Hello friends,
I am a new user of blast2go pipeline.
I would like to use blast2go pipeline to obtain annotation for a blast output file which is about 17 Megabytes in size. I did blast against nr seperately and I have the output as *.xml file from my blast. We have a 16 core linux machine and I would like to run blast2go pipeline in that linux machine.
I am not sure if there is an option for setting the number of threads while running blast2go pipeline.
The b2g4pipe command that I used on linux command line to test a small sample blast output is
nohup java -Xmx1000m -cp *:ext/*: es.blast2go.prog.B2GAnnotPipe -in 10_BlastResults_2011.xml -out b2gpout -prop b2gPipe.properties -annot &
It works fine and I could get the output without any problem.
For running b2g4pipe on a larger blast output file in xml format:
Could you please let me know if I could set the number of threads(no of cores/cpu's) in the above b2g4pipe command( like how we do in blastx command line with -num_threads option) to make the annotation process faster? If not, then is there any other way to do it?
Thanks very much.
Cheers,
PSW.
I am a new user of blast2go pipeline.
I would like to use blast2go pipeline to obtain annotation for a blast output file which is about 17 Megabytes in size. I did blast against nr seperately and I have the output as *.xml file from my blast. We have a 16 core linux machine and I would like to run blast2go pipeline in that linux machine.
I am not sure if there is an option for setting the number of threads while running blast2go pipeline.
The b2g4pipe command that I used on linux command line to test a small sample blast output is
nohup java -Xmx1000m -cp *:ext/*: es.blast2go.prog.B2GAnnotPipe -in 10_BlastResults_2011.xml -out b2gpout -prop b2gPipe.properties -annot &
It works fine and I could get the output without any problem.
For running b2g4pipe on a larger blast output file in xml format:
Could you please let me know if I could set the number of threads(no of cores/cpu's) in the above b2g4pipe command( like how we do in blastx command line with -num_threads option) to make the annotation process faster? If not, then is there any other way to do it?
Thanks very much.
Cheers,
PSW.
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