“Segmentation fault” for “minirosetta.linuxgccrelease”

[Anonymous]

Dear friends,
I got “Segmentation fault (core dumped)” after running “minirosetta.linuxgccrelease”:

~/Cheng/rosetta_2014.30.57114_bundle/main/source/bin/minirosetta.linuxgccrelease @/home/lanselibai/Cheng/test/LC/in/comparative_model_LC.options -database ~/Cheng/rosetta_2014.30.57114_bundle/main/database >& /home/lanselibai/Cheng/test/LC/comparative_model_LC.log &

As suggested to test it on a debug mode (https://www.rosettacommons.org/node/3526), I have tried:

~/Cheng/rosetta_2014.30.57114_bundle/main/source/bin/minirosetta.default.linuxgccdebug @/home/lanselibai/Cheng/test/LC/in/comparative_model_LC.options -database ~/Cheng/rosetta_2014.30.57114_bundle/main/database -out:levels all:debug >& /home/lanselibai/Cheng/test/LC/comparative_model_LC.log &

It is said at the end of the log file:

protocols.looprelax: -259.505 -734.572 86.179 415.877 1.481 -83.889 0.761 -16.622 -83.544 -21.952 -13.407 -1.493 -14.321 25.698 206.561 -25.885 -0.379=======minirosetta.default.linuxgccdebug: src/core/kinematics/FoldTree.hh:744: int core::kinematics::FoldTree::root() const: Assertion `!empty()’ failed.
=============================================================================
protocols.looprelax: ===
protocols.looprelax: === Refine
protocols.looprelax: ===
Got some signal… It is:6
Process was aborted!

The log file and options file are attached.
(The log file is split into two due to the file size)

All of the input files and log file can be downloaded at:
https://copy.com/BCBJVgXo0r74w6fx

Could you please help me solve the problem of homology modelling for the light chain (LC)? Thank you very much.

Yours sincerely
Cheng

(I think the problem is due to the sequence itself. I also tried to use “minirosetta.linuxgccrelease” for only the first 10 amino acids for target and template sequences. Though the first 10 residues are exactly the same for target and template, “Segmentation fault” still occurs. On the other hand, the “minirosetta.linuxgccrelease” works fine for my heavy chain (HC) comparative modelling.)

[Anonymous]

Answered at https://www.rosettacommons.org/comment/8003

[Author]

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