{"id":1401,"date":"2020-05-06T02:38:46","date_gmt":"2020-05-05T17:38:46","guid":{"rendered":"https:\/\/wp.study3.biz\/?p=1401"},"modified":"2020-05-06T02:56:16","modified_gmt":"2020-05-05T17:56:16","slug":"cpu%e6%af%8e%e3%81%aenamd-2-12-stmv-1066628-atoms%e3%82%92%e3%83%99%e3%83%b3%e3%83%81%e3%83%9e%e3%83%bc%e3%82%af%e3%81%97%e3%81%a6%e3%81%bf%e3%81%9f","status":"publish","type":"post","link":"https:\/\/wp.study3.biz\/?p=1401","title":{"rendered":"CPU\u6bce\u306eNAMD 2.12 stmv 1,066,628 atoms\u3092\u30d9\u30f3\u30c1\u30de\u30fc\u30af\u3057\u3066\u307f\u305f"},"content":{"rendered":"

\u53c2\u8003\u30b5\u30a4\u30c8<\/a><\/p>\n

[chibi@rhel8 ~]$ cat \/etc\/redhat-release
\nRed Hat Enterprise Linux release 8.2 Beta (Ootpa)
\n[chibi@rhel8 ~]$ nvcc -V
\nnvcc: NVIDIA (R) Cuda compiler driver
\nCopyright (c) 2005-2019 NVIDIA Corporation
\nBuilt on Wed_Oct_23_19:24:38_PDT_2019
\nCuda compilation tools, release 10.2, V10.2.89
\n[chibi@rhel8 ~]$ sudo nvidia-docker run -it –rm nvcr.io\/hpc\/namd:2.12-171025 \/opt\/namd\/namd-multicore-memopt +p40 +setcpuaffinity +idlepoll \/workspace\/examples\/stmv\/stmv_pmecuda.namd
\n[sudo] chibi \u306e\u30d1\u30b9\u30ef\u30fc\u30c9:
\nCharm++: standalone mode (not using charmrun)
\nCharm++> Running in Multicore mode: 40 threads
\nCharm++> Using recursive bisection (scheme 3) for topology aware partitions
\nConverse\/Charm++ Commit ID: v6.8.2
\nWarning> Randomization of virtual memory (ASLR) is turned on in the kernel, thread migration may not work! Run ‘echo 0 > \/proc\/sys\/kernel\/randomize_va_space’ as root to disable it, or try running with ‘+isomalloc_sync’.
\nCharmLB> Load balancer assumes all CPUs are same.
\nCharm++> cpu affinity enabled.
\nCharm++> Running on 1 unique compute nodes (48-way SMP).
\nCharm++> cpu topology info is gathered in 0.002 seconds.
\nInfo: Built with CUDA version 9000
\nDid not find +devices i,j,k,… argument, using all
\nPe 23 physical rank 23 will use CUDA device of pe 32
\nPe 22 physical rank 22 will use CUDA device of pe 32
\nPe 15 physical rank 15 will use CUDA device of pe 16
\nPe 39 physical rank 39 will use CUDA device of pe 32
\nPe 13 physical rank 13 will use CUDA device of pe 16
\nPe 14 physical rank 14 will use CUDA device of pe 16
\nPe 38 physical rank 38 will use CUDA device of pe 32
\nPe 36 physical rank 36 will use CUDA device of pe 32
\nPe 12 physical rank 12 will use CUDA device of pe 16
\nPe 37 physical rank 37 will use CUDA device of pe 32
\nPe 10 physical rank 10 will use CUDA device of pe 16
\nPe 4 physical rank 4 will use CUDA device of pe 16
\nPe 28 physical rank 28 will use CUDA device of pe 32
\nPe 34 physical rank 34 will use CUDA device of pe 32
\nPe 5 physical rank 5 will use CUDA device of pe 16
\nPe 29 physical rank 29 will use CUDA device of pe 32
\nPe 3 physical rank 3 will use CUDA device of pe 16
\nPe 27 physical rank 27 will use CUDA device of pe 32
\nPe 24 physical rank 24 will use CUDA device of pe 32
\nPe 0 physical rank 0 will use CUDA device of pe 16
\nPe 17 physical rank 17 will use CUDA device of pe 16
\nPe 21 physical rank 21 will use CUDA device of pe 32
\nPe 19 physical rank 19 will use CUDA device of pe 16
\nPe 35 physical rank 35 will use CUDA device of pe 32
\nPe 11 physical rank 11 will use CUDA device of pe 16
\nPe 8 physical rank 8 will use CUDA device of pe 16
\nPe 7 physical rank 7 will use CUDA device of pe 16
\nPe 31 physical rank 31 will use CUDA device of pe 32
\nPe 33 physical rank 33 will use CUDA device of pe 32
\nPe 9 physical rank 9 will use CUDA device of pe 16
\nPe 2 physical rank 2 will use CUDA device of pe 16
\nPe 26 physical rank 26 will use CUDA device of pe 32
\nPe 20 physical rank 20 will use CUDA device of pe 32
\nPe 18 physical rank 18 will use CUDA device of pe 16
\nPe 25 physical rank 25 will use CUDA device of pe 32
\nPe 1 physical rank 1 will use CUDA device of pe 16
\nPe 30 physical rank 30 will use CUDA device of pe 32
\nPe 6 physical rank 6 will use CUDA device of pe 16
\nPe 16 physical rank 16 binding to CUDA device 0 on 10a85f94b259: ‘TITAN RTX’ Mem: 24219MB Rev: 7.5
\nPe 32 physical rank 32 binding to CUDA device 1 on 10a85f94b259: ‘TITAN RTX’ Mem: 24220MB Rev: 7.5<\/p>\n

\u2190days\/ns, Less Is Better<\/p>\n

\"\"<\/p>\n","protected":false},"excerpt":{"rendered":"

\u53c2\u8003\u30b5\u30a4\u30c8 [chibi@rhel8 ~]$ cat \/etc\/redhat-release Red Hat Enterprise Linux release 8.2 Beta (Ootpa) [chibi@rhel8 … \u7d9a\u304d\u3092\u8aad\u3080 →<\/span><\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_feature_clip_id":0,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_post_was_ever_published":false},"categories":[18,22],"tags":[],"class_list":["post-1401","post","type-post","status-publish","format-standard","hentry","category-nvidia","category-rhel8"],"jetpack_featured_media_url":"","jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/posts\/1401","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=1401"}],"version-history":[{"count":7,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/posts\/1401\/revisions"}],"predecessor-version":[{"id":1886,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=\/wp\/v2\/posts\/1401\/revisions\/1886"}],"wp:attachment":[{"href":"https:\/\/wp.study3.biz\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=1401"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=1401"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/wp.study3.biz\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=1401"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}