2016.08.24

Could I run some jobs in my specified order?

Yes. You can do it by "Workflow" or "Request Connection Function".
 

Please see the following manual 7.Workflow an 1.2.22. Request Connection Function about how to use.
NQSII User's Guide
 

The different between Workflow and Request Connection Function

The different is the timing of running request. In the case of Workflow, all request become an object for assign immediately after submitting. In the case of Request Connection Function, next request become an object for assign after the previous request finished . Therefore, you should choose the workflow, if system is crowded,.

2016.08.24

What is the different between HPCI account and local account ?

Please see the following manual page.
HPCI Manuals
 

Note

In the following case, we will create same account for HPCI account and local account.
Primary center : Cybermedia Center, Osaka University
HPCI system provider : Cybermedia Center, Osaka University

2016.08.24

Could I specify PATH for MPI slave node in the job script file ?

You can specify for MPI slave node almost all environment value by "#PBS -v option". But you can not specify some environment value on NQSII. Path is one of those. Please see the following manual, the end of 1.16.qsub(1).
NQSII User's Guide
 

You can specify PATH for slave node by the MPI runtime option.

2016.08.24

How could I make the independent random number generation ?

Many PRNG (pseudo random number generator) make random number from the specified random seed. If you specified same random seed, it will generate same random number. If you want to get the independent random number, you have to change random seed each time.

2016.05.06

What limitation is there on the trial use ?

On trial use, you can not use over our ruled Point and 3 month. But there is not what limited besides these. You can use our system like normal use.
 
Please see this page about node hour.
Please see this page about trial use.

2016.02.25

How can I check the congestion information of jobs ?

Users can not check the congestion information of jobs.
 
If the large scale computing system was not crowded, your submitting job will become "ASG" on job scheduler. Therefore, please judge whether congestion or not by "STT" on sstat command.
 
And, if your submitted job keeps “QUE” by any error of your job or any problem of our system, we will report you about it.

2015.11.10

How can I apply adding the resource (Point or Storage).

You can apply adding the resource on the following web-system.
利用者管理システム(要認証)
 
Please see the following page about how to apply.
一般利用(学術利用) 資源追加申請

2015.11.10

Could I use GROMACS on SX-AXE ?

No, you can't use. You can use GROMACS on only VCC.
We have not planed to install to SX-ACE. Thank you for your understanding.

2015.11.10

Could I transfer or share a file among users ?

On our large-scale computing system, You can not use SFTP or SSH, SCP, etc from front-end server.
And also you can not change group and can not share in permission of group.
 
You can use SFTP among front-end server and local server(your terminal). Please transfer a file through your terminal to other user.

2015.09.09

What type of computer systems can I use at the Cybermedia Center?

Please see the following page about our large-scale computer system.

System Introduction

2015.09.07

How can I use the shared library on SX ?

You can't use the shared library(.so:Dynamic Shared Object) on SX. SX supports only static library.
Please use just a object code file or use archiving file(.a: Please change your shared library with "sxar" command).

sxar vr (library name).a (library name).so

2015.07.13

I got the error message "/var/spool/nqsII/jsv/jobfile/0.10989.11/user_script: 実行形式エラー. 間違ったアーキテクチャです." during the runtime of job.

Your job script file's file-format could be BOM(Byte Order Mark) format. Therefore, it is possible that the first line which you indicate to use specific shell is not interpreted. The job script should be non-BOM format.
 

Please check your file using the command below.

% file nqs.sh

 

You can change the file-format by a text-editor like vi. Please submit it again after changing the file-format.
 

We will show an example to edit BOM-format by using vi editor.
 

Open the file by vi, add the option '-b'.

% vi -b nqs.sh

<feff>#!/bin/csh

At the beginning of the first line, <feff>, this is BOM character. Delete these letters and save it.
 

2015.06.17

How do I check MPIPROGINF after performing MPI on SX-ACE?

Please see the following manula section "2.13.6" about the output infomation with MPIPROGINF.
How to use MPI/SX
 

* Note
If you run the hybrid MPI and OpenMP parallel program, these output information in "UserTime" and "SysTime" are CPU times per process. These times will be longer than "RealTime", because these times are additions each CPU times.

2015.05.25

How can I use GROMACS?

Please see the following page.
 
How to use GROMACS

2015.05.25

I got the error message "Request could not be routed.Request deleted." when i submitted a job request.

You might mistake the jobclass submitted.
Please confirm your job-script again. If your job-script is right, please contact us on the following page.
 
Inquiry form

2015.03.12

There isn't the information about the vector subspace in a format list of C++/SX compiler.

In the case of C++/SX's Format List, it print a status letter,"S" or "A" or "I", etc, in the order of descending priorities. Therefore, some letter sometimes are overwrote. About the letter "S", if there are both vectorized part and not un-vectorized part, it isn't printed.
 
Please refer the following manual about a detail.
C++/SX Programmer's Guide

2015.03.12

When I execute "qsub" and "qstat" command, it is printed the error message, "NQSconnect: [BSV ELICENSE] nqscui license was exceeded.".

This error message means that these commands exceeded license number limit already.
 
We have readied a enough number of license. But, in the case that executing these commands are concentrated in same time, it may exceeded license number limit. If you see this message, please inform us.
 
Form for Inquiries

2015.03.04

What will become my submitted job before maintenance or during the maintenance ?

20150304
 
Basically, the job will run correctly. But that action differs depending on your submitted time or your specified elapse-time.

* Please note that your job might not run depending on situation of jobs the other users submitted, in the case of shared use.
 
Please see the following about the detail.
 

If you submitted a job before the maintenance

If Planned End Time of your submitted job exceed the beginning time of the maintenance, your job will not run till the maintenance finished. Planned End Time is calculated from submit-time and elapse-time which you specified elapstim_req at job-script.
 
For example, if you specified "elapstime_req=5:00:00" at your job-script and you submitted your job on 1:00 p.m., Planned End Time become 6:00 p.m.
* Without depending on the above, please note that your job might not run depending on situation of jobs the other users submitted, in the case of shared use.

 

If Planned End Time of your submitted job doesn't exceed the beginning time of the maintenance

Your job will run correctly without waiting the maintenance finished.
 

If Planned End Time of your submitted job exceed the beginning time of the maintenance

As mentioned above, your job will not run till the maintenance finished. The submitted job is received as QUE status, and will run after the maintenance except the maintenance held in the end of the fiscal year. All jobs will be deleted in the maintenance held in the end of the fiscal year. If you re-adjust the elapsed-time (elapstime_req) so as not to exceed the beginning time of maintenance and if re-submit, your job might be run soon. When you are in a hurry, please try it.
 

From before planning the maintenance, if you have ran the job that Planned End Time exceed the beginning time of the maintenance

Maybe this situation will be in the case of dedicated use only. Your job will run correctly till the beginning maintenance. We're afraid that you must stop during the maintenance. If your job corresponds to this situation, we would contact you.

 

If you submit a job during the maintenance

Your job will not run till the maintenance finished. The submitted job is received as QUE status, and will run after the maintenance.
 

If you submit a job after the maintenance

Your job will run correctly.
 

2015.02.13

I can connect to the server with ssh but not with sftp/scp.

Please confirm if you are not invoking other shell in ".cshrc" file.
The sftp-server process need to start from csh. If you are invoking other shell, it can not connect, then it will be timeout. Please delete the command line which invoke other shell in ".cshrc", and try again.

 
If it will not be solved, please contact us from the inquiry form below.

Form for inquiries

2015.02.12

How can I use systems?

We explain about the common basic to use all systems on the following page. Please see.

Basics to use system

2015.02.12

I would like to know the detail of compiler.

This system has different compilers for each resource. Please see the following page about the detail.
 
How to use SQUID How to use OCTOPUS

2015.02.12

Is there any manual to understand error messages?

set queue mapsize sched_time =421200 A256H
Please see the compiler manual.
These are on the following page. Access to these manuals require authentication, user account.

user manual

2015.02.12

Is there any sample program and so on which I can use?

Please see the following page.
How to use SQUID How to use OCTOPUS

2015.02.10

I have forgot my login password. How should I do?

Please apply the "パスワード初期化申請をする" button on the following web site.

the Web application system

2015.02.10

How can I connect to CMC's supercomputer?

Please see the following page about how to connect.
How to login
 

In the case of HPCI user or JHPCN-HPCI user, please see the following page.
How to login(for HPCI user)

2015.02.10

How can I apply for the Cybermedia Center's service?

Please see the following page about the use application.
Service application

2015.02.10

Is there any restriction of purpose and qualification when using large-scale computer systems?

Please refer to the following page about a qualification and rule for CMC service.
Qualification and Rule for CMC Service

2015.02.10

Environmental variable and options specified in my job script are not reflected to my computation.

In your job script, you can set up environmental variable and options using setenv command. However, when you execute parallel job at multiple nodes, they are not reflected to all slave nodes.
 

In this case, please use the NQSII option '-v' in the job script as follows.

#PBS -v [environment variable or options]=[value]

2014.12.18

Please introduce tuning examples on CMC's computer system.

We introduce tuning examples by CMC in cooperation with NEC. Please refer the following pages. Please note that needs authentication by user account.

2009 Tuning report
2013 Tuning report

2014.12.11

Can I use bash?

Yes, you can use it.
A login shell is set to csh by default on SX-ACE and VCC. How to change shell is the following.

$ bash

 
If you want to change login shell from csh to bash, please describe the following in ".cshrc" file on home directory.

exec bash

 
It is necessary to prepare ".bashrc" file by yourself When you set an alias to bash.
 
A login shell is set to bash by default on OCTOPUS.

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