LTR_Finder
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LTR_FINDER:v1.07 ralloc error!!!
Program : LTR_FINDER Version : 1.07
I'm going to look at the genome and cut it up by chromosome.Then run ltr_finder separately to predict the LTR at different nodes.Only chromosome 7 experienced this error:
nohup ltr_finder -D 20000 -d 1000 -L 700 -l 100 -p 40 -C -M 0.9 chr7.fa 1> chr7.fa.scn &
ralloc error!!!
I'm running the other chromosomes at this node, and everything's fine.
Location : 1853143 - 1866733 Len: 13591 Strand:-
Score : 6 [LTR region similarity:0.959]
Status : 11111010000
5'-LTR : 1853143 - 1853727 Len: 585
3'-LTR : 1866154 - 1866733 Len: 580
5'-TG : TG , TG
3'-CA : CA , CA
TSR : 1853139 - 1853142 , 1866734 - 1866737 [CACA]
Sharpness: 0.557,0.486
Strand - :
PPT : [12/15] 1853772 - 1853786
I'm confused about what happened and I hope I can get your help.
CPU:32 Mem:1008G Swp:4G Linux version 3.10.0-327.el7.x86_64 ([email protected]) (gcc version 4.8.3 20140911 (Red Hat 4.8.3-9) (GCC) ) #1 SMP Thu Nov 19 22:10:57 UTC 2015