Merge pull request #738 from aodn/fix_imos_compliance_bug

Fix imos compliance bug, fixes #737
aodn · Apr 26, 2021 · 3cfa2a6 · 3cfa2a6
2 parents adad9a6 + ec119b5
commit 3cfa2a6
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Showing 4 changed files with 71 additions and 29 deletions.
diff --git a/Preprocessing/adcpBinMappingPP.m b/Preprocessing/adcpBinMappingPP.m
@@ -212,11 +212,9 @@
     %remove DIST_ALONG_BEAMS dimension, if dangling.
     detect_dab = @(x)(isinside(x, distAlongBeamsIdx));
     dab_vars = cellfun(detect_dab, IMOS.get(sample_data{k}.variables, 'dimensions'));
-    keep_dab_dim = ~any(dab_vars);
+    remove_dab_dim = ~any(dab_vars);
 
-    if keep_dab_dim
-        continue
-    else
+    if remove_dab_dim
         old_hdim_index = IMOS.find(sample_data{k}.dimensions,'HEIGHT_ABOVE_SENSOR');
         sample_data{k}.dimensions(distAlongBeamsIdx) = []; %pop
         %now fix inconsistency created by the above removal.

diff --git a/imosToolbox_Linux64.bin b/imosToolbox_Linux64.bin
diff --git a/imosToolbox_Win64.exe b/imosToolbox_Win64.exe
diff --git a/test/Preprocessing/testadcpBinMappingPP.m b/test/Preprocessing/testadcpBinMappingPP.m
@@ -1,40 +1,84 @@
 classdef testadcpBinMappingPP < matlab.unittest.TestCase
 
     % Test adcpBinMappingPP refactored code.
-	%
-	% The largest code change
+    %
+    % The largest code change
     %
     % by [email protected]
     %
     properties (TestParameter)
         rdi_file = {[toolboxRootPath 'data/testfiles/Teledyne/workhorse/v000/beam/1759001.000.reduced'], };
+        enu_file = {[toolboxRootPath 'data/testfiles/Teledyne/workhorse/v000/enu/16072000.000'], };
+
     end
 
     methods (Test)
 
-		function test_mapping_RDI_beam_velocity(test)
-			s = workhorseParse(test.rdi_file,'');
-			bs = adcpBinMappingPP({s},'');
-			bs = bs{1};
-
-			bin_mapping_string = 'has been vertically bin-mapped to HEIGHT_ABOVE_SENSOR using tilt information';
-			dim_removed_string = 'DIST_ALONG_BEAMS is not used by any variable left and has been removed';
-
-			assert(isfield(bs,'history'))
-			assert(contains(bs.history,bin_mapping_string))
-			assert(contains(bs.history,dim_removed_string))
-
-			vars_to_check = {'VEL1','VEL2','VEL3','VEL4'};
-			mapped = IMOS.as_named_struct(bs.variables);
-			raw = IMOS.as_named_struct(s.variables);
-			for k=1:length(vars_to_check)
-				vname = vars_to_check{k};
-				assert(isfield(mapped.(vname),'comment'))
-				assert(contains(mapped.(vname).comment,bin_mapping_string));
-				[~,~,p] = isequal_tol(raw.(vname).data,mapped.(vname).data);
-				assert(p<0.1,'Data similiary larger than 10% - Data is possible not beam mapped')
-			end
-		end
+        function test_dont_remove_dist_along_beams_when_perg_and_data_is_enu(test)
+            s = workhorseParse(test.enu_file, '');
+            bs = adcpBinMappingPP({s}, '');
+            bs = bs{1};
+            dims = IMOS.as_named_struct(bs.dimensions);
+            vars = IMOS.as_named_struct(bs.variables);
+            assert(isfield(dims, 'DIST_ALONG_BEAMS'))
+            assert(isfield(dims, 'HEIGHT_ABOVE_SENSOR'))
+            expected_coords = 'TIME LATITUDE LONGITUDE DIST_ALONG_BEAMS';
+
+            for k = 1:4
+                varname = ['PERG' num2str(k)];
+                assert(isfield(vars, varname))
+                assert(strcmpi(expected_coords, vars.(varname).coordinates))
+            end
+
+        end
+
+        function test_mapping_RDI_beam_velocity(test)
+            s = workhorseParse(test.rdi_file, '');
+            bs = adcpBinMappingPP({s}, '');
+            bs = bs{1};
+
+            bin_mapping_string = 'has been vertically bin-mapped to HEIGHT_ABOVE_SENSOR using tilt information';
+            dim_removed_string = 'DIST_ALONG_BEAMS is not used by any variable left and has been removed';
+
+            assert(isfield(bs, 'history'))
+            assert(contains(bs.history, bin_mapping_string))
+            assert(~contains(bs.history, dim_removed_string))
+
+            vars_to_check = {'VEL1', 'VEL2', 'VEL3', 'VEL4'};
+            mapped = IMOS.as_named_struct(bs.variables);
+            raw = IMOS.as_named_struct(s.variables);
+
+            for k = 1:length(vars_to_check)
+                vname = vars_to_check{k};
+                assert(isfield(mapped.(vname), 'comment'))
+                assert(contains(mapped.(vname).comment, bin_mapping_string));
+                [~, ~, p] = isequal_tol(raw.(vname).data, mapped.(vname).data);
+                assert(p < 0.1, 'Data similiary larger than 10% - Data is possible not beam mapped')
+            end
+
+        end
+
+        function test_removal_of_dangling_dist_along_beams_dims(test)
+            s = workhorseParse(test.rdi_file, '');
+            %remove perg variables
+            perg1_ind = IMOS.find(s.variables, 'PERG1');
+            perg2_ind = IMOS.find(s.variables, 'PERG2');
+            perg3_ind = IMOS.find(s.variables, 'PERG3');
+            perg4_ind = IMOS.find(s.variables, 'PERG4');
+            inds = 1:length(s.variables);
+            no_dab_inds = setxor(inds, [perg1_ind, perg2_ind, perg3_ind, perg4_ind]);
+            s.variables = s.variables(no_dab_inds);
+
+            bs = adcpBinMappingPP({s}, '');
+            bs = bs{1};
+
+            bin_mapping_string = 'has been vertically bin-mapped to HEIGHT_ABOVE_SENSOR using tilt information';
+            dim_removed_string = 'DIST_ALONG_BEAMS is not used by any variable left and has been removed';
+
+            assert(isfield(bs, 'history'))
+            assert(contains(bs.history, bin_mapping_string))
+            assert(contains(bs.history, dim_removed_string))
+        end
 
         function testRDI_old_mapping_to_new_mapping_code(test)
             base_file = load([toolboxRootPath 'data/testfiles/Teledyne/workhorse/v000/beam/1759001.000.reduced.old_mapping.mat']);