Prevents shell expansion in API (#431)

ME-ICA · Nov 8, 2019 · 6635e2a · 6635e2a
1 parent 633f6ba
commit 6635e2a
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Showing 2 changed files with 6 additions and 1 deletion.
diff --git a/tedana/tests/test_integration.py b/tedana/tests/test_integration.py
@@ -81,8 +81,11 @@ def test_integration_five_echo(skip_integration):
     # download data and run the test
     download_test_data('https://osf.io/9c42e/download',
                        os.path.dirname(out_dir))
+    prepend = '/tmp/data/five-echo/p06.SBJ01_S09_Task11_e'
+    suffix = '.sm.nii.gz'
+    datalist = [prepend + str(i+1) + suffix for i in range(5)]
     tedana_workflow(
-        data='/tmp/data/five-echo/p06.SBJ01_S09_Task11_e[1,2,3,4,5].sm.nii.gz',
+        data=datalist,
         tes=[15.4, 29.7, 44.0, 58.3, 72.6],
         out_dir=out_dir,
         debug=True, verbose=True)

diff --git a/tedana/workflows/tedana.py b/tedana/workflows/tedana.py
@@ -366,6 +366,8 @@ def tedana_workflow(data, tes, mask=None, mixm=None, ctab=None, manacc=None,
 
     # coerce data to samples x echos x time array
     if isinstance(data, str):
+        if not op.exists(data):
+            raise ValueError('Zcat file {} does not exist'.format(data))
         data = [data]
 
     LGR.info('Loading input data: {}'.format([f for f in data]))