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g_lomepro's Issues

Memory corruption with certain groups in index file

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)
`

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