GitLab

Hi,

Thank you for the wonderful pipeline. I recently downloaded the EMBL release 138 dataset and was trying to build the reference database. But while running the command :

obiconvert --embl -t ./TAXO --ecopcrDB-output=embl_last ./EMBL/*.dat

I encountered an error. The last few lines of log indicating the error are as follows.

Error on sequence : EU394480


Traceback (most recent call last):
  File "/home/uramakri/mousumig/Softwares/OBITools/OBITools-1.2.12/export/bin/obiconvert", line 52, in <module>
    writer(entry)
  File "/home/uramakri/mousumig/Softwares/OBITools/OBITools-1.2.12/lib/python2.7/site-packages/obitools/format/options.py", line 371, in sequen
    writer.put(sequence)
  File "/home/uramakri/mousumig/Softwares/OBITools/OBITools-1.2.12/lib/python2.7/site-packages/obitools/ecopcr/sequence.py", line 173, in put
    self._file.write(self._ecoSeqPacker(sequence))
  File "/home/uramakri/mousumig/Softwares/OBITools/OBITools-1.2.12/lib/python2.7/site-packages/obitools/ecopcr/sequence.py", line 141, in _ecoS
    raise e
struct.error: cannot convert argument to integer

I am also attaching the log for the last obiconvert run. obiconvert.err

I would be quite grateful if someone could help me troubleshoot the error.

Thanking You

With Regards, Harsh