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Error in Mikado serialise: local variable 'counter' referenced before assignment #464

@fjruizruano

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@fjruizruano

Hi! I got this error while running serialise.
Any clue?
Thanks in advance.

singularity exec mikado-2.3.5rc2.sif mikado serialise --json-conf configuration.yaml --xml mikado_prepared.blast.tsv --orfs mikado.orfs.gff3 --blast_targets uniprot_sprot.fasta --junctions junctions.bed

Mikado crashed, cause:
local variable 'counter' referenced before assignment
Traceback (most recent call last):
  File "/opt/conda/envs/mikado_env/lib/python3.9/site-packages/Mikado/__main__.py", line 68, in main
    args.func(args)
  File "/opt/conda/envs/mikado_env/lib/python3.9/site-packages/Mikado/subprograms/serialise.py", line 386, in serialise
    load_junctions(mikado_configuration, logger)
  File "/opt/conda/envs/mikado_env/lib/python3.9/site-packages/Mikado/subprograms/serialise.py", line 126, in load_junctions
    serializer()
  File "/opt/conda/envs/mikado_env/lib/python3.9/site-packages/Mikado/serializers/junction.py", line 286, in __call__
    self.serialize()
  File "/opt/conda/envs/mikado_env/lib/python3.9/site-packages/Mikado/serializers/junction.py", line 266, in serialize
    self.logger.debug("Serialised %s junctions into %s.", counter, self.db_settings)
UnboundLocalError: local variable 'counter' referenced before assignment

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