Deal with singleton spectra display issue.

CHANGELOG.md

@@ -1,7 +1,8 @@
 This document contains the nifti_mrs_tools release history in reverse chronological order.
 
-1.1.0 (WIP)
------------------------------
+1.0.3 (Wednesday 6th December 2023)
+-----------------------------------
+- Fixes issue with displaying spectra with a singleton dimension
 - Code spelling changes.
 
 1.0.2 (Friday 28th July 2023)

src/mrs_tools/__init__.py

@@ -225,7 +225,7 @@ def vis_nifti_mrs(file):
                 fig = plot_spectra(data.mrs(), ppmlim=args.ppmlim, plot_avg=args.no_mean)
 
             else:
-                while data.ndim > 4:
+                while data.ndim > 4 and np.prod(data.shape[4:]) > 1:
                     print(f'Averaging {data.dim_tags[0]}')
                     data = nifti_mrs_proc.average(data, data.dim_tags[0])
                 fig = plot_spectrum(data.mrs(), ppmlim=args.ppmlim)

tests/test_script_mrs_tools.py

@@ -68,6 +68,21 @@ def test_vis_svs(tmp_path):
 
     assert (tmp_path / 'svs4.png').exists()
 
+    # Test SVS with singleton dimension
+    subprocess.check_call([
+        'mrs_tools', 'reorder',
+        '--file', svs_raw,
+        '--dim_order', 'DIM_COIL', 'DIM_DYN', 'DIM_EDIT',
+        '--output', str(tmp_path),
+        '--filename', 'singleton'])
+
+    subprocess.check_call(['mrs_tools', 'vis',
+                           '--ppmlim', '0.2', '4.2',
+                           '--save', str(tmp_path / 'svs5.png'),
+                           str(tmp_path / 'singleton.nii.gz')])
+
+    assert (tmp_path / 'svs5.png').exists()
+
 
 # def test_vis_basis(tmp_path):
 #     subprocess.check_call(['mrs_tools', 'vis',