Hello,
I'm running IntaRNA with options similar to RNAup while integrating shape data. I noticed that when I change the tShapeMethod from "D" to "Z" and the tShapeConversion from "O" to "M", I get a segfault error.
This command works fine:
IntaRNA -v --energyVRNA=/home/ubuntu/ViennaRNA-2.5.1/misc/rna_turner2004.par --model=P --mode=M --noSeed --accW=0 --accL=0 --intLenMax=25 -t targetInput.fasta -q queryInput.fasta --tShape=targ.shape --tShapeMethod="D" --tShapeConversion="O" --outMode=E
However, changing the conversion and shape method results in an error:
IntaRNA -v --energyVRNA=/home/ubuntu/ViennaRNA-2.5.1/misc/rna_turner2004.par --model=P --mode=M --noSeed --accW=0 --accL=0 --intLenMax=25 -t targetInput.fasta -q queryInput.fasta --tShape=targ.shape --tShapeMethod="Z" --tShapeConversion="M" --outMode=E
The error below:
Even when I use this option: --outMode=C --outCsvCols '*', it gives the same error. However, when I exclude these columns, it works: Eall1,Zall1,EallTotal,Etotal. The target sequence is > 300nt. Not sure if the issue is a memory issue or something else. It only happens when with shape data with method "Z".
Hello,
I'm running IntaRNA with options similar to RNAup while integrating shape data. I noticed that when I change the tShapeMethod from "D" to "Z" and the tShapeConversion from "O" to "M", I get a segfault error.
This command works fine:
IntaRNA -v --energyVRNA=/home/ubuntu/ViennaRNA-2.5.1/misc/rna_turner2004.par --model=P --mode=M --noSeed --accW=0 --accL=0 --intLenMax=25 -t targetInput.fasta -q queryInput.fasta --tShape=targ.shape --tShapeMethod="D" --tShapeConversion="O" --outMode=EHowever, changing the conversion and shape method results in an error:
IntaRNA -v --energyVRNA=/home/ubuntu/ViennaRNA-2.5.1/misc/rna_turner2004.par --model=P --mode=M --noSeed --accW=0 --accL=0 --intLenMax=25 -t targetInput.fasta -q queryInput.fasta --tShape=targ.shape --tShapeMethod="Z" --tShapeConversion="M" --outMode=EThe error below:
Even when I use this option: --outMode=C --outCsvCols '*', it gives the same error. However, when I exclude these columns, it works: Eall1,Zall1,EallTotal,Etotal. The target sequence is > 300nt. Not sure if the issue is a memory issue or something else. It only happens when with shape data with method "Z".