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|ID||Project||Category||View Status||Date Submitted||Last Update|
|0000199||Rosetta||[All Projects] Crash||public||2013-03-06 18:59||2013-03-15 10:59|
|Platform||All platforms||OS||Any||OS Version||Any|
|Fixed in Version|
|Summary||0000199: SymE is broken (or probably never worked to begin with )|
I for the life of me could not get a BugTracker account (the image to join isn't there, so I can't sign up!), so I decided to email you.
I did a couple of things after we talked this morning. I ran both the monomer and assembled tetramer (in membrane mode, fixbb) with the symE flags (-score:symE_units 4; -score:symE_bonus 100). The tetramer didn't work (rosetta_scripts.default.linuxgccdebug: src/core/scoring/MembraneTopology.hh:133: bool core::scoring::MembraneTopology::allow_scoring(utility::pointer::ReferenceCount::Size) const: Assertion `seqpos <= allow_scoring_.size()' failed.
Got some signal... It is:6) , but the monomer did run, it just did fixbb normally. The tetramer error appears to be a membrane issue...?
I have all of this sorted in my directory:
for the tetramer
for the monomer trial
97_aligned.pdb is my sequence and structurally symmetric (2-fold inverted) protein. I know I can run fixbb on the tetramer and get the same mutations for each chain, but I am looking for a way to maintain the symmetry within the protomer/monomer. "
|Tags||No tags attached.|
|Command Line Used||anything that scores a protein|
|Developer Options||Confirmed As Bug|
|Fixed in SVN Version||54296|
|OK well it's definitely not a problem with membrane scoring thats for sure|
|The symE_bonus scoring term was a terrible idea. it has been replaced with a mover called FavorSymmetricSequence. The old score term code will be removed soon.|
|2013-03-06 18:59||delucasl||New Issue|
|2013-03-06 18:59||delucasl||Status||new => assigned|
|2013-03-06 18:59||delucasl||Assigned To||=> delucasl|
|2013-03-07 20:47||delucasl||Note Added: 0000162|
|2013-03-15 10:59||delucasl||Fixed in SVN Version||=> 54296|
|2013-03-15 10:59||delucasl||Note Added: 0000174|
|2013-03-15 10:59||delucasl||Status||assigned => resolved|
|2013-03-15 10:59||delucasl||Resolution||open => fixed|
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