Dear list, When I run blat local. I always get this error.
>blat ~/bin/blat/hg19.2bit test.fa test.psl Loaded 3137161264 letters in 93 sequences needHugeMen: Out of huge memory - request size 962165992 bytes In fact, my machine have 48G memory. I have set: ulimit -d 10240000 ulimit -v 10240000 ulimit -a core file size (blocks, -c) 0 data seg size (kbytes, -d) 10240000 scheduling priority (-e) 0 file size (blocks, -f) unlimited pending signals (-i) 522239 max locked memory (kbytes, -l) 32 max memory size (kbytes, -m) unlimited open files (-n) 1024 pipe size (512 bytes, -p) 8 POSIX message queues (bytes, -q) 819200 real-time priority (-r) 0 stack size (kbytes, -s) 8192 cpu time (seconds, -t) unlimited max user processes (-u) 522239 virtual memory (kbytes, -v) 10240000 file locks (-x) unlimited My blat is 64bit: file ~/bin/blat/blat ~/bin/blat/blat: ELF 64-bit LSB executable, x86-64, version 1 (SYSV), dynamically linked (uses shared libs), for GNU/Linux 2.6.9, stripped _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
