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allow different gene names from tree step

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lgueguen committed Mar 11, 2021
1 parent 18ca787 commit 03833aa61872381fee16a6f1b37e9c7e8e062df6
Showing with 9 additions and 4 deletions.
  1. +9 −4 lib/LoadFileFunc.py
@@ -174,10 +174,15 @@ def phymlRecEntry(Data, step = "tree"):
Data.queryFile,
Data.aln,
step)

with open(Data.aln) as orf:
Data.geneName = orf.readline().split("_")[1]
orf.close()
try:
with open(Data.aln) as orf:
Data.geneName = orf.readline().split("_")[1]
orf.close()
except IndexError:
with open(Data.aln) as orf:
Data.geneName = orf.readline().strip()
orf.close()

else:
logger=logging.getLogger(".".join(["main",step]))
logger.error("Provided file is not a multiple sequence alignment, terminating DGINN.")

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