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Mesh decomposition using Metis 5.1.0

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Old   September 21, 2017, 09:33
Default Mesh decomposition using Metis 5.1.0
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Ravi
Join Date: May 2014
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I am trying to decompose a graph using gpmetis. My objective is to give weights to each of the partitions such that total mpi communication for each node is as close as possible.

My content of tpwgts file is
0=0.125
1=0.10
2=0.15
3=0.125
4=0.12
5=0.125
6=0.13
7=0.125

My command to execute metis:
metis-5.1.0/bin/gpmetis -tpwgts=tpwgts -contig Partitions 8

When weights are applied using -tpwgts I get the following error, any help is appreciated:

metis-5.1.0/bin/gpmetis -tpwgts=tpwgts -contig Partitions 8
*** Error in `metis-5.1.0/bin/gpmetis': free(): invalid size: 0x000000000177dbd0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x7c619)[0x2b1c72895619]
metis-5.1.0/bin/gpmetis(gk_free+0x2f)[0x40ffff]
metis-5.1.0/bin/gpmetis(libmetis__rpqFree+0x1a)[0x416e8a]
metis-5.1.0/bin/gpmetis(libmetis__rpqDestroy+0x13)[0x416eb3]
metis-5.1.0/bin/gpmetis(libmetis__FM_2WayCutRefine+0x862)[0x431dc2]
metis-5.1.0/bin/gpmetis(libmetis__Refine2Way+0x54)[0x429464]
metis-5.1.0/bin/gpmetis(libmetis__MultilevelBisect+0xb4)[0x4281b4]
metis-5.1.0/bin/gpmetis(libmetis__MlevelRecursiveBisection+0xd5)[0x428875]
metis-5.1.0/bin/gpmetis(libmetis__MlevelRecursiveBisection+0x299)[0x428a39]
metis-5.1.0/bin/gpmetis(METIS_PartGraphRecursive+0x16f)[0x428c0f]
metis-5.1.0/bin/gpmetis(libmetis__InitKWayPartitioning+0x182)[0x41a192]
metis-5.1.0/bin/gpmetis(libmetis__MlevelKWayPartitioning+0x11b)[0x41a2db]
metis-5.1.0/bin/gpmetis(METIS_PartGraphKway+0x1ff)[0x41a5ef]
metis-5.1.0/bin/gpmetis(main+0x3ab)[0x408bab]
/lib64/libc.so.6(__libc_start_main+0xf5)[0x2b1c7283ac05]
metis-5.1.0/bin/gpmetis[0x408d79]
======= Memory map: ========
00400000-00445000 r-xp 00000000 00:29 3459292740 metis-5.1.0/bin/gpmetis
00644000-00648000 rw-p 00044000 00:29 3459292740 metis-5.1.0/bin/gpmetis
01741000-01813000 rw-p 00000000 00:00 0 [heap]
2b1c722f3000-2b1c72314000 r-xp 00000000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72314000-2b1c72317000 rw-p 00000000 00:00 0
2b1c7232d000-2b1c72337000 rw-p 00000000 00:00 0
2b1c72514000-2b1c72515000 r--p 00021000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72515000-2b1c72516000 rw-p 00022000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72516000-2b1c72517000 rw-p 00000000 00:00 0
2b1c72517000-2b1c72618000 r-xp 00000000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72618000-2b1c72817000 ---p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72817000-2b1c72818000 r--p 00100000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72818000-2b1c72819000 rw-p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72819000-2b1c729d1000 r-xp 00000000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c729d1000-2b1c72bd1000 ---p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd1000-2b1c72bd5000 r--p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd5000-2b1c72bd7000 rw-p 001bc000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd7000-2b1c72bdc000 rw-p 00000000 00:00 0
2b1c72bdc000-2b1c72bf1000 r-xp 00000000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72bf1000-2b1c72df0000 ---p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df0000-2b1c72df1000 r--p 00014000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df1000-2b1c72df2000 rw-p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c74000000-2b1c74021000 rw-p 00000000 00:00 0
2b1c74021000-2b1c78000000 ---p 00000000 00:00 0
7ffc1535e000-7ffc1537f000 rw-p 00000000 00:00 0 [stack]
7ffc1539c000-7ffc1539e000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
*** Error in `metis-5.1.0/bin/gpmetis': free(): invalid size: 0x000000000177dbd0 ***
************************************************** ****************************
METIS 5.0 Copyright 1998-13, Regents of the University of Minnesota
(HEAD: , Built on: Jan 16 2017, 05:51:43)
size of idx_t: 64bits, real_t: 32bits, idx_t *: 64bits

Graph Information -----------------------------------------------------------
Name: Partitions, #Vertices: 544, #Edges: 3689, #Parts: 8

Options ---------------------------------------------------------------------
ptype=kway, objtype=cut, ctype=shem, rtype=greedy, iptype=metisrb
dbglvl=0, ufactor=1.030, no2hop=NO, minconn=NO, contig=YES, nooutput=NO
seed=-1, niter=10, ncuts=1
Direct k-way Partitioning ---------------------------------------------------
metis-5.1.0/bin/gpmetis(libmetis__MlevelKWayPartitioning+0x11b)[0x41a2db]
metis-5.1.0/bin/gpmetis(METIS_PartGraphKway+0x1ff)[0x41a5ef]
metis-5.1.0/bin/gpmetis(main+0x3ab)[0x408bab]
/lib64/libc.so.6(__libc_start_main+0xf5)[0x2b1c7283ac05]
metis-5.1.0/bin/gpmetis[0x408d79]
======= Memory map: ========
00400000-00445000 r-xp 00000000 00:29 3459292740 metis-5.1.0/bin/gpmetis
00644000-00648000 rw-p 00044000 00:29 3459292740 metis-5.1.0/bin/gpmetis
01741000-01813000 rw-p 00000000 00:00 0 [heap]
2b1c722f3000-2b1c72314000 r-xp 00000000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72314000-2b1c72316000 rw-p 00000000 00:00 0
2b1c72317000-2b1c72318000 rw-p 00000000 00:00 0
2b1c7232d000-2b1c72337000 rw-p 00000000 00:00 0
2b1c72514000-2b1c72515000 r--p 00021000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72515000-2b1c72516000 rw-p 00022000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72516000-2b1c72517000 rw-p 00000000 00:00 0
2b1c72517000-2b1c72618000 r-xp 00000000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72618000-2b1c72817000 ---p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72817000-2b1c72818000 r--p 00100000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72818000-2b1c72819000 rw-p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72819000-2b1c729d1000 r-xp 00000000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c729d1000-2b1c72bd1000 ---p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd1000-2b1c72bd5000 r--p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd5000-2b1c72bd7000 rw-p 001bc000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd7000-2b1c72bdc000 rw-p 00000000 00:00 0
2b1c72bdc000-2b1c72bf1000 r-xp 00000000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72bf1000-2b1c72df0000 ---p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df0000-2b1c72df1000 r--p 00014000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df1000-2b1c72df2000 rw-p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c74000000-2b1c74021000 rw-p 00000000 00:00 0
2b1c74021000-2b1c78000000 ---p 00000000 00:00 0
7ffc1535e000-7ffc1537f000 rw-p 00000000 00:00 0 [stack]
7ffc1539c000-7ffc1539e000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
*** Error in `metis-5.1.0/bin/gpmetis': free(): invalid size: 0x000000000177d9d0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x7c619)[0x2b1c72895619]
metis-5.1.0/bin/gpmetis(gk_gkmcorePop+0x36)[0x42a186]
metis-5.1.0/bin/gpmetis(gk_malloc_cleanup+0x2e)[0x40ff8e]
metis-5.1.0/bin/gpmetis(METIS_PartGraphKway+0x8f)[0x41a47f]
metis-5.1.0/bin/gpmetis(main+0x3ab)[0x408bab]
/lib64/libc.so.6(__libc_start_main+0xf5)[0x2b1c7283ac05]
metis-5.1.0/bin/gpmetis[0x408d79]
======= Memory map: ========
00400000-00445000 r-xp 00000000 00:29 3459292740 metis-5.1.0/bin/gpmetis
00644000-00648000 rw-p 00044000 00:29 3459292740 metis-5.1.0/bin/gpmetis
01741000-01813000 rw-p 00000000 00:00 0 [heap]
2b1c722f3000-2b1c72314000 r-xp 00000000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72314000-2b1c72317000 rw-p 00000000 00:00 0
2b1c7232d000-2b1c72337000 rw-p 00000000 00:00 0
2b1c72514000-2b1c72515000 r--p 00021000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72515000-2b1c72516000 rw-p 00022000 08:06 271410 /usr/lib64/ld-2.17.so
2b1c72516000-2b1c72517000 rw-p 00000000 00:00 0
2b1c72517000-2b1c72618000 r-xp 00000000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72618000-2b1c72817000 ---p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72817000-2b1c72818000 r--p 00100000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72818000-2b1c72819000 rw-p 00101000 08:06 271512 /usr/lib64/libm-2.17.so
2b1c72819000-2b1c729d1000 r-xp 00000000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c729d1000-2b1c72bd1000 ---p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd1000-2b1c72bd5000 r--p 001b8000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd5000-2b1c72bd7000 rw-p 001bc000 08:06 271227 /usr/lib64/libc-2.17.so
2b1c72bd7000-2b1c72bdc000 rw-p 00000000 00:00 0
2b1c72bdc000-2b1c72bf1000 r-xp 00000000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72bf1000-2b1c72df0000 ---p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df0000-2b1c72df1000 r--p 00014000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c72df1000-2b1c72df2000 rw-p 00015000 08:06 271278 /usr/lib64/libgcc_s-4.8.5-20150702.so.1
2b1c74000000-2b1c74021000 rw-p 00000000 00:00 0
2b1c74021000-2b1c78000000 ---p 00000000 00:00 0
7ffc1535e000-7ffc1537f000 rw-p 00000000 00:00 0 [stack]
7ffc1539c000-7ffc1539e000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
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