000",
+                   "43.10000","43.30000","-1073741824.00000","-1073741824.00000","27.30000","77.30000","37.30000","7.00000","17.00000","47.30000","57.30000","67.30000","2.00000","1.00000","2.00000","33.10000","33.30000","-1073741824.00000","-1073741824.00000","0.00000","116.20000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000",
+                   "44.10000","44.30000","-1073741824.00000","-1073741824.00000","27.40000","77.40000","37.40000","9.00000","19.00000","47.40000","57.40000","67.40000","2.00000","1.00000","2.00000","34.10000","34.30000","-1073741824.00000","-1073741824.00000","0.00000","118.20000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000","0.00000"]
+        lat:      ["7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000","7.10000",
+                   "7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000","7.30000",
+                   "7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000","7.40000"]
+        lon:      ["17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000","17.10000",
+                   "17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000","17.30000",
+                   "17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000","17.40000"]
+    HofX: ObsValue
+    benchmarkFlag: 1000
+    flaggedBenchmark: 0