pygor3 Aborted : returned non-zero exit status 134.

[niccolocard99]

Hello

I work on WSL with ubuntu 20.04

I belive I have installed Igor and pygor3 successfully (downloaded from github, then ./configure && make && sudo make install ),
and commands like
pygor imgt-get-genomes --imgt-species Homo+sapiens --imgt-chain IGH -t VDJ
or
pygor model-create -M models/Homo+sapiens/IGH/ -t VDJ
run smoothly without errors.

but when i try to run pygor igor-infer -M models/Homo+sapiens/IGH/ -i ./Igor_testo5.txt -o new_IgHHHH

stops after the alignment (Aborted)
and then returns returned non-zero exit status 134.

I Also tried the same commands on jupyternotebooks , but the outcome is the same

Below is the output from my console:

$ pygor igor-infer -M models/Homo+sapiens/IGH/ -i ./Igor_testo5.txt -o new_IgHHHH
--------------------------------
===== Running inference =====
Reading Parms filename from:  models/Homo+sapiens/IGH//models/model_parms.txt
Reading Marginals filename from:  models/Homo+sapiens/IGH//models/model_marginals.txt
/usr/local/bin/igor -set_wd ./ -batch dataIGoRjb9x8CHN78 -read_seqs ./Igor_testo5.txt
/usr/local/bin/igor -set_wd ./ -batch dataIGoRjb9x8CHN78 -set_genomic  --V models/Homo+sapiens/IGH//ref_genome//genomicVs.fasta --D models/Homo+sapiens/IGH//ref_genome//genomicDs.fasta --J models/Homo+sapiens/IGH//ref_genome//genomicJs.fasta -set_CDR3_anchors  --V models/Homo+sapiens/IGH//ref_genome//V_gene_CDR3_anchors.csv --J models/Homo+sapiens/IGH//ref_genome//J_gene_CDR3_anchors.csv -align  --all
Batch name set to: dataIGoRjb9x8CHN78_
Working directory set to: "./"
Performing V alignments....
V_gene alignments [||||||||||||||||||||||||||||||||||||||||||||||||||]  Done.
Performing D alignments....
D_gene alignments [||||||||||||||||||||||||||||||||||||||||||||||||||]  Done.
Performing J alignments....
J_gene alignments [||||||||||||||||||||||||||||||||||||||||||||||||||]  Done.
Performing CDR3 sequence extraction ....
== Alignment finished! ==
Writing model parms in file  .//dataIGoRjb9x8CHN78_mdldata//models/model_parms.txt
Writing model marginals in file  .//dataIGoRjb9x8CHN78_mdldata//models/model_marginals.txt
/usr/local/bin/igor -set_wd ./ -batch dataIGoRjb9x8CHN78 -set_custom_model .//dataIGoRjb9x8CHN78_mdldata//models/model_parms.txt .//dataIGoRjb9x8CHN78_mdldata//models/model_marginals.txt -set_CDR3_anchors  --V .//dataIGoRjb9x8CHN78_mdldata//ref_genome/V_gene_CDR3_anchors.csv --J .//dataIGoRjb9x8CHN78_mdldata//ref_genome/J_gene_CDR3_anchors.csv -infer
Batch name set to: dataIGoRjb9x8CHN78_
GeneChoice read
GeneChoice read
GeneChoice read
Deletion read
Deletion read
Deletion read
Deletion read
Insertion read
DinucMarkov read
Aborted
Traceback (most recent call last):
  File "/home/nick99/.local/bin/pygor", line 8, in <module>
    sys.exit(cli())
  File "/usr/lib/python3/dist-packages/click/core.py", line 764, in __call__
    return self.main(*args, **kwargs)
  File "/usr/lib/python3/dist-packages/click/core.py", line 717, in main
    rv = self.invoke(ctx)
  File "/usr/lib/python3/dist-packages/click/core.py", line 1137, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/usr/lib/python3/dist-packages/click/core.py", line 956, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/usr/lib/python3/dist-packages/click/core.py", line 555, in invoke
    return callback(*args, **kwargs)
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/scripts/cli.py", line 341, in run_infer
    output = igortask._run_infer(igor_read_seqs=igor_read_seqs)
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/IgorIO.py", line 7535, in _run_infer
    raise e
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/IgorIO.py", line 7528, in _run_infer
    output = run_command_print(cmd)
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/IgorIO.py", line 127, in run_command_print
    raise e
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/IgorIO.py", line 121, in run_command_print
    for path in execute_command_generator(cmd):
  File "/home/nick99/.local/lib/python3.8/site-packages/pygor3/IgorIO.py", line 115, in execute_command_generator
    raise subprocess.CalledProcessError(return_code, cmd)
subprocess.CalledProcessError: Command '/usr/local/bin/igor -set_wd ./ -batch dataIGoRjb9x8CHN78 -set_custom_model .//dataIGoRjb9x8CHN78_mdldata//models/model_parms.txt .//dataIGoRjb9x8CHN78_mdldata//models/model_marginals.txt -set_CDR3_anchors 
--V .//dataIGoRjb9x8CHN78_mdldata//ref_genome/V_gene_CDR3_anchors.csv
 --J .//dataIGoRjb9x8CHN78_mdldata//ref_genome/J_gene_CDR3_anchors.csv -infer  ' returned non-zero exit status 134.

Can anybody help?
Thanks

Niccolò