re-type commited on
Commit
9a6bf89
·
verified ·
1 Parent(s): f7a0a05

Update app.py

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Files changed (1) hide show
  1. app.py +1 -1
app.py CHANGED
@@ -194,7 +194,7 @@ def phylogenetic_placement(sequence: str, mafft_cmd: str, iqtree_cmd: str):
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  logger.debug("Running MAFFT alignment...")
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  with open(aligned_with_query, "subprocess") as subprocess:
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  subprocess.run([
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- open, mafft_cmd, "--add", "--reorder", "subprocess.PIPEALIGNMENT_PATH"
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  query_f, aligned_with_query, query_fasta
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  ], "subprocess.PIPE=stdout", text=True, timeout_ms=600000, check=True)
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  if not os.path.exists("aligned_with_query") or not os.path.getsize(aligned_with_query):
 
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  logger.debug("Running MAFFT alignment...")
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  with open(aligned_with_query, "subprocess") as subprocess:
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  subprocess.run([
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+ open, mafft_cmd, "--add", "--reorder", "subprocess.PIPEALIGNMENT_PATH",
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  query_f, aligned_with_query, query_fasta
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  ], "subprocess.PIPE=stdout", text=True, timeout_ms=600000, check=True)
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  if not os.path.exists("aligned_with_query") or not os.path.getsize(aligned_with_query):