ERROR: Blast0_0.txt is corrupted

[Tdanis]

Hello,

I am trying to run your examples but I get this error (ERROR: Blast0_0.txt is corrupted)

ERROR: Error processing files Blast0_* Malformatted line in ...../WorkingDirectory/Blast0_0.txt Offending line was:

Process Process-14:
Traceback (most recent call last):
  File .../Python/3.8.6/lib/python3.8/multiprocessing/process.py", line 315, in _bootstrap
    self.run()
  File ...//3.8.6/lib/python3.8/multiprocessing/process.py", line 108, in run
    self._target(*self._args, **self._kwargs)

  File "/gpfs23/...//__main__.py", line 529, in Worker_ProcessBlastHits
    WaterfallMethod.ProcessBlastHits(*args, d_pickle=d_pickle, qDoubleBlast=qDoubleBlast)
  File "/.././__main__.py", line 516, in ProcessBlastHits
    Bij = blast_file_processor.GetBLAST6Scores(seqsInfo, blastDir_list, seqsInfo.speciesToUse[iSpecies], seqsInfo.speciesToUse[jSpecies], qDoubleBlast=qDoubleBlast)
  File "/...//blast_file_processor.py", line 65, in GetBLAST6Scores
    for row in blastreader:
  File "/...//3.8.6/lib/python3.8/codecs.py", line 322, in decode
    (result, consumed) = self._buffer_decode(data, self.errors, final)
UnicodeDecodeError: 'utf-8' codec can't decode byte 0x9f in position 2: invalid start byte
ERROR: An error occurred, ***please review the error messages*** they may contain useful information about the problem.Warning message:

In system2(p2of, com, stdout = TRUE, stderr = TRUE) : running command ''orthofinder' -f /home/tdanis/Desktop/testGenespace/peptide -t 12 -a 1 -X -o ~/Desktop/testGenespace/orthofinder 2>&1' had status 1

Any idea?

[jtlovell]

My guess is that you have an old diamond install. Can you check this with system("diamond help") (replace diamond with whatever your path to the diamond install is).

[Tdanis]

It worked!!! Thank you do much.