vgapsys / g_lomepro Goto Github PK
View Code? Open in Web Editor NEWLocal membrane property analysis
License: GNU Lesser General Public License v3.0
Local membrane property analysis
License: GNU Lesser General Public License v3.0
I am encountering a memory corruption error when trying to run analysis on a group of lipids. The index file has three groups for the membrane (POPE, POPG, POPE+POPG) and all analyses return the memory corruption error when selecting the POPG or POPG+POPE groups, however the analyses work for the POPE group.
I compiled with gromacs 4.6.2 and fftw 3.3.7.
Reading frame 0 time 0.000 *** Error in
../opt/g_lomepro/g_lomepro_v1.0.2': free(): invalid next size (normal): 0x0000000000a0a890 ***
======= Backtrace: =========
/lib/x86_64-linux-gnu/libc.so.6(+0x777f5)[0x7f1389c3e7f5]
/lib/x86_64-linux-gnu/libc.so.6(+0x8038a)[0x7f1389c4738a]
/lib/x86_64-linux-gnu/libc.so.6(cfree+0x4c)[0x7f1389c4b58c]
../opt/g_lomepro/g_lomepro_v1.0.2[0x40e92f]
/lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xf0)[0x7f1389be7840]
../opt/g_lomepro/g_lomepro_v1.0.2[0x401349]
======= Memory map: ========
00400000-00427000 r-xp 00000000 00:35 35256648759 /nfs/homes/rsexton/opt/g_lomepro/g_lomepro_v1.0.2
00626000-00627000 r--p 00026000 00:35 35256648759 /nfs/homes/rsexton/opt/g_lomepro/g_lomepro_v1.0.2
00627000-00628000 rw-p 00027000 00:35 35256648759 /nfs/homes/rsexton/opt/g_lomepro/g_lomepro_v1.0.2
009ee000-00a18000 rw-p 00000000 00:00 0 [heap]
7f1380000000-7f1380021000 rw-p 00000000 00:00 0
7f1380021000-7f1384000000 ---p 00000000 00:00 0
7f1386963000-7f1386b0e000 rw-p 00000000 00:00 0
7f1386b0e000-7f1386d8d000 rw-p 00000000 00:00 0
7f1386e19000-7f1387934000 rw-p 00000000 00:00 0
7f1387934000-7f1387972000 r-xp 00000000 08:51 12715666 /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
7f1387972000-7f1387b71000 ---p 0003e000 08:51 12715666 /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
7f1387b71000-7f1387b72000 r--p 0003d000 08:51 12715666 /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
7f1387b72000-7f1387b73000 rw-p 0003e000 08:51 12715666 /usr/lib/x86_64-linux-gnu/libquadmath.so.0.0.0
7f1387b73000-7f1387bb0000 r-xp 00000000 08:51 15467402 /usr/lib/atlas-base/atlas/libblas.so.3.0
7f1387bb0000-7f1387db0000 ---p 0003d000 08:51 15467402 /usr/lib/atlas-base/atlas/libblas.so.3.0
7f1387db0000-7f1387db1000 rw-p 0003d000 08:51 15467402 /usr/lib/atlas-base/atlas/libblas.so.3.0
7f1387db1000-7f1387dc7000 r-xp 00000000 08:51 24510991 /lib/x86_64-linux-gnu/libgcc_s.so.1
7f1387dc7000-7f1387fc6000 ---p 00016000 08:51 24510991 /lib/x86_64-linux-gnu/libgcc_s.so.1
7f1387fc6000-7f1387fc7000 rw-p 00015000 08:51 24510991 /lib/x86_64-linux-gnu/libgcc_s.so.1
7f1387fc7000-7f13880f0000 r-xp 00000000 08:51 12723156 /usr/lib/x86_64-linux-gnu/libgfortran.so.3.0.0
7f13880f0000-7f13882ef000 ---p 00129000 08:51 12723156 /usr/lib/x86_64-linux-gnu/libgfortran.so.3.0.0
7f13882ef000-7f13882f0000 r--p 00128000 08:51 12723156 /usr/lib/x86_64-linux-gnu/libgfortran.so.3.0.0
7f13882f0000-7f13882f2000 rw-p 00129000 08:51 12723156 /usr/lib/x86_64-linux-gnu/libgfortran.so.3.0.0
7f13882f2000-7f1388689000 r-xp 00000000 08:51 15467403 /usr/lib/atlas-base/libatlas.so.3.0
7f1388689000-7f1388889000 ---p 00397000 08:51 15467403 /usr/lib/atlas-base/libatlas.so.3.0
7f1388889000-7f1388890000 rw-p 00397000 08:51 15467403 /usr/lib/atlas-base/libatlas.so.3.0
7f1388890000-7f13888b1000 r-xp 00000000 08:51 15467404 /usr/lib/atlas-base/libcblas.so.3.0
7f13888b1000-7f1388ab1000 ---p 00021000 08:51 15467404 /usr/lib/atlas-base/libcblas.so.3.0
7f1388ab1000-7f1388ab2000 rw-p 00021000 08:51 15467404 /usr/lib/atlas-base/libcblas.so.3.0
7f1388ab2000-7f1388ab5000 r-xp 00000000 08:51 24510799 /lib/x86_64-linux-gnu/libdl-2.23.so
7f1388ab5000-7f1388cb4000 ---p 00003000 08:51 24510799 /lib/x86_64-linux-gnu/libdl-2.23.so
7f1388cb4000-7f1388cb5000 r--p 00002000 08:51 24510799 /lib/x86_64-linux-gnu/libdl-2.23.so
7f1388cb5000-7f1388cb6000 rw-p 00003000 08:51 24510799 /lib/x86_64-linux-gnu/libdl-2.23.so
7f1388cb6000-7f1389295000 r-xp 00000000 08:51 15467401 /usr/lib/atlas-base/atlas/liblapack.so.3.0
7f1389295000-7f1389495000 ---p 005df000 08:51 15467401 /usr/lib/atlas-base/atlas/liblapack.so.3.0
7f1389495000-7f138949a000 rw-p 005df000 08:51 15467401 /usr/lib/atlas-base/atlas/liblapack.so.3.0
7f138949a000-7f13894ba000 r-xp 00000000 08:51 15467399 /usr/lib/atlas-base/libf77blas.so.3.0
7f13894ba000-7f13896b9000 ---p 00020000 08:51 15467399 /usr/lib/atlas-base/libf77blas.so.3.0
7f13896b9000-7f13896ba000 rw-p 0001f000 08:51 15467399 /usr/lib/atlas-base/libf77blas.so.3.0
7f13896ba000-7f13899ac000 r-xp 00000000 00:3c 13373086725 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3f.so.3.5.7
7f13899ac000-7f1389bab000 ---p 002f2000 00:3c 13373086725 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3f.so.3.5.7
7f1389bab000-7f1389bc6000 r--p 002f1000 00:3c 13373086725 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3f.so.3.5.7
7f1389bc6000-7f1389bc7000 rw-p 0030c000 00:3c 13373086725 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3f.so.3.5.7
7f1389bc7000-7f1389d87000 r-xp 00000000 08:51 24510951 /lib/x86_64-linux-gnu/libc-2.23.so
7f1389d87000-7f1389f87000 ---p 001c0000 08:51 24510951 /lib/x86_64-linux-gnu/libc-2.23.so
7f1389f87000-7f1389f8b000 r--p 001c0000 08:51 24510951 /lib/x86_64-linux-gnu/libc-2.23.so
7f1389f8b000-7f1389f8d000 rw-p 001c4000 08:51 24510951 /lib/x86_64-linux-gnu/libc-2.23.so
7f1389f8d000-7f1389f91000 rw-p 00000000 00:00 0
7f1389f91000-7f1389fa9000 r-xp 00000000 08:51 24510959 /lib/x86_64-linux-gnu/libpthread-2.23.so
7f1389fa9000-7f138a1a8000 ---p 00018000 08:51 24510959 /lib/x86_64-linux-gnu/libpthread-2.23.so
7f138a1a8000-7f138a1a9000 r--p 00017000 08:51 24510959 /lib/x86_64-linux-gnu/libpthread-2.23.so
7f138a1a9000-7f138a1aa000 rw-p 00018000 08:51 24510959 /lib/x86_64-linux-gnu/libpthread-2.23.so
7f138a1aa000-7f138a1ae000 rw-p 00000000 00:00 0
7f138a1ae000-7f138a1cf000 r-xp 00000000 08:51 12721565 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0
7f138a1cf000-7f138a3ce000 ---p 00021000 08:51 12721565 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0
7f138a3ce000-7f138a3cf000 r--p 00020000 08:51 12721565 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0
7f138a3cf000-7f138a3d0000 rw-p 00021000 08:51 12721565 /usr/lib/x86_64-linux-gnu/libgomp.so.1.0.0
7f138a3d0000-7f138a68e000 r-xp 00000000 00:3c 13373086729 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3.so.3.5.7
7f138a68e000-7f138a88d000 ---p 002be000 00:3c 13373086729 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3.so.3.5.7
7f138a88d000-7f138a8a8000 r--p 002bd000 00:3c 13373086729 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3.so.3.5.7
7f138a8a8000-7f138a8a9000 rw-p 002d8000 00:3c 13373086729 /nfs/packages/opt/Linux_x86_64/fftw3/3.3.7/gnu-5/lib/libfftw3.so.3.5.7
7f138a8a9000-7f138a9b1000 r-xp 00000000 08:51 24510972 /lib/x86_64-linux-gnu/libm-2.23.so
7f138a9b1000-7f138abb0000 ---p 00108000 08:51 24510972 /lib/x86_64-linux-gnu/libm-2.23.so
7f138abb0000-7f138abb1000 r--p 00107000 08:51 24510972 /lib/x86_64-linux-gnu/libm-2.23.so
7f138abb1000-7f138abb2000 rw-p 00108000 08:51 24510972 /lib/x86_64-linux-gnu/libm-2.23.so
7f138abb2000-7f138b0d2000 r-xp 00000000 00:35 4821786366 /nfs/homes/rsexton/opt/gromacs-4.6.2/lib/libgmx.so.8
7f138b0d2000-7f138b2d1000 ---p 00520000 00:35 4821786366 /nfs/homes/rsexton/opt/gromacs-4.6.2/lib/libgmx.so.8
7f138b2d1000-7f138b2d7000 r--p 0051f000 00:35 4821786366 /nfs/homes/rsexton/opt/gromacs-4.6.2/lib/libgmx.so.8
7f138b2d7000-7f138b2ec000 rw-p 00525000 00:35 4821786366 /nfs/homes/rsexton/opt/gromacs-4.6.2/lib/libgmx.so.8
7f138b2ec000-7f138b2ed000 rw-p 00000000 00:00 0
7f138b2ed000-7f138b313000 r-xp 00000000 08:51 24511084 /lib/x86_64-linux-gnu/ld-2.23.so
7f138b3d4000-7f138b4fb000 rw-p 00000000 00:00 0
7f138b510000-7f138b512000 rw-p 00000000 00:00 0
7f138b512000-7f138b513000 r--p 00025000 08:51 24511084 /lib/x86_64-linux-gnu/ld-2.23.so
7f138b513000-7f138b514000 rw-p 00026000 08:51 24511084 /lib/x86_64-linux-gnu/ld-2.23.so
7f138b514000-7f138b515000 rw-p 00000000 00:00 0
7ffe7669a000-7ffe766bc000 rw-p 00000000 00:00 0 [stack]
7ffe7677b000-7ffe7677e000 r--p 00000000 00:00 0 [vvar]
7ffe7677e000-7ffe76780000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
Aborted (core dumped)
`
Hello,
I ran make without any errors but when I try to run I get the error Illegal instruction (core dumped)
. Any ideas on what might be causing this?
A declarative, efficient, and flexible JavaScript library for building user interfaces.
๐ Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. ๐๐๐
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google โค๏ธ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.