welcome: please sign in

Input

book: Create a structured PDF document with headings, chapters, etc.
webpage: Specifies that the HTML sources are unstructured (plain web pages.) A page break is inserted between each file or URL in the output.
continuous: Specifies that the HTML sources are unstructured (plain web pages.) No page breaks are inserted between each file or URL in the output.
Title of the document for the front page.
Extract the first heading of the document and use it as title. If checked the title field has no effect.
The title image or HTML page. These file has to be an attachments!
Specify document version to be displayed on the title page.
Intellectual property owner of this document.
Copyright notice for this document.
Information about who and when modified the document are applied at the end.

Output

Specifies the output format.
Grayscale document  Title page
Compression :   JPEG big images 

Page

 
User defined page size 		 Choose one of the predefined standard sizes or select user defined.
Specifies the page size using a standard name or in points (no suffix or ##x##pt), inches (##x##in), centimeters (##x##cm), or millimeters (##x##mm).
Set the target browser width in pixels (400-1200). This determines the page scaling of images.
   2-Sided   Landscape
   
   
   
Specifies the margin size using points (no suffix or ##x##pt), inches (##x##in), centimeters (##x##cm), or millimeters (##x##mm). Keep empty for default value.
Left
Middle
Right
Sets the page header to use on body pages.
Left
Middle
Right
Sets the page footer to use on body pages.

Contents

Sets the number of levels in the table-of-contents. Empty for unlimited levels.
   Numbered headings Check to number all of the headings in the document.
Sets the title for the table-of-contents. Empty for default title.
Left
Middle
Right
Sets the page header to use on table-of-contents pages.
Left
Middle
Right
Sets the page footer to use on table-of-contents pages.

Colors

Enter the HTML color for the body (background).
Enter the image file for the body (background). These file has to be an attachments!
Enter the HTML color for the text.
Sets the color of links.
Enables generation of links in PDF files.

Fonts

Set the default size of text.
Set the spacing between lines of text.
Choose the default typeface (font) of text.
Choose the default typeface (font) of headings.
Set the size of header and footer text.
Choose the font for header and footer text.
Change the encoding of the text in document.
Check to embed font in the output file.

PDF

Controls the initial viewing mode for the document.
Document: Displays only the docuemnt pages.
Outline: Display the table-of-contents outline as well as the document pages.
Full-screen: Displays pages on the whole screen; this mode is used primarily for presentations.
Controls the initial layout of document pages on the screen.
Single: Displays a single page at a time.
One column: Displays a single column of pages at a time.
Two column left/right: Display two columns of pages at a time; the first page is displayed in the left or right column as selected.
Choose the initial page that will be shown.

Security

Check to number all of the headings in the document.
 Print   Modify
 Copy   Annotate		 Specifies the document permissions.
Specifies the user password to restrict viewing permissions on this PDF document. Empty for no encryption.
Specifies the owner password to control who can change document permissions etc. If this field is left blank, a random 32-character password is generated so that no one can change the document.

Expert

Specify language to use for date and time format.
Shrink code blocks on page.
Show line numbers for code blocks.
Make spaces visable by dots (·) instead of white spaces.
Make line breaks visable by a extra character (¶) at the end.
Enable this feature if you searching for problems or intent to report a bug report

About

Version 2.4.2 (MoinMoin 1.9.9)


MoinMoin - Generate PDF document using HTMLDOC

This action script generate PDF documents from a Wiki site using
the HTMLDOC (http://www.htmldoc.org) software packages which has
to be preinstalled first.

Copy this script in your's MoinMoin action script plugin directory.

Thanks goes to Pascal Bauermeister who initiated the implementaion.
Lot of things changes since then but the idear using HTMLDOC is the
main concept of this implementation.

Please visit the homepage for further informations:
http://moinmo.in/ActionMarket/PdfAction

@copyright: (C) 2006 Pascal Bauermeister
@copyright: (C) 2006-2010 Raphael Bossek <raphael.bossek@solutions4linux.de>
@license: GNU GPL, see COPYING for details

       

Revision 7 as of 2012-07-18 11:26:14

location: Supercomputing / Userguide

Altamira User's Guide

Contents

  1. Altamira User's Guide
    1. Introduction
    2. System Overview
    3. Connecting to Altamira
      1. Login Node
      2. Transferring Files
    4. File Systems
    5. Running Jobs
    6. Software
    7. Acknowledgment in publications
    8. Getting Help
    9. Appendices
      1. A. SSH

Introduction

This user's guide for the Altamira supercomputer is intended to provide the minimum amount of information needed by a new user of this system. As such, it assumes that the user is familiar with many of the standard aspects of supercomputing as the Unix operating system.

We hope you can find most of the information you need to use our computing resources: from applications and libraries to technical documentation about Altamira. Please read carefully this document and if any doubt arises don't hesitate to contact our support group at <res_support@ifca.unican.es>.

System Overview

Altamira comprises 156 compute nodes, 5 GPU compute nodes, a login server and several service servers. Every compute node has two processors at 2.6 GHz running Scientific Linux 6.2 system with 64 GB of memory RAM and 400 GB local disk storage. All the servers provide a total of 132 TB of disk storage accessible from every compute node through GPFS (Global Parallel File System).

The networks that interconnect the Altamira are:

Connecting to Altamira

Once you have a login and its associated password you can get into Altamira system, connecting to the login node altamira1.ifca.es.

You must use Secure Shell (ssh) tools to login into or transfer file into Altamira. We do not accept incoming connections from protocols as telnet, ftp, rlogin, rcp, or rsh commands. Once you are logged into Altamira you cannot make outgoing connections for security reasons.

To get more information about the secure shell version supported and how to get ssh for your system (including windows systems) see Appendix A.

Here you have an example of logging into Altamira from a UNIX environment: 

user@localsystem:~$ ssh -l usertest altamira1.ifca.es
usertest@altamira1.ifca.es's password: 

/--------------------------------------------------------------\
|                      Welcome to Altamira                     |
|                                                              |
|  - Applications are located at /gpfs/res_apps                |
|  - For futher information read User's Guide at               |
|      http://grid.ifca.es/wiki/Ojancano/Userguide             |
|                                                              |
|   Please contact res_support@ifca.unican.es for questions    |
|                                                              |
\--------------------------------------------------------------/

[usertest@login1 ~]$

The first time that you connect to the Altamira system secure shell needs to interchange some initial information to establish the communication. This information consists of the acceptance of the RSA key of the remote host, you must answer 'yes' or 'no' to confirm the acceptance of this key.

Please change your initial password after you login the first time into the machine. Also use a strong password (do not use a word or phrase from a dictionary and do not use a word that can be obviously tied to your person). Finally, please make a habit of changing your password on a regular basis.

If you cannot get access to the system after following this procedure, first consult Appendix A for an extended information about Secure Shell, or you can contact us, (see Getting Help to know how to contact with us).

Login Node

Once inside the machine you will be presented with a UNIX shell prompt and you'll normally be in your home ($HOME) directory. If you are new to UNIX, you'll have to learn the basics before you could do anything useful.

The machine in which you will be logged in will be the login node of Altamira (login1). This machine act as front end, and it is used typically for editing, compiling, preparation/submition of batch executions and as a gateway for copying data inside or outside Altamira.

It is not permitted the execution of cpu-bound programs on this node, if some compilation needs much more cputime than the permitted, this needs to be done through the batch queue system. It is not possible to connect directly to the compute nodes from the login node, all resource allocation is done by the batch queue system.

Transferring Files

As it have been said before no connections are allowed from inside Altamira to the outside world, so all scp and sftp commands have to be executed from your local machines and not inside Altamira.

Here there are some examples of each of this tools transferring files to Altamira: 

localsystem$ scp localfile usertest@altamira1.ifca.es:
usertest@altamira1.ifca.es's password:

localsystem$ sftp usertest@altamira1.ifca.es
usertest@altamira1.ifca.es's password:
sftp> put localfile
sftp> exit

These are the ways to retrieve files from Altamira to your local machine: 

localsystem$ scp usertest@altamira1.ifca.es:remotefile localdir
usertest@altamira1.ifca.es's password:

localsystem$ sftp usertest@mn1.bsc.es
usertest@altamira1.ifca.es's password:
sftp> get remotefile
sftp> exit

On a Windows system, most of the secure shell clients comes with a tool to make secure copies or secure ftp's. There are several tools that accomplishes the requirements, please refer to the Appendix A, where you will find the most common ones and examples of use.

File Systems

Running Jobs

Software

Acknowledgment in publications

Getting Help

Appendices

A. SSH

SSH is a program that enables secure logins over an insecure network. It encrypts all the data passing both ways, so that if it is intercepted it cannot be read. It also replaces the old an insecure tools like telnet, rlogin, rcp, ftp,etc. SSH is a client-server software. Both machines must have ssh installed for it to work.

We have already installed a ssh server in our machines. You must have installed an ssh client in your local machine. SSH is available without charge for almost all versions of Unix. We recommend the use of OpenSSH client that can be download from http://www.openssh.org, but any client compatible with SSH version 2 can be used.

In windows systems we recommend the use of putty. It is a free SSH client that you can download from http://www.putty.nl/. But you can also, any client compatible with SSH version 2 can be used.

To transfer files to or from Altamira you need a secure ftp (sftp) o secure copy (scp) client. There are several different clients, but as previously mentioned, we recommend the use of putty clients for transferring files: psftp and pscp. You can find it at the same web page as putty ( http://www.putty.nl/ ).

Some other possible tools for users requiring graphical file transfers could be:

For using psftp you need to pass it the machine name (altamira1.ifca.es), and then the username and passwd. Once you are connected, it's like a Unix command line. With command help you will obtain a list of all possible commands. But the most useful are:

get file_name
To transfer from Altamira to your local machine.
put file_name
To transfer a file from your local machine to Altamira.
cd directory
To change remote working directory.
dir
To list contents of a remote directory.
lcd directory
To change local working directory.
!dir
To list contents of a local directory.