From owner-bio-srs@hgmp.mrc.ac.uk  Tue Jun 11 10:35:38 2002
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To: bionet-software-srs@moderators.isc.org
Message-ID: <3D04EAC0.E045F13@tugraz.at>
From: Stocker Gernot <gernot.stocker@tugraz.at>
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Subject: Re: OpenPBS or PBSPro
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Bent Terp wrote:
> 
> Hi!
> 
> Has anybody had success with adding either OpenPBS or PBSPro as batch
> queue systems for SRS?
> 
> If there is a ready-made icarus file out there, I don't want to spend
> a lot of time writing one.... ;-)

I tried to integrate PBS into SRS and it works for us on a
Beowulf-Cluster very well. If you are interested in the adaptions send
me an email. 

Gernot
--
Gernot Stocker,
Institute of Biomedical Engineering, Graz University of Technology
Krenngasse 37, 8010 Graz, Austria
Tel.: ++43 316 873 5345
http://genome.tugraz.at


From owner-bio-srs@hgmp.mrc.ac.uk  Wed Jun 12 16:40:58 2002
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To: bionet-software-srs@net.bio.net
From: hcwang@science.uottawa.ca (Huaichun Wang)
Newsgroups: bionet.software.srs
Subject: database cross-reference
Organization: University of Ottawa
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Sir,
for each protein sequence entry in swall, there is a database
cross-reference to EMBL entries (the line begining with
"DR   EMBL;". My question is when there are several
cross-refered EMBL entries for one swissprot entry, what
is the difference between these entries; Do the nucleotide entries
have the same sequences?

For example, when I used SRS to search for TAP1_HUMAN in swall, I got
a protein sequence entry. There are 10 EMBL entries cross-refered
to this protein. They are:
DR   EMBL; X66401; CAA47025.1; -.
DR   EMBL; X57521; CAA40740.1; -.
DR   EMBL; X57522; CAA40741.1; ALT_INIT.
DR   EMBL; L21204; AAC12902.1; -.
DR   EMBL; L21205; AAC12903.1; -.
DR   EMBL; L21206; AAC12904.1; -.
DR   EMBL; L21207; AAC12905.1; -.
DR   EMBL; L21208; AAC12906.1; -.
DR   EMBL; X87344; CAA60785.1; -.
DR   EMBL; S70274; AAD14056.1; -.

What are the same and difference among these 10 EMBL entries?
Thanks for advice.
Huaichun

---


From owner-bio-srs@hgmp.mrc.ac.uk  Wed Jun 12 16:41:15 2002
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To: bionet-software-srs@moderators.isc.org
From: Guy Bottu <gbottu@ben.vub.ac.be>
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Subject: side effect of BIGENTRY_ID
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	Dear colleagues,

Have you already noted in your SRS server ? The introduction of
'idType:$BIGENTRY_ID' has had some side effect. When you select one or more
sequence databanks that use $BIGENTRY_ID as well as one or more sequence
databanks that just use the default $ENTRY_ID, the Query Forms show no
fields. 
What to do about it ? Maybe use systematically everywhere $BIGENTRY_ID ;
this seems not to be toxic.

	Sincely,
	Guy Bottu


From owner-bio-srs@hgmp.mrc.ac.uk  Wed Jun 12 16:41:28 2002
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To: bionet-software-srs@net.bio.net
From: willy.valdivia@ndsu.nodak.edu ("Willy Valdivia Granda")
Newsgroups: bionet.software.srs
Subject: Second Virtual Conference on Genomics and Bioinformatics
Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre
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Second Virtual Conference on Genomics and Bioinformatics

Sharing Knowledge with the World (No registration fees)
September 24-26, 2002
http://www.ndsu.nodak.edu/virtual-genomics/upcom2.htm

Deadline: June 30, 2002 for abstracts

Deadline: August 15, 2002 for complete documents

Speakers List
http://www.ndsu.nodak.edu/virtual-genomics/program.htm

Review Committee List
http://www.ndsu.nodak.edu/virtual-genomics/reviewpanel.htm

Remote Locations: (if you are interested in host the VCGB-II) Please let us
know

CINECA Bologna-Italy (Access Grid)
http://www.ndsu.nodak.edu/virtual-genomics/CINECARegistration.htm

Marshall University(Real Player)
http://www.ndsu.nodak.edu/virtual-genomics/MarshallRegistration.htm

Oklahoma State University (Real Player)
http://www.ndsu.nodak.edu/virtual-genomics/OklahomaRegistration.htm

University of Kentucky
http://www.ndsu.nodak.edu/virtual-genomics/KentuckyRegistration.htm

Boston University
http://www.ndsu.nodak.edu/virtual-genomics/BostonRegistration.htm

The "Virtual Conference on Genomics and Bioinformatics" is an advanced
environment for the exchange and discussion of information related to
innovations of the post-genomic era. Since genomic research has led to an
explosive rate of data accumulation and to a shift in the way biological
research is conducted, the conference features high profile researchers and
educators working actively in the development of new applications in the
areas of genomics and bioinformatics. While genomic technologies offer an
enormous scientific potential to understand genome functions, structure and
interaction, the increasing amount of data generated present new challenges
for biologists, sociologists, mathematicians, computer scientists and
biological modelers. Therefore the main goals of the Virtual Conference in
Genomics and Bioinformatics are:

1) Transcend geographical and economical barriers to the exchange of ideas
that facilitates the interaction and collaboration among scientists and
educators around the world.

2) Address the benefits and limitations of the newest developments in
post-genomic technologies.

3) Explore the social and ethical implications of genomic and bioinformatic
research

4) Establish new ways to introduce high school community about today's
multidisciplinary science.


Topics of the Virtual Conference includes but not limited to:

. Structural and Functional Genomics

. Post-Genomic Data Standardization, Management, and Integration

. Statistical and Computational Approaches for Gene Expression Analysis

. Sequence Annotation

. Metabolic Profiling and Simulation of Cellular Processes

. Social and Ethical Implications of Genomic Research

. High Throughput Computing and Distributed Memory Infrastructures


Willy Valdivia Granda
Plant Stress Genomics and Bioinformatics Group
North Dakota State University
PO BOX 5130
Fargo, USA
701 231-8440 (Lab)
701 231 8255 (Fax)
www.ndsu.edu/virtual-genomics

---


From owner-bio-srs@hgmp.mrc.ac.uk  Fri Jun 14 11:23:59 2002
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To: bionet-software-srs@moderators.isc.org
From: "Terminator" <provaadindovinare@activenetwork.it>
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Subject: Mulinux
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Mulinux has plenty of advantages: it is a full-configurable, minimalistic
(it can be stored
in a few floppy disks), has plenty of utilities (Internet connection,
browser, client) and
can be configured according to one's needs. It is based on the GNU Linux
system, and this
means that everyone can browse the Internet (especially the FTP of GNU
Linux), download
those parts of the operative system he is in need of, and expand it as much
as he wants.
Especially in the Third World, millions of old 386 and 486 old PC's can
easily be
reconverted and work with a modern level of performances.

In today's world there are hundreds of millions of persons who cannot afford
to buy a
last-generation PC, and all those persons could nevertheless benefit very
much from browsing
the Internet. All of them can now reconvert their old computers, connect
themselves to the
World Wide Web and download from it was is necessary in order to expand
their operative
system, a system which is a adaption of Linux.

MuLinux already has some functions which make it similar to Unix. By a
carful work, a
series of MuLinux-based PC's can be converted into a local network or into a
small Intranet.

Those unique features makes MuLinux an operative system which not only can
be used in order
to reconvert old PC's, but also a system which must be ready at hand in the
eveneventuality
of sudden global or local catastrophes. By doing so, non-professional users
can have at
their disposal an operative system which occupies a very limited space of
memory, and which
can easily be expanded or modified.

Now it can easily be downloaded from the site
http://members.xoom.virgilio.it/ozma/mulinux

I hope you have understood the importance of MuLinux in all of its
implication, and am
consequently asking you to forward this message to all of your contacts.

                                                            -----------o----
------

Mulinux a des capacités exceptionnelles d'adaptation, réduit espace de
mémoire occupé
(c'est ' sur peu de disques souples), pleins
options Internet, navigation dans les sitest WEB, gestion   du courrier
électronique, etc.
etc.), de potentialité de développement   (il utilise systèmes de Gnu Linux
et permet à
quiconque d'aller sur Internet, en particulier dans le FTPs de Gnu Linux,
prendre libre les
morceaux de système opérationnel que ont préféré, permettra de pour
reconvertir million et
millions des vieux ordinateurs (surtout dans le Troisième Monde), comme le
pc 386 et 486, à
un niveau moderne suffisamment perfectionee.
Il y a dans le monde centaines de million de personnes qui n'ont pas
l'occasion être
capable d'acheter un ordinateur moderne, et come ca, ils tireraient grand
avantages du
rapport à Internet; pour ces personnes et ' aujourd'hui possible reconvertir
leurs vieux
ordinateurs et être connecté au filet telematica global, et d'ici prendre il
sert combien à
lui pour étendre leur système opérationnel qui et ' un sous-produit de
Linux.
MuLinux contient déjà des fonctions semblable à Unix, un travail prudent,
peuvent permettre
de transformer une série de vieux ordinateurs (basé sur le système MuLinux
opérationnel)
dans serveur suivi dans un receau local ou dans un petit Internet.
Cette souplesse incroyable de MuLinux fait un système de lui pas seul
recommandé pour la
reconversion de vieux ordinateurs, mais aussi de tendre prêt dans cas de
catastrophes (local
ou mondial) pour pouvoir fournir aux ordinateurs impromptus et peu capables
un système
opérationnel simple, peu volumineux comme espace de mémoire, dilatable et
modifiable.
On peut vous aider aujourdhui l'emplacement gratuitement
http://members.xoom.virgilio.it/ozma/mulinux   .

                                                            -----------o----
-------

Mulinux e le sue eccezionali capacita' di adattabilita', ridotto spazio di
memoria occupato
(sta' su pochi floppy disk), di opzioni disponibili (accesso a Internet,
navigazione nei
siti web, gestione della posta elettronica, ecc. ecc.), di potenzialita' di
sviluppo
(utilizza sistemi di Linux GNU, consentendo quindi a chiunque di andare su
Internet, in
particolare negli FTP di Linux GNU, a prendere gratis i pezzi di sistema
operativo
preferiti, per espanderlo a piacere)  puo' permettere di riconvertire gratis
milioni e
milioni di vecchi computer (soprattutto nel Terzo Mondo), come i pc 386 e
486, ad un livello
sufficentemente moderno.

Ci sono nel mondo centinaia di milioni di persone che non hanno modo di
potersi comprare un
computer ultimo modello, ma trarrebbero grandi benefici dal collegamento ad
Internet; per
queste persone e' oggi possibile riconvertire vecchi computer e connettersi
alla rete
telematica globale, e da qui prendere quanto gli serve per espandere il loro
sistema
operativo, che e' un derivato di Linux.

MuLinux contiene gia' delle funzioni simili a Unix, un lavoro attento puo'
consentire di
trasformare una serie di vecchi computer (basati sul sistema operativo
MuLinux) in server
collegato in una rete locale o in una piccola Intranet.

Questa incredibile versatilita' di MuLinux ne fa' un sistema non solo
consigliato per la
riconversione di vecchi computer, ma anche da tenere pronto in casi di
catastrofi (locali o
mondiali) per poter fornire ad elaboratori improvvisati e poco capaci di un
sistema
operativo semplice, poco ingombrante come spazio di memoria, espandibile e
modificabile.

Da oggi potete scaricarvelo gratis dal sito
http://members.xoom.virgilio.it/ozma/mulinux






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To: bionet-software-srs@moderators.isc.org
From: elpwang@ntu.edu.sg (Lipo Wang)
Newsgroups: bionet.software.gcg,bionet.software.srs,bionet.software.staden
Subject: Final Call for Papers: ICONIP'02-SEAL'02-FSKD'02
Organization: http://groups.google.com/
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[We have so far received about 600 submissions, not including
    about 30 special sessions currently being organized. 
    Due to numerous requests, especially from participants 
    to some major conferences held in May 2002, we are pleased 
    to revise the submission deadline as below.]

----------------------------------------------------------------------
    9th International Conference on Neural Information Processing 
                         (ICONIP'02)
    4th Asia-Pacific Conference on Simulated Evolution And Learning 
                          (SEAL'02)
   International Conference on Fuzzy Systems and Knowledge Discovery 
                          (FSKD'02)
----------------------------------------------------------------------
        November 18 - 22, 2002, Orchid Country Club, Singapore

           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
             Home Page: http://www.ntu.edu.sg/home/nef
           Mirror Page: http://www.cic.unb.br/~weigang/nef
           ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

          *** (NEW!) Submission Deadline: June 30, 2002 ***

                         Organized by:
           School of Electrical and Electronic Engineering
             Nanyang Technological University, Singapore

                         Sponsored by:
               Asia-Pacific Neural Network Assembly
                 SEAL & FSKD Steering Committees
                Singapore Neuroscience Association

                      In Co-Operation with:
                   IEEE Neural Network Society
               International Neural Network Society 
                  European Neural Network Society 
                            SPIE 

                         Supported by:
                        Lee Foundation
                       US AOARD, ARO-FE
            Singapore Exhibition & Convention Bureau 
                    Novartis Pharmaceuticals

            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
            FINAL CALL FOR PAPERS, SPONSORSHIPS, AND 
                   SPECIAL SESSION PROPOSALS
            ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

ICONIP'02, SEAL'02, and FSKD'02 will be jointly held in Orchid Country
Club, Singapore from November 18 to 22, 2002. The conferences will not
only feature the most up-to-date research results in natural and arti-
ficial neural systems, evolutionary computation, fuzzy systems, and 
knowledge discovery, but also promote cross-fertilization over these 
exciting and yet closely-related areas. Registration to any one of the 
conferences will entitle a participant to the technical sessions and 
the proceedings of all three conferences, as well as the conference 
banquet, buffet lunches, and tours to two of the major attractions in 
Singapore, i.e., Night Safari and Sentosa Resort Island. Many well-
known researchers will present keynote speeches, panel discussions, 
invited lectures, and tutorials.

About Singapore
---------------
Located at one of the most important crossroads of the world, 
Singapore is truly a place where East and West come together. Here you 
will find Chinese, Indian, and Malay communities living together, 
their long established cultures forming a unique backdrop to a clean 
and modern garden city. English is spoken everywhere and is the common 
business language of all. Few places on earth promise such a delight 
for the palate, with gourmet cuisine from over 30 countries. Exotic 
resorts in neighboring countries are only a short bus/ferry ride away.

Orchid Country Club (OCC)
-------------------------
The venue for this year's conferences is at one of Singapore's 
premier country clubs, a 25-minute bus ride from the city. Away from 
the hustle and bustle of downtown Singapore, the tranquil setting of 
the resort is ideal for serious technical discussions with an 
accommodating space and ambience for relaxation. Not to miss out on 
the splendor of downtown Singapore, the organizer has also secured 
good quality and affordable accommodation in the heart of the city 
with pre-arranged transport to/from the OCC. For golf enthusiasts, 
OCC is equipped with the largest computerized driving range in South 
East Asia and boasts of a 27-hole golf course with facilities for 
night golfing, ideal for relaxation after each day of technical 
discussions. Visit the OCC website at http://www.orchidclub.com

Night Safari and Sentosa Resort Island 
--------------------------------------
It is said that a visit to Singapore is not complete without making 
a trip to two of the Republic's famous attractions. The only one of 
its kind in the world, the Night Safari provides a setting for 
visitors to experience what it is like to observe animals in their 
nocturnal habitat. The island of Sentosa offers some unique 
attractions and a visit there will also provide a glimpse and 
imagery of Singapore's past and present. Visits to these two 
attractions will be included as recreation for the joint conference.
(Websites: http://www.zoo.com.sg/safari/, http://www.sentosa.com.sg)

Topics of Interest 
------------------
The joint conferences welcomes paper submissions from researchers, 
practitioners, and students worldwide in but not limited to the 
following areas.

   ICONIP'02:
   ~~~~~~~~~
   ARTIFICIAL NEURAL MODELS - Learning algorithms, Neural modeling and 
       architectures, Neurodynamics
   NATURAL NEURAL SYSTEMS - Neuroscience, Neurobiology, Neuro-
       physiology, Brain imaging, Learning and memory
   COGNITIVE SCIENCE - Perception, emotion, and cognition, Selective 
       attention, Vision and auditory models
   HARDWARD IMPLEMENTATION - Artificial retina & cochlear chips
   HYBRID SYSTEMS - Neuro-fuzzy systems, Evolutionary neural nets, etc
   APPLICATIONS - Bioinformatics, Finance, Manufacturing, etc.

   SEAL'02:
   ~~~~~~~
   THEORY - Co-evolution, Coding methods, Collective behavior
   METHODOLOGY - Evolution strategies, Genetic algorithms, Genetic 
       programming, Molecular and quantum computing, Evolvable 
       hardware, Multi-objective optimization, Ant colony, Artificial 
       ecology
   EVOLUTIONARY LEARNING - Artificial life, Bayesian evolutionary 
       algorithms
   HYBRID SYSTEMS - Evolutionary neuro-fuzzy systems, Soft computing
   APPLICATIONS - Scheduling, Operations research, Design, etc

   FSKD'02:
   ~~~~~~~
   THEORY AND FOUNDATIONS - Fuzzy theory and models, Uncertainty 
       management, Statistical & probabilistic data mining, Computing 
       with words, Rough sets, Intelligent agents
   METHODS AND ALGORITHMS - Classification, Clustering, Information 
       retrieval &  fusion, Data warehousing & OLAP, Fuzzy hardware,
       Visualization, Decision trees, Data preprocessing
   HYBRID SYSTEMS - Evolutionary neuro-fuzzy systems, Soft computing
   APPLICATIONS - Control, Optimization, Natural language processing,
       Forecasting, Human-computer interaction, etc.

Special Sessions
----------------
The conferences will feature special sessions on specialized topics 
to encourage in-depth discussions. To propose a special session, 
please follow the instructions on the conference web page.  

Sponsorship / Exhibition
------------------------
The conferences will offer product vendors a sponsorship package 
and/or an opportunity to interact with conference participants. 
Product demonstration and exhibition can also be arranged. For more 
information, please visit the conference web page.  

Keynote Speakers 
----------------
Shun-ichi Amari, RIKEN Brain Science Institute, Japan
David Fogel, Natural Selection, Inc., USA
Mitsuo Kawato, ATR, Japan
Xin Yao, The University of Birmingham, UK
Lotfi A. Zadeh, University of California, USA

Panel Discussions:
------------------
"Future Challenges in Soft Computing: Theory? Cmputational Paradigms? 
 Applications?" 
    Organized by Jacek M. Zurada
"Oh sure, my method is connectionist too. Who said it's not?" 
    Organized by Asim Roy 

Registration
------------
The registration fee for regular participants before August 15, 2002
is S$680 (approximately US$370 as at February 6, 2002), which includes
the proceedings, lunches, banquet, and tours.

Submission of Papers 
--------------------
Authors are invited to submit electronic files (postscript, pdf or 
Word format) through the conference home page. Papers should be 
double-column and use 10 pt Times Roman or similar fonts. The final
version of a paper should not exceed 5 pages in length. A selected 
number of accepted papers will be expanded and revised for possible 
inclusion in edited books and peer-reviewed journals, such as 
"Soft Computing" and "Knowledge and Information Systems: An 
International Journal" by Springer-Verlag.

Honorary Conference Chairs
--------------------------
	Shun-ichi Amari, Japan
	Hans-Paul Schwefel, Germany
	Lotfi A. Zadeh, USA

International Advisory Board
----------------------------
	Sung-Yang Bang, Korea 
	Meng Hwa Er, Singapore  
	David B. Fogel, USA  
	Toshio Fukuda, Japan  
	A. Galushkin, Russia
	Tom Gedeon, Australia  
	Zhenya He, China  
	Mo Jamshidi, USA
	Nikola Kasabov, New Zealand  
	Sun-Yuan Kung, USA  
	Tong Heng Lee, Singapore  
	Erkki Oja, Finland 
	Nikhil R. Pal, India 
	Enrique H. Ruspini,USA 
	Harcharan Singh, Singapore  
	Ah Chung Tsoi, Australia  
	Shiro Usui, Toyohashi, Japan
	Lei Xu, China  
	Benjamin W. Wah, USA  
	Donald C. Wunsch II, USA
	Xindong Wu, USA 
	Youshou Wu, China 
	Yixin Zhong, China  
	Jacek M. Zurada, USA

Advisor
-------
	Alex C. Kot, Singapore

General Chair
-------------
	Lipo Wang, Singapore

Program Co-Chairs
-----------------
	ICONIP'02: 	
		Kunihiko Fukushima, Japan
		Soo-Young Lee, Korea
		Jagath C. Rajapakse, Singapore
	SEAL'02: 	
		Takeshi Furuhashi, Japan
		Jong-Hwan Kim, Korea
		Kay Chen Tan, Singapore
	FSKD'02: 	
		Saman Halgamuge, Australia
	Special Sessions:    
		Xin Yao, UK

Finance Chair
-------------
	Charoensak Charayaphan, Singapore

Local Arrangement Chair
-----------------------
	Meng Hiot Lim, Singapore

Proceedings Chair
-----------------
	Farook Sattar, Singapore

Publicity Co-Chairs
-------------------
	Hepu Deng, Australia
	Chunru Wan, Singapore
	Li Weigang, Brazil
	Zili Zhang, Australia

Sponsorship/Exhibition Chair
----------------------------
	Tong Seng Quah, Singapore

Tutorial Chair
--------------
	P. N. Suganthan, Singapore

Support Team Leader
-------------------
	Sophia Kuo, Singapore

Conference Secretariat 
----------------------
	ICONIP'02-SEAL'02-FSKD'02 Secretariat
	Conference Management Center/CCE, NTU
	Administration Annex Building #04-06
	42 Nanyang Avenue, Singapore 639815
	Phone: +65 6790 6372
	Fax:   +65 6793 0997


