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--- cluster:192 [2020/02/26 15:05]
hmeij07 [EXX96]
+++ cluster:192 [2022/03/08 13:29] (current)
hmeij07 [Recipe]
@@ Line 4: / Line 4: @@
 ===== EXX96 =====
-A page for me on how these 12 nodes were build up after they arrived. To make them "ala n37" which was the test node in redoing our K20 nodes, see [[cluster:172|K20 Redo]]
+A page for me on how these 12 nodes were build up after they arrived. To make them "ala n37" which was the test node in redoing our K20 nodes, see [[cluster:172|K20 Redo]] and [[cluster:173|K20 Redo Usage]]
-Page best followed bottom to top.
+Page best followed bottom to top if interested in the whole process.
+The Usage section below is HPCC users wnatig to use queue ''exx96''.
+Debug for node n89 which turns itself off...grrhhh. Create a usb bootable stick with https://rufus.ie/ then unzip BIOS and firmware zip files located in ''n89:/usr/local/src''
+<code>
+[root@n89 ~]# ipmitool sel elist
+| 02/29/2020 | 16:57:33 | Memory #0xd1 | Uncorrectable ECC | Asserted
+| 03/02/2020 | 03:02:42 | Processor CPU_CATERR | IERR | Asserted
+| 03/11/2020 | 19:27:35 | Processor CPU_CATERR | IERR | Asserted
+...[snip]...
+[root@n89 ~]# ipmitool sdr elist
+CPU1 Temperature | 31h | ok  |  3.0 | 43 degrees C
+CPU2 Temperature | 32h | ok  |  0.0 | 40 degrees C
+PSU1 Over Temp   | 92h | ok  |  0.0 | Transition to OK
+PSU2 Over Temp   | 9Ah | ok  |  0.0 | Transition to OK
+...[snip]...
+DIMMM1_Temp      | E4h | ok  |  3.0 | 28 degrees C
+CPU1_ECC1        | D1h | ok  |  0.0 | Presence Detected
+CPU2_ECC1        | D3h | ok  |  0.0 | Presence Detected
+...[snip]...
+PMBPower1        | E1h | ok  |  3.0 | 88 Watts
+PMBPower2        | E2h | ok  |  3.0 | 112 Watts
+...[snip]...
+FRNT_FAN1        | A2h | ok  |  0.0 | 3100 RPM
+../.[snip]...
+PSU1 Slow FAN1   | 95h | ok  |  0.0 | Transition to OK
+PSU2 Slow FAN1   | 9Dh | ok  |  0.0 | Transition to OK
+...[snip]...
+[root@n89 ~]#dmidecode -t0
+# dmidecode 3.2
+Getting SMBIOS data from sysfs.
+SMBIOS 3.2 present.
+Handle 0x0000, DMI type 0, 26 bytes
+BIOS Information
+        Vendor: American Megatrends Inc.
+        Version: 5102
+        Release Date: 02/11/2019
+        Address: 0xF0000
+        Runtime Size: 64 kB
+        ROM Size: 32 MB
+        Characteristics:
+...[snip]...
+                UEFI is supported
+        BIOS Revision: 5.14
+[root@n89 ~]# edac-util -s -v
+edac-util: EDAC drivers are loaded. 4 MCs detected:
+  mc0:Skylake Socket#0 IMC#0
+  mc1:Skylake Socket#0 IMC#1
+  mc2:Skylake Socket#1 IMC#0
+  mc3:Skylake Socket#1 IMC#1
+[root@n89 ~]# edac-util
+edac-util: No errors to report.
+syslog
+</code>
 ==== Usage ====
@@ Line 16: / Line 79: @@
 The wrappers provided assume your cpu:gpu ratio is 1:1 hence in your submit code you will have ''#BSUB -n 1'' and in your resource allocation line ''gpu4=1''.  If your ratio is something else you can set CPU_GPU_REQUEST. For example CPU_GPU_REQUEST=4:2 expects the lines ''#BSUB -n 4'' and ''gpu4=2'' in your submit script. Sample script at ''/home/hmeij/k20redo/run.rtx''
-The wrappers (78.mpich3.wrapper for ''n78'', and n37.openmpi.wrapper for all others) are located in ''/usr/local/bin'' and will set up your environment and start either of these applications: amber, lammps, gromacs, matlab and namd from ''/usr/local''.
+The wrappers (n78.mpich3.wrapper for ''n78'', and n37.openmpi.wrapper for all others) are located in ''/usr/local/bin'' and will set up your environment and start either of these applications: amber, lammps, gromacs, matlab and namd from ''/usr/local''.
@@ Line 78: / Line 141: @@
 #/usr/bin/nvidia-smi --gom=0
-# for amber16 -pm=ENABLED -c=EXCLUSIVE_PROCESS
+# for amber16 -pm=1/ENABLED -c=1/EXCLUSIVE_PROCESS
 #nvidia-smi --persistence-mode=1
 #nvidia-smi --compute-mode=1
-# for mwgpu/exx96 -pm=ENABLED -c=DEFAULT
+# for mwgpu/exx96 -pm=1/ENABLED -c=0/DEFAULT
-nvidia-smi --persistence-mode=1
+# note: turned this off, running with defaults
-nvidia-smi --compute-mode=0
+# seems stable, maybe persistence later on
+# lets see how docker interacts first...
+#nvidia-smi --persistence-mode=1
+#nvidia-smi --compute-mode=0
 # turn ECC off (memory scrubbing)
@@ Line 130: / Line 196: @@
 systemctl restart network
 dig google.com
+#centos7
 yum install -y iptables-services
 vi /etc/sysconfig/iptables
@@ Line 151: / Line 218: @@
 # add packages and update
 yum install epel-release -y
+yum install flex flex-devel bison bison-devel -y
 yum install tcl tcl-devel dmtcp -y
+yum install net-snmp net-snmp-libs net-agent-libs net-tools net-snmp-utils -y
 yum install freeglut-devel libXi-devel libXmu-devel \ make mesa-libGLU-devel -y
 yum install blas blas-devel lapack lapack-devel boost boost-devel -y
@@ Line 159: / Line 228: @@
 yum install cmake cmake-devel -y
 yum install libjpeg libjpeg-devel libjpeg-turbo-devel -y
+# amber
+yum -y install tcsh make \
+               gcc gcc-gfortran gcc-c++ \
+               which flex bison patch bc \
+               libXt-devel libXext-devel \
+               perl perl-ExtUtils-MakeMaker util-linux wget \
+               bzip2 bzip2-devel zlib-devel tar
 yum update -y
 yum clean all
@@ Line 230: / Line 306: @@
 nvcr.io/nvidia/rapidsai/rapidsai   0.9-cuda10.0-runtime-centos7   22b5dc2f7e84        5 months ago        5.84GB
-# free -g
+free -m
               total        used        free      shared  buff/cache   available
-Mem:             92           2          88           0           1          89
+Mem:          95056        1919       85338          20        7798       92571
+Swap:         10239           0       10239
 # nvidia-smi

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