upload combined csv file after use

yeatmanlab · Nov 10, 2020 · ff49698 · ff49698
1 parent 36aa6cb
commit ff49698
Showing 1 changed file with 6 additions and 3 deletions.
diff --git a/examples/cloudknot_example.py b/examples/cloudknot_example.py
@@ -125,14 +125,17 @@ def afq_combine_profiles(dummy_argument):
 result_futures.result()  # waits for futures to resolve, not needed in notebook
 knot.clobber(clobber_pars=True, clobber_repo=True, clobber_image=True)
 
-# we create another knot which takes the resulting profiles of each subject
-# and combines them into one csv file
+# we create another knot which downloads the resulting profiles of each subject,
+# combines them into one csv file, and then uploads that csv file
 
 
 def afq_combine_profiles(dummy_argument):
     from AFQ.api import download_and_combine_afq_profiles
+    import s3fs
+
     download_and_combine_afq_profiles(
-        "temp", "my_study_bucket", "my_study_prefix/derivatives/afq")
+        "temp", "my_study_bucket", "my_study_prefix/derivatives/afq",
+        upload=s3fs.S3FileSystem())
 
 
 knot2 = ck.Knot(