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Describe the bug
After using the aISS submodule to dock two molecules, the genetic optimization algorithm will run, but as the Optimizing X best structures with gfn2 step, I receive the error:
*** stack smashing detected ***: terminated
To Reproduce
Steps to reproduce the behaviour:
happens with input (include input files)
I tried with H2O and MeOH (as well as other molecules, but these were the smallest):
3
O 0.00723291871761 0.38078004550145 0.00000000000000
H -0.77812249283762 -0.17570365630729 -0.00000000000000
H 0.77088956412001 -0.20507638919416 -0.00000000000000
6
C -0.36700780121479 0.01859276068171 -0.00227771469379
O 0.91309966541086 -0.49922598289838 -0.29646154488359
H -0.54925566216741 0.04025699439432 1.07553909436486
H -0.49443995477539 1.02327131513620 -0.41434530116864
H -1.08695569033798 -0.64987854425628 -0.47019695206980
H 1.58455943308471 0.06698344694244 0.10774241845096
Hi,
I noticed in your log.txt file that you used conda to install xtb version 6.7.1. This version had a bug with the aISS docking tool, which could cause errors similar to the one you observed. The issue has been fixed with #1089 and the bleeding-edge version should work fine again. Alternatively, you can use previous xtb versions where this bug was also not present.
@cplett Can you change the labels accordingly and/or close if the conda-forge installation is clearly the reason for this failure and is already solved now?
I just tried the docking on 6.6.1, worked like a charm. @cplett was correct. I've closed this issue, and hopefully anyone else running into the same problem finds this thread!
Describe the bug
After using the aISS submodule to dock two molecules, the genetic optimization algorithm will run, but as the Optimizing X best structures with gfn2 step, I receive the error:
*** stack smashing detected ***: terminated
To Reproduce
Steps to reproduce the behaviour:
I tried with H2O and MeOH (as well as other molecules, but these were the smallest):
h2o.xyz:
h2o.xyz.txt
meoh.xyz
meoh.xyz.txt
xtb
with (all the options here)xtb dock meoh.xyz h2o.xyz
xtb
with your options and the--verbose
flaglog.txt
error.txt
Expected behaviour
I expected to get the geometry output of optimized docking location
Additional context
I apologize if this issue isn't formatted correctly, I'm quite new to this. Thank you for taking a look!
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