[mira_talk] Re: Mira...problems with memory continued
- From: "Matthew D. Pagel" <pagel@xxxxxxx>
- To: "Matthew D. Pagel" <pagel@xxxxxxx>
- Date: Wed, 29 May 2013 19:33:56 -0400
Just a brief note: I installed 3.9.17 yesterday. Whereas 3.9.16 was doing seg
fault/core dumps, 3.9.17 instead gave tcmalloc errors that were non-fatal. In
other words, program execution continued, swap space was used (roughly 12GB in
total) and it generated a final assembly. In 3.9.15 I had been getting
tcmalloc errors that were fatal, although I did not use an identical data set
and parameters.
I haven't exhaustively tested 3.9.17 to see if it always handles the tcmalloc
errors gracefully in all circumstances, but I'm pleased that it ran with the
parameters that I used.
--Matt
On Fri, May 10, 2013 08:19 PM "Matthew D. Pagel" <pagel@xxxxxxx> wrote:
>
>Hi all,
>
>Finally upgraded my system RAM to the max allowable by my board: 8GB (getting
>this RAM was an adventure in itself) and used the opportunity to upgrade my
>harddrive. In any case, mira (mira_3.9.16_linux-gnu_x86_64_static) is still
>crashing with errors like
>
>tcmalloc: large alloc 1116635136 bytes == 0x225f90000 @
>Segmentation fault (core dumped)
>
>After going into my shell, re-upping my swap space to beyond 32GB, I monitored
>memory and swap usage (via top) during one of the runs until it crashed, and it
>appears that my swap space is not being used by mira. The crash is occurring
>when my physical memory is all used, but the swap space is not being used.
>My current memory/swap lines (not running mira) read
>Mem: 7971212k total, 1693792k used, 6277420k free, 9912k buffers
>Swap: 43745276k total, 519148k used, 43226128k free, 667876k cached
>
>Am I missing a library for handling swap with mira?
>swapon -s
>Filename Type Size Used Priority
>/dev/mapper/VolGroup00-LogVol01 partition 43745276 518952
>-1
>
>cat /proc/sys/vm/swappiness
>60
>
> --- Logical volume ---
> LV Name /dev/VolGroup00/LogVol01
> VG Name VolGroup00
> LV Write Access read/write
> LV Status available
> # open 3
> LV Size 41.72 GiB
> Current LE 1335
> Segments 2
> Allocation inherit
> Read ahead sectors auto
> - currently set to 256
> Block device 252:1
>
>Also, in a recent message you said that 3.9 doesn't use the traceinfo file
>anymore - how then does it retrieve clipping/masking info?
>
>
_______________________________________________________
Matt Pagel
Graduate Student
Penn State Biochemistry, Microbiology and Molecular Biology
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