deploy: eb09963

reports/index.log

@@ -0,0 +1,64 @@
+Traceback (most recent call last):
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/jupyter_cache/executors/utils.py", line 51, in single_nb_execution
+    executenb(
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/client.py", line 1204, in execute
+    return NotebookClient(nb=nb, resources=resources, km=km, **kwargs).execute()
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/util.py", line 84, in wrapped
+    return just_run(coro(*args, **kwargs))
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/util.py", line 62, in just_run
+    return loop.run_until_complete(coro)
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/asyncio/base_events.py", line 616, in run_until_complete
+    return future.result()
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/client.py", line 663, in async_execute
+    await self.async_execute_cell(
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/client.py", line 965, in async_execute_cell
+    await self._check_raise_for_error(cell, cell_index, exec_reply)
+  File "/opt/hostedtoolcache/Python/3.8.18/x64/lib/python3.8/site-packages/nbclient/client.py", line 862, in _check_raise_for_error
+    raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content)
+nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell:
+------------------
+# Download data and define path variables
+
+# Google Colab-Only
+if notebook=='colab':
+    !datalad install https://github.com/OpenNeuroDatasets/ds004906.git
+    os.chdir("ds004906")
+    !datalad get . # uncomment for production
+    # !datalad get sub-01/  # debugging
+    # Get derivatives containing manual labels
+    !datalad get derivatives
+
+if notebook!='colab':
+    os.chdir("../data/rf-shimming-7t/ds004906")
+    if notebook=='neurolibre-clean':
+        flist = open('cleanup.txt', 'r')
+        for f in flist:
+            fname = f.rstrip('\n')
+            fname = Path(os.getcwd()) / Path(fname)
+
+            # or, if you get rid of os.chdir(path) above,
+            # fname = os.path.join(path, f.rstrip())
+            if os.path.isfile(fname): # this makes the code more robust
+                print('Removing file: ' + str(fname))
+                os.remove(fname)
+            elif os.path.isdir(fname):
+                print('Removing directory: ' + str(fname))
+                rmtree(fname)
+
+        # also, don't forget to close the text file:
+        flist.close()
+
+------------------
+
+---------------------------------------------------------------------------
+FileNotFoundError                         Traceback (most recent call last)
+Cell In[5], line 13
+     10     get_ipython().system('datalad get derivatives')
+     12 if notebook!='colab':
+---> 13     os.chdir("../data/rf-shimming-7t/ds004906")
+     14     if notebook=='neurolibre-clean':
+     15         flist = open('cleanup.txt', 'r')
+
+FileNotFoundError: [Errno 2] No such file or directory: '../data/rf-shimming-7t/ds004906'
+FileNotFoundError: [Errno 2] No such file or directory: '../data/rf-shimming-7t/ds004906'
+