Error after ete3 evol using model SLR

[Claudia Marcela Ortiz Sepulveda]

Hello,

I run an analysis with the following command 

ete3 evol -t tree_prune.nw --alg reduced_E27_168060.p1_CompleteBUSCO_completeFNA_final_align_NT.aln -o reduced_E27_168060_1/ --models SLR --cpu 12 -i reduced_E27_168060_1.PDF --resume > reduced_E27_168060_1.txt

and I am getting this error:

double free or corruption (out)

Aborted (core dumped)

Traceback (most recent call last):

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/bin/ete3", line 33, in <module>

    sys.exit(load_entry_point('ete3==3.1.2', 'console_scripts', 'ete3')())

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/tools/ete.py", line 95, in main

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/tools/ete.py", line 269, in _main

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/tools/ete_evol.py", line 905, in run

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/tools/ete_evol.py", line 694, in load_model

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/evoltree.py", line 436, in link_to_evol_model

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/model.py", line 174, in _load

  File "/eep/softwares/miniconda/envs/ete3-3.1.2/lib/python2.7/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/parser/slrparser.py", line 62, in parse_slr

IOError: [Errno 2] No such file or directory: 'reduced_E27_168060_1/SLR~af8123717a716fc5f205b3f1a29ec6cf/out'

I do not know what is the reason of this error because the same files are working well  using another models.

Thank you for your help,

Claudia

[fransua]

Hi,

have you checked the installation of SLR?

support for this software is getting more difficult as time passes.

cheers

francois

[Adrian Pelin]

This error " double free or corruption (out) " seems to appear from time to time (10-20% of alignment lists in my case) when running Slr, regardless of ete3. 

I cannot pinpoint what causes it and have tried various Slr versions, including compiled ones on newer and older OS.

I was wondering if anyone had any luck fixing this mem allocation issue or find the cause of it?