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refactor output filename generation

Merged Larissa Glass requested to merge 9-hotfix-output-filenames into main
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+ 7
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@@ -34,11 +34,13 @@ def get_args():
@@ -34,11 +34,13 @@ def get_args():
def output_filename(filename: str) -> str:
def output_filename(filename: str) -> str:
filepath = Path(filename)
filepath = Path(filename)
if filename.endswith(".csv") or filename.endswith(".tsv"):
if filepath.suffix == ".csv" or filepath.suffix == ".tsv":
return "generated_" + filepath.stem + ".csv"
outfile = "generated_" + filepath.stem + ".csv"
if filename.endswith(".gtf"):
elif filepath.suffix == ".gtf":
return "generated_" + filepath.name
outfile = "generated_" + filepath.name
else:
 
raise NotImplementedError()
 
return outfile
def app():
def app():
args = get_args()
args = get_args()
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