From owner-www@net.bio.net Sun Oct 02 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Contribution: A WWW server meta index (by Fredj Tekaia, Inst. Pasteur) Message-ID: <1994Oct3.070206.18668@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Sun, 2 Oct 1994 20:50:02 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 319 Molecular Bioloy and BioInformations

Molecular Biology and BioInformations WWW sampler

This Molecular Biology and BioInformations-WWW sampler was assembled to allow users quick access to interesting WWW services without searching through hundreds of HyperMedia links. To access any link just "point and click" for xmosaic users or "point and select" for lynx users. Suggestions to include URLs of interest are welcome.

Fredj Tekaia tekaia@pasteur.fr. 

Molecular Biology related Servers



	




Biomedical Servers

	



Other Servers

	



Collection of databases

	





Protein Structure and 3D Modeling
 (see also Documents)
	





On-line sequence analysis and search tools

	





Documents/Bibliographies/Informations Search



	



Recreation

	



Fredj Tekaia tekaia@pasteur.fr
From owner-www@net.bio.net Sun Oct 02 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Bioinformatics - definition Message-ID: <1994Oct2.204735.8080@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Sun, 2 Oct 1994 20:47:35 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 29 [ Article crossposted from bionet.molbio.genbank ] [ Author was Don Gilbert ] [ Posted on Fri, 30 Sep 1994 12:44:41 GMT ] Here is a new place to search for this definition: gopher to ftp.bio.indiana.edu, select Network-News/Bionet News at IUBio archive search for Bioinformatics - definition or gopher://ftp.bio.indiana.edu:70/77/.indices/netnews?Bioinformatics+definition --> 8. (6) Re: Re: bioinformatics definition 9. (7) BIOSCU@CAM Re: bioinformatics definition 10. (8) BIOSCU@CAM Re: bioinformatics definition 11. (9) ouzounis@e Re: Re: bioinformatics definition 12. (10) doelz@comp Re: Re: bioinformatics definition 13. (11) Re: Re: bioinformatics definition 14. (12) prm@aber.a Re: Re: bioinformatics definition 15. (13) Re: Re: bioinformatics definition -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Sun Oct 02 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (Florian Eggenberger) Subject: ANNOUNCEMENT: WWW Introduction for Biologists Message-ID: <1994Oct3.070906.18953@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 3 Oct 1994 07:09:06 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 163 Biocomputing, Basel University Teleteaching 1994, 2nd Course ANNOUNCEMENT: WWW INTRODUCTION ============================== This is an announcement of a series of postings starting October 10, 1994, on the newsgroup bionet.software.www in order to provide an introduction to the WorldWideWeb (WWW) project. The goal is to answer the very basic questions as what is the World-Wide Web, what is available on the Web, what software is required to access the Web, and how to get and install the software. It is, in this course, not intended to guide people who want to provide information to the Web. A separate course/topic discussion early next year will be targeted to information providers, however,this requires that the client software is properly preinstalled, as the Web will be used for explanations. Details on that series will be announced in early 1995. The postings of this second teleteaching '94 project "WWW introduction" are aimed to biologists who have access to the Internet and are interested in obtaining and setting up the programs needed to access the Web.Previous experience with network retrieval tools are not essential but knowledge in the use of FTP is advantageous. Anyone who is interested in receiving these introductionary postings but cannot read the newsgroup bionet.software.www can subscribe to the BIOSCI email service as described in the appendix. The newsgroup bionet.software.www is also accessible in a marked-up ar- chive at EMBnet Switzerland which might be of interest to those who did already successfully implement a suitable browser. This WWW introduction course will be based on the updated version of the WWW introduction teleteaching project which was contributed by our site by myself in January 1994. Florian Eggenberger EMBnet Switzerland ACKNOWLEDGEMENTS ---------------- EMBnet Switzerland is a project funded by the University of Basel, the Swiss National Science Foundation, and industrial contributions from Di- gital Equipment and Silicon Graphics (in alphabetical order). Information on services for Switzerland available by email from: info@ch.embnet.org APPENDIX -=-=-=-= The BIO-WWW/bionet.software.www Newsgroup +++++++++++++++++++++++++++++++++++++++++ Availability on the network (specifically, World Wide Web): *********************************************************** bionet.software.www is archived, as all bionet newgroups, at the net.bio.net FTP site, and available to be used like any other bionet newsgroup (see explanations below). The bionet.software.www newsgroup, additionally, keys contributions in 'html' documents so that links are readily resolved in the 'hypertext' system, and may point to the contribution of the originator, or the subject of the message, respectively. This server runs at the Biocomputing Faci- lity of Basel University. The following is the Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Tue, 4 Oct 1994 06:52:49 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 33 [ Article crossposted from bionet.general ] [ Author was Sarah C. Shroder ] [ Posted on Mon, 3 Oct 94 19:06:12 GMT ] In article <3699ae$bok@mojo.eng.umd.edu>, jbiafra@glue.umd.edu (David G. Kitaguchi) writes: > Does anyone know how I can get access to OMIM? > Thanks, > Joel Shapiro if you have access to the world wide web you can get to OMIM via URL: http://gdbwww.gdb.org/omimdoc/omimtop.html You might be interested in the Genome Database (GDB) at URL: http://gdbwww.gdb.org/ OR depending on you interests, you may be interested in the Mouse Genome Database (MGD) at URL: http://www.informatics.jax.org/ There are so many databases out there dealing with genetics and most have hypertext connections to each other so it is easy to move from one to another without having to know where they are located in the world. Ithink that the world wide web is easier to use than gopher, but it depends on what you're used to I guess. I hope this is of help... -- Sarah C. Shroder -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Tue Oct 04 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: ANNOUNCE: Entomology WWW page Message-ID: <1994Oct4.065042.27187@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Tue, 4 Oct 1994 06:50:42 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 29 [ Article crossposted from bionet.announce ] [ Author was David Lampe ] [ Posted on 3 Oct 1994 20:12:32 -0700 ] The Entomology Department at the University of Illinois at Urbana-Champaign would like to announce its new World Wide Web home page at http://www.life.uiuc.edu/Entomology/home.html. Here you'll find information on all aspects of the department, our faculty, and the University of Illinois in general. For your artistic taste, we offer a series of over 20 insect drawings done 50-60 years ago for teaching purposes here at Illinois that cover most of the common insect orders and some specific insect families and species (we hope to make all of these interactive in the near future). So if you've ever wondered what a bean weevil or a tree cricket really looks like, stop on by!! David Lampe Dept. Entomology University of Illinois Urbana, Illinois 61801 USA d-lampe@uiuc.edu http://www.life.uiuc.edu/Entomology/Dave/davel.html -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Tue Oct 04 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: MEDICAL NOBEL PRIZE LAUREATES 1994: Preannouncement Message-ID: <1994Oct3.173410.9081@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Distribution: bionet Date: Mon, 3 Oct 1994 17:34:10 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 40 [ Article crossposted from bionet.general ] [ Author was bjorn.vennstrom@postmac.cmb.ki.se ] [ Posted on 3 Oct 1994 17:12:36 +0100 ] October 3, 1994 The Medical Nobel Assembly Karolinska Institute S-171 77 Stockholm PREANNOUNCEMENT The Nobel Assembly at the Karolinska Institute will announce the Award of the 1994 Nobel Prize in Physiology of Medicine on bioforum.sys, bionet.announce and WWW ( http://www.mednobel.ki/nobel/announcement.html ) at 11:30 local time on Monday October 10. The announcement will contain an abbreviated form of the official press release and a short CV of the laureate(s). Nils Ringertz Professor, Secretary of the Nobel Assembly nils.ringertz@cmb.ki.se phone +46 8 728 7800 *************************************************************************** This posting was done by Bjorn Vennstrom at the request of Prof. Ringertz *************************************************************************** -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Wed Oct 05 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: MEDICAL NOBEL PRIZE LAUREATES 1994: WWW Correction Message-ID: <1994Oct5.165416.21975@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 5 Oct 1994 16:54:16 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 44 [ Article crossposted from bionet.announce ] [ Author was bjorn.vennstrom@POSTMAC.CMB.KI.SE ] [ Posted on 5 Oct 1994 08:06:03 -0700 ] *** Please note the correct WWW address below *** October 4, 1994 The Medical Nobel Assembly Karolinska Institute S-171 77 Stockholm PREANNOUNCEMENT The Nobel Assembly at the Karolinska Institute will announce the Award of the 1994 Nobel Prize in Physiology of Medicine on BIOFORUM/bionet.general, BIONEWS/bionet.announce and WWW ( http://www.mednobel.ki.se/nobel/announcement.html ) at 11:30 local time on Monday October 10. The announcement will contain an abbreviated form of the official press release and a short CV of the laureate(s). Nils Ringertz Professor, Secretary of the Nobel Assembly nils.ringertz@cmb.ki.se phone +46 8 728 7800 *************************************************************************** This posting was done by Bjorn Vennstrom at the request of Prof. Ringertz I apologize for the incorrect http in the previous posting /bv *************************************************************************** -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Sat Oct 08 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: proposed Link: BITMED Server Message-ID: <1994Oct7.144901.4140@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 6 Oct 1994 16:17:51 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 140 Welcome to BITMed
Welcome to the BITMed Simulation Server at the University of California, San Diego. This server is unique in that the WWW hypertext is interleafed with true complex systems simulations of biological, chemical and physical systems. We are presently building several virtual environments for the rational design of clinical trials and wetlab experiments. Our current simulators are invaluable tools for the teaching of neuroimmunology and HIV-induced disease to students at both the highschool and university levels. We also support a number of conferences.

Check here to see if you have the necessary software to use this server.

Topics of Interest

BITMed Research Overview

A synopsis of the laboratory's general mission as well as the Directory of BITMed Members.

News at BITMed

A summary of current work being conducted at the BITMed laboratories in addition to a List of upcoming events

AIDS Research

Predicting the interaction dynamics of HIV quasi-species and physiological control systems such as the immune, endocrine, and nervous systems. Sections include
Overview
HIV and the Cytokine Network
In vivo, In silico Interactions
The humanized SCID mouse Simulator

CMV Retinitis Image Library

A project involving image reconstruction, simulation, and network-based collaboration.

The Cybermouse Project

A collection of random field simulators for analyzing tissue samples of the murine animal model.

The Virtual Wetlab

An environment for discussion, simulation, shared analysis, and the teaching of biomedicine.

Random Fields & Cellular Automata

Background information on random fields with sample cellular automata simulators.

BITMed Library

BITMed publications, slides, press releases, and access to BITMed's FTP site. We also added a small number of links on how to write hypertext.

Conferences

Information concerning conferences on virtual reality, bioinformatics, AIDS, and other topics relating to BITMed.

Simulator Index

Index to all simulation software packages currently accessible through BITMed's WWW server including the interactive online simulators run on the CDM-DS.

Leave comments.

Add your name to the BITMed mailing list.

(c) Copyright 1994 BITMed. All rights reserved.

Last updated on September 29, 1994 by hhalkin@ucsd.edu From owner-www@net.bio.net Sun Oct 09 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (Florian Eggenberger) Subject: WWW Introduction: Parts 1 and 2 Message-ID: <1994Oct10.083050.7205@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 10 Oct 1994 08:30:50 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 111 WWW INTRODUCTION October 1994 ================ PART 1: Overview ---------------- This is an overview of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. PART 2: What is the World-Wide Web PART 3: What is available on the Web PART 4: How to get to World-Wide Web PART 5: Overview of WWW client software PART 6: Installing Cello on Windows 3.1 PART 7: Installing MacWeb on System 7 PART 8: Installing NCSA Mosaic for Windows PART 9: Installing NCSA Mosaic for the Macintosh PART 10: Installing DosLynx for MS-DOS PART 11: Installing Lynx on UNIX PART 12: Installing Lynx on VMS PART 13: Installing NCSA Mosaic for X PART 14: What are URLs PART 15: Exploring the Web PART 16: What is HTML PART 17: Customizing WWW PART 18: Glossary Florian Eggenberger EMBnet Switzerland ACKNOWLEDGEMENTS ---------------- EMBnet Switzerland is a project funded by the University of Basel, the Swiss National Science Foundation, and industrial contributions from Digital Equipment and Silicon Graphics (in alphabetical order). WWW INTRODUCTION October 1994 ================ PART 2: What is the World-Wide Web ---------------------------------- This is the second part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. The Internet is growing at an explosive rate. There are now over two million registered computers on the net which make available a huge amount of information to the community. The sheer volume of these data could be daunting to a user if there were no network-information retrieval tools to facilitate the data access. Amongst the many different network tools that have been developed over the last few years are the interactive information delivery systems Gopher and the World-Wide Web (WWW, W3). These network tools are based on the client-server model: the user runs a client program locally that can communicate with a server program running somewhere on a remote computer. The client sends a request for information to the server (using a standardized format called protocol), the server handles the request and then sends the desired information back to the client. The Gopher project was developed at the University of Minnesota and has now evolved into a powerful system for offering information across the Internet. The information retrieved is usually text based. To the user, Gopher presents as a series of nested menus, resembling the organization of a file system. The World-Wide Web has been described as a "wide-area hypermedia information retrieval initiative aiming to give universal access to a large universe of documents". It was invented at the European Centre of Particle Physics (CERN), Switzerland. Basically, WWW and Gopher are similar: both systems allow the user to browse information across the Internet without the necessity to login. However, WWW is much more powerful and flexible than Gopher. Whereas a Gopher menu is a list of items pointing to a directory or a file, WWW documents are written in hypertext (text that contains links to other text) and, provided that the user runs a graphical interface, can take full advantage of text formatting and illustration. The Web consists of virtual documents that contain links to other documents, images, sounds or even movies. To follow such a link, the user simply selects the appropriate anchor via mouse or keyboard which causes the object to be retrieved and presented to the user, no matter where on the Internet that object is. The WWW world is growing very fast. There are already more than 3000 WWW servers on the Internet making available a wealth of information, not accessible by other network tools. Moreover, WWW provides a single consistent user-interface to access information of other services such as Gopher, FTP, and News. Not surprisingly, the programs (called WWW clients) that allow to access these data are in use at thousands of sites on the Internet today. An overview of currently available WWW client software will be given in part 5 of this series of postings. Florian Eggenberger EMBnet Switzerland -- +------------------------------+--------------------------------+ | F. Eggenberger, Ph.D. | eggenber@comp.bioz.unibas.ch | | Biocomputing | eggenberger1@ubaclu.unibas.ch | | University of Basel | Fax +41 / 61 267 20 78 | | Switzerland | Tel +41 / 61 267 22 47 | +------------------------------+--------------------------------+ From owner-www@net.bio.net Sun Oct 09 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Fredj Tekaia Subject: GCG version 8 What's New Message-ID: <941010143712@www.ma.is.chbs> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 10 Oct 1994 14:37:12 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 8 I suggest the following document : GCG version 8 What's New It is in the following URL : http://www2.pasteur.fr/~tekaia/gcg.8.new.html i Sent by: the WWW suggestion program @EMBnet Switzerland (info@ch.embnet.org) Signed: Fredj Tekaia Date: Oct 10 1994 at 14:37:12 GMT. From owner-www@net.bio.net Mon Oct 10 23:00:00 1994 Newsgroups: bionet.software,bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: RE: WWW setup, again [Re: mosaic] Message-ID: <1994Oct10.151705.17375@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [BASEL] Date: Mon, 10 Oct 1994 15:17:05 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 27 Xref: biosci bionet.software:9614 bionet.software.www:60 The newsgroup is archived at net.bio.net, and in hypertext form at http://www.ch.embnet.org/bio-www/info.html - excerpt from the announcement (around Aug 20, 1994) [...] PLEASE NOTE that many USENET sites do not allow automatic creation of new USENET groups!!! If you do not see bionet.software.www in your newsreader within another day or two, ask your news system administrator to act on our "newgroup" message to enable the group at your site. We have already done several tests and are certain that the group is currently propagating around the network. If he/she can not find the newsgroup message, have them retrieve the bionet checkgroups message from the anonymous FTP area on net.bio.net in pub/BIOSCI/doc/bionet-checkgroups-msg. This file contains the latest list of bionet USENET newsgroups and can be used to update your bionet distribution. If the newgroup did not arrive at your site, it may also be necessary for your news administrator to contact the upstream computer site providing you with your newsfeed and determine if they acted on the newgroup message. [...] -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Tue Oct 11 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Texas A&M University Plant Diversity Information Center WWW Home Page Message-ID: <1994Oct12.060617.11207@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 12 Oct 1994 06:06:17 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 61 [ Article crossposted from bionet.announce,comp.infosystems.announce ] [ Author was Leland Ellis ] [ Posted on 11 Oct 1994 13:48:02 -0700 ] A new experimental biodiversity WWW site, "Texas Plant Diversity", is now available via the Home Page of the Texas A&M University Plant Diversity Information Center (PDIC), at this URL: http://straylight.tamu.edu/tamu/pdic.html This informatics resource is an effort by Texas A&M University faculty to explore problems associated with data presentation from differing sources of information. The site includes searchable data resources derived from collections (TAMU Herbarium), broad-based floristic/taxonomic data resources (The Checklist of the Vascular Plants of Texas), and available information on critical/endangered taxa (Texas Organization of Endangered Species). The Texas A&M PDIC is a collaborative effort by the: W.M. Keck Center for Genome Informatics (Leland Ellis) Department of Biology (Hugh Wilson) Department of Rangeland Ecology and Management (Stephan Hatch) Texas Organization for Endangered Species (TOES) Comments and suggestions are most welcome to: leland@straylight.tamu.edu h-wilson@tamu.edu -- ******************************************************************** Leland Ellis, Ph.D. /^\___/^\ Professor of Biochemistry and Biophysics { } Director, W.M. Keck Center for Genome Informatics { 0 0 } Institute of Biosciences and Technology { * } Texas A&M University { - } 2121 Holcombe { } Houston, Texas 77030 Misty Maggoo ******************************************************************** email: leland@straylight.tamu.edu URL: http://straylight.tamu.edu/straylight.html ******************************************************************** "We all live in the world as we imagine it, as we create it." Andrey Tarkovsky, 'Sculpting in Time -- Reflections on the Cinema' ******************************************************************** -- R.Doelz Klingelbergstr.70| Tel. x41 61 267 2247 Fax x41 61 267 2078| Biocomputing CH 4056 Basel| electronic Mail doelz@ubaclu.unibas.ch| Biozentrum der Universitaet Basel|-------------- Switzerland ---------------| EMBnet Switzerland:info@ch.embnet.org From owner-www@net.bio.net Tue Oct 11 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Bill Schmidt Subject: Announce BMERC Gopher/WWW Servers Message-ID: <1994Oct12.060514.11130@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 12 Oct 1994 06:05:14 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 100 [ Article crossposted from bionet.announce ] [ Posted on 11 Oct 1994 13:48:11 -0700 ] The BioMolecular Engineering Research Center & Molecular Biology Computer Research Resource at Boston University (collectively referred to here as BMERC) announces the availability of its Gopher and World Wide Web (WWW) servers. * The URL for the BMERC WWW server Home Page is: http://bmerc-www.bu.edu/ * The gopher server can be accessed at the address given immediately below. NOTE that the gopher can be accessed BOTH through gopher and through a link provided on the BMERC WWW server Home Page. bmerc-gopher.bu.edu ---------------------------------------------------------------- The BMERC research objectives are summarized immediately below, and the tools and interfaces described below which are available through the BMERC gopher/WWW servers either support, or result from, the Center's work. * To develop statistical and other computational approaches which will detect syntactic and semantic patterns in DNA, RNA, and protein sequences. * To use statistical/computational approaches to identify the structure, function, and regulation associated with such patterns. The component tools and interfaces, described below, are in an early stage of development. We will continue to expand and develop these tools/interfaces based on our own experiences with them, and by actively soliciting and incorporating feedback from our collaborators, user community, and beta test sites. SOFTWARE DISTRIBUTION --------------------- Through its FTP site, accessible through its gopher/WWW servers, BMERC distributes, free of charge as part of its dissemination program, software that it develops in meeting the objectives listed above, as well as non-commerical software developed by others, datafiles, and support information. In particular, the PLSearch database of homologous protein family patterns, and the associated search-and-discovery software, is available. PROTEIN STRUCTURE/HOMOLOG DATABASE ---------------------------------- The gopher/WWW servers provide access to ProLink, a locally-developed integrated database of protein structure, sequence homolog, and functional pattern information installed in a relational format under Sybase. The current data is derived from the Brookhaven Protein Data Bank (proteins of known structure), Protein Family Pattern Database (also known as the Plsearch Database), Enzyme Nomenclature Database, Protein Core Structures Database (currently under development here at BMERC), and includes homolog links to the BLOCKS database, GenPept, SWISS-PROT and Medline. It also has indirect links to Prosite, OMIM and GDB databases. Currently, ProLink can be searched using the gopher/WWW SQL query library, a set of prepackaged SQL queries. In the near future, access to ProLink will be greatly expanded by increasing the size of the SQL query library, and by implementing the WWW server's mosaic-based forms interface. In the latter approach, a user is able to specify a wide range of search parameters, thereby permitting the user to tailor a search to his/her specific interests. E-MAIL SERVER ------------- Also coming available is an email server which analyzes an input amino acid sequence to determine the probable tertiary structural class of the protein and the probable secondary structure for each of the residues. A short description of the calculations being performed, references, and instructions for accessing the email server are available through the gopher/WWW servers. -- From owner-www@net.bio.net Wed Oct 12 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: L.H.Bell@dl.ac.uk (L. H. Bell) Subject: Announcing SEQNET WWW Server Message-ID: <1994Oct13.091104.19382@comp.bioz.unibas.ch> Keywords: SEQNET_WWW_server Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: SERC Daresbury Lab, Warrington, U.K. Date: Wed, 12 Oct 1994 15:34:12 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 41 SEQNET, the U.K. academic communities SEQuence NETwork computer for molecular biologists and the U.K. node of EMBnet announces the availability of its World Wide Web (WWW) server. The SEQNET URL is http://www.dl.ac.uk/SEQNET/home.html or SEQNET, U.K. molecular biology site and U.K. node of EMBnet. There now follows a brief description of SEQNET

Description

The SEQNET node at Daresbury offers access to all major molecular biology sequence and structure databases. There are two full time molecular biology posts and it currently serves over 2100 users. The central node has a distributed structure based on a front-end Silicon Graphics 4D Crimson (144Mb memory, 50Gb disc storage) to which are attached two IRIX Indigos, a DECsystem 5100, and two DEC Alphas as back-end servers. There is also a MasPar for running fast, exhaustive sequence comparisons based on the Smith-Waterman algorithm. All major software packages are provided (e.g. GCG, Serratus, Staden, Pearson, Blast, Phylip) plus a host of other utilities, particularly for protein analyses. Network services include gopher, Internet NEWS, anonymous ftp and distribution of the EMBnet and BIOSCI bulletin boards. The system is connected to the major nation and international networks. SEQNET provides a range of training courses, both one and three-day colloquia and seminars are given regularly. SEQNET is government funded via the Biotechnology and Biological Sciences Research Council.
From owner-www@net.bio.net Thu Oct 13 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: F.Slager@PObox.ruu.nl (Felix Slager) Subject: [Q] ImageMapping Message-ID: Summary: I'm looking for imagemapping software for Win3 and/or Macintosh Keywords: ImageMapping software Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: ACCU Date: Thu, 13 Oct 1994 23:48:32 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 12 Hi there, I'm looking for imagemapping software in order to make 'hot spots' in .gif images. I'm trying to make some decent HTML pages for a hypertext journal concerned with neurophysiological and psychonomic research results and would like to ad this feature. Could someone please help me finding the tools with which I can make images active in a graphical hypertext browser like Mosaic or Cello? Thanx in advance... Please send any reply to F.Slager@pobox.ruu.nl From owner-www@net.bio.net Thu Oct 13 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: " (Ulysses Bernardet)" Subject: [Q] IRC Message-ID: <1994Oct14.032732.13682@rzu-news.unizh.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Zurich, Switzerland Date: Fri, 14 Oct 1994 03:27:32 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 3 Hi, my Q: Does anyone know if there's a way to IRC in the web? From owner-www@net.bio.net Sun Oct 16 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: proctor@stimpy.yorvic.york.ac.uk (Glenn Proctor) Subject: Re: [Q] ImageMapping Message-ID: <6625.9410171140@gps.leeds.ac.uk> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of York Protein Structure Research Group Date: Mon, 17 Oct 1994 12:40:40 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 60 In-reply-to: F.Slager@PObox.ruu.nl's message of Thu, 13 Oct 1994 23:48:32 GMT Date: Mon, 17 Oct 1994 12:40:34 +0100 (BST) References: In article F.Slager@PObox.ruu.nl (Felix Slager) writes: >Hi there, >I'm looking for imagemapping software in order to make 'hot spots' in .gif >images. I'm trying to make some decent HTML pages for a hypertext journal >concerned with neurophysiological and psychonomic research results and >would like to ad this feature. > >Could someone please help me finding the tools with which I can make >images active in a graphical hypertext browser like Mosaic or Cello? > >Thanx in advance... >Please send any reply to F.Slager@pobox.ruu.nl > I use the program mapedit by Thomas Boutell. It allows you to interactively create rectangles, circles and polygons on your .gif image, specify which URL they correspond to, set a default URL etc. It runs under X and is fairly user friendly - certainly better than writing the configuration files by hand! You can ftp mapedit from several places; try looking in src.doc.ic.ac.uk in the directory /computing/information-systems/WWW/mapedit there are several pre-compiled binaries there, as well as the source that you can build yourself. I know there are other programs out there that allow you to do this, but mapedit was the first one I came across and suits me just fine. Hope this helps Glenn. -- ----------------------------------------------------------------------------- Glenn Proctor Protein Structure Research Group Voice: +44 (0) 904 432573 Internet: proctor@yorvic.york.ac.uk Fax: +44 (0) 904 432519 WWW: http://www.yorvic.york.ac.uk/~proctor/ York University Protein Structure Research Group, Heslington, York, England. ----------------------------------------------------------------------------- From owner-www@net.bio.net Sun Oct 16 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (Florian Eggenberger) Subject: WWW Introduction: Parts 3 and 4 Message-ID: <1994Oct17.080405.14521@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 17 Oct 1994 08:04:05 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 187 WWW INTRODUCTION October 1994 ================ PART 3: What is available on the Web ------------------------------------ This is the third part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. The rules that computers must follow to exchange messages are defined in protocols. Most network retrieval systems use their own protocol with limited access to other protocols. In contrast, the HTTP protocol used by WWW servers and clients allows communication with other systems including Gopher, WAIS and FTP. Thus, WWW clients provide access to anything at: * WWW sites (>3000) * Gopher sites (>1000) * WAIS sites (>100) * anonymous FTP sites (>1000) * Usenet News, etc. This feature makes the WWW system one of the most comprehensive network retrieval tools. Moreover, WWW clients are easy to use and - depending on the user's operating system - are available as character-based or graphical user interface. An overview of currently available browser software will be given in part 5 of this series of postings. The vast array of information available on the Web covers almost any field of interest. However, as these data are widely dispersed over the Internet, finding specific information is usually a difficult task. To solve this problem, a number of people have begun to catalogue the data into lists organized by subject, provider, or access method. These so-called virtual libraries help to reduce the material to browse and often allow searches with queries. Sources of interest for biologists include: * Abstracts of articles in press * Addresses of biologists * Archives and extracts of print journals * Biological software * Guides and tutorials * Job offers * Journal indexes and databases * Molecular biology databases * Newspapers, newsletters, and discussion groups * Peer-reviewed electronic journals A comprehensive list of locations of biological information archives can be found in Una Smith's "A Biologist's Guide to Internet Resources". Services that provide on-line help to find useful information available on the Web include the Meta-Index of NCSA, CERN's Virtual Library, the Nova-Links created by Rob Kabacoff, and Joel's Hierarchical Subject Index. Keith Robinson at Harvard University maintains a list of WWW servers providing information of interest for biologists. These on-line services are accessible by any WWW client. Written in hypertext they provide a convenient and quick route to everything on the Web. A number of other sites provide similar services using Gopher servers. These sites are accessible by WWW clients as well but lack the hypertext functionality of WWW. Biology-relevant Gopher sites include Don Gilbert's IUBio service, Rob Harper's Finnish EMBnet BioBox, and Reinhard Doelz's list of the European Biology Gopher tree. A list of some WWW starting points for an exploration of Web resources that might be useful for biologists will be given in part 15 of this series of postings. Florian Eggenberger EMBnet Switzerland REFERENCES ---------- Smith, Una R. (1993) A Biologist's Guide to Internet Resources. Usenet sci.answers. Available on the Web. For a free copy via email, send the text "send pub/usenet/sci.answers/biology/guide/*" to the email address mail- server@rtfm.mit.edu. OTHER USEFUL REFERENCES MAY BE FOUND THEREIN OR ON THE WEB. WWW INTRODUCTION October 1994 ================ PART 4: How to get to the World-Wide Web ---------------------------------------- This is the fourth part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. To access the information provided by a WWW site you need a program (called WWW client or browser) that allows communication with the WWW server. The browser may either be installed locally or on a remote computer. If you are directly connected to the Internet it is recommended that you install the client software locally. The disadvantage of accessing the Web by a remotely running client is the lack of full functionality and poorer performance compared to a locally running client. However, remotely running WWW clients allow you to try out what WWW looks like before installing a browser yourself. Sites that let you access the Web by remote login are: IN ORDER TO AVOID UNNECESSARY NETWORK TRAFFIC, PLEASE TRY OUT BROWSERS ONLY IF THEY ARE CLOSE TO YOUR LOCATION. ******************** ***** US SITES ***** ******************** The University of Kansas: (supported terminal types are vt100 and xterm) 1) enter the command you need to open a "telnet" session 2) connect to "ukanaix.cc.ukans.edu" 3) at the login prompt enter "kufacts" 4) use the arrow keys to select an item of interest 5) press to follow the link 6) for help press "?", enter "q" to quit The Carnegie Mellon University, Pittsburgh (supported terminal types are vt100 and xterm) 1) enter the command you need to open a "telnet" session 2) connect to "toad.pc.cc.cmu.edu" 3) at the password prompt press 4) at the login prompt enter "lynx" 5) use the arrow keys to select an item of interest 6) press to follow the link 7) for help press "?", enter "q" to quit ************************** ***** EUROPEAN SITES ***** ************************** The Finnish University and Research Network (FUNET): (supported terminal types are vt100 and xterm) 1) enter the command you need to open a "telnet" session 2) connect to "info.funet.fi" 3) at the login prompt enter "www" 4) select "www" as service 5) enter your terminal type 6) select "lynx" as interface 7) use the arrow keys to select an item of interest 8) press to follow the link 9) for help press "?", enter "q" to quit The European Centre for Particle Physics (CERN), Switzerland: 1) enter the command you need to open a "telnet" session 2) connect to "info.cern.ch" 3) enter a number to follow the corresponding link 4) enter "Help" for help, or "Quit" to quit The Swiss Federal Institute of Technology (ETH), Switzerland (supported terminal types are vt100 and xterm) 1) enter the command you need to open a "telnet" session 2) connect to "ezinfo.ethz.ch" 3) login as "GAST" 4) select "OTHERS" as service 5) select "lynx" as interface 6) use the arrow keys to select an item of interest 7) press to follow the link 8) for help press "?" 9) to quit enter "q" then "EXIT" and "LOGOUT" Both CERNS's LineMode browser and the full-screen browser Lynx are available as C source code and in executable form for several platforms. An overview of features of currently available browsers will be given in the next part of this series of postings. Florian Eggenberger EMBnet Switzerland -- +------------------------------+--------------------------------+ | F. Eggenberger, Ph.D. | eggenber@comp.bioz.unibas.ch | | Biocomputing | eggenberger1@ubaclu.unibas.ch | | University of Basel | Fax +41 / 61 267 20 78 | | Switzerland | Tel +41 / 61 267 22 47 | +------------------------------+--------------------------------+ From owner-www@net.bio.net Tue Oct 18 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: nrd@scrapie.med.umn.edu (Neal Dalton) Subject: Re: [Q] ImageMapping Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Minnesota, Twin Cities Date: Tue, 18 Oct 1994 21:38:25 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 30 Felix Slager (F.Slager@PObox.ruu.nl) wrote: : Hi there, : I'm looking for imagemapping software in order to make 'hot spots' in .gif : images. I'm trying to make some decent HTML pages for a hypertext journal : concerned with neurophysiological and psychonomic research results and : would like to ad this feature. : Could someone please help me finding the tools with which I can make : images active in a graphical hypertext browser like Mosaic or Cello? Try mapedit: package=mapedit comment=HTML Map editor site=sunsite.unc.edu remote_dir=/pub/packages/infosystems/WWW/tools/mapedit #follow_local_symlinks=true # Local_dir+ causes gnu to be appended to the default local_dir # so making /public/gnu local_dir+mapedit #exclude_patt+|-hp700|-ibm|-indy|-dec|-alpha #get_patt=menu* # I tend to only keep the latest couple of versions of things # this stops mirror from retrieving the older versions I've removed max_days=7 #mail_to+ gsker@lenti.med.umn.edu do_deletes=false Neal From owner-www@net.bio.net Tue Oct 18 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Tim Dugan Subject: [Q] [Looking for] jobs producing bionet software Message-ID: <199410181613.LAA25159@Starbase.NeoSoft.COM> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Tue, 18 Oct 1994 16:13:24 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 28 [Note from the moderator: This request has been expanded on request. The Mail suggestion program on www.ch.embnet.org requires full FORMS support, and some of the WWW clients in the field implement TEXTAREA input as only one line.] > Date: Tue, 18 Oct 94 11:09:10 +0100 > >Looking for sw dev of molec. biol. software. Can you help? > Please could you be a little bit more precise in your query. To: Christopher Wadley Dear Chris, Unfortunately, the Mosaic application only let me put in a short phrase. I am trying to find possibilities for doing software development on molecular biological applications, especially relating to genetics. I noticed on the WEB you had many such software applications, so I thought you might be able to direct me toward the producers of them. Thanks, Tim Dugan From owner-www@net.bio.net Sun Oct 23 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Robert Herzog Subject: New browser for WWW Message-ID: <38dfbe$849@rc1.vub.ac.be> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Brussels Free Universities VUB/ULB Date: Sun, 23 Oct 1994 10:53:34 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 15 Since a couple of days, I have been using a new experimental WWW browser, called Netscape. It can be found at : ftp.mcom.com and is being developped by some of the original Mosaic developpers, nowinside a commercial company. Current netscape runs under most UNIX flavours, as well as Macintosh and MS Windows (16 bit !). It is 0.9 Beta. It is in fact better on Mac's and Windows than any other browser I saw, and is excellent under X. Current, as well as release 1 to be there soon, are free. Next version will become commercial. Robert Herzog Belgian EMBnet Node From owner-www@net.bio.net Sun Oct 23 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (Florian Eggenberger) Subject: WWW Introduction: Parts 5, 6 and 7 Message-ID: <1994Oct24.111713.12628@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 24 Oct 1994 11:17:13 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 291 WWW INTRODUCTION October 1994 ================ PART 5: Overview of WWW client software --------------------------------------- This is the fifth part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. If your computer is directly connected to the Internet and you want to access the World-Wide Web, you should install a WWW browser (client) on your machine. The advantages of a locally running browser are full functionality and better performance compared to a browser running at a remote site. WWW browsers are available for most environments including: * AIX * AXP/VMS * HP-UX * IRIX * MacOS 7.x * MS-DOS * MS-Windows 3.x * MS-Windows NT * NeXTStep * OSF/1 * Ultrix * VAX/VMS * X11/DecWindows/Motif WWW browser software is copyrighted but usually free for academic use. The programs can be downloaded by anonymous FTP as C source code and/or in executable forms. WWW browsers currently available include (there may be other software products that do the same job): * Cello: Graphical interface for users on Windows 3.x and OS/2 (running as 16-bit Windows application). The current version does not support all features of HTML level 2. Binaries can be obtained from the Legal Information Institute at Cornell Law School. * CERN's LineMode browser: Basic text-only interface that works on nearly any platform. Recommended if you cannot run another interface. Binaries for HP, PC with PC-NFS socket library, IBM RS/6000, SGI, Sun, and VM can be obtained from the European Laboratory for Particle Physics (CERN), Switzerland. * DosLynx: Character-based browser that provides a full-screen interface for MS-DOS. The current version does not support all features of HTML level 2. Recommended if you cannot (or do not want to) run MS-Windows 3.x in 386 Enhanced Mode. DosLynx can be obtained in its source and binary forms from the University of Kansas. * Lynx: Character-based browser that provides a full-screen interface for UNIX and VMS platforms. Recommended. Binaries for IBM RS/6000, DEC Alpha VMS (Multinet), DEC Alpha OSF/1, Sun 4, DEC Mips, DEC VAX/VMS (Multinet) can be obtained from the University of Kansas. * MacWeb and WinWeb: Graphical interfaces for users on MS-Windows 3.1, OS/2 (running as 16-bit Windows application) and MacOS 7.x. Recommended. Binaries can be obtained from the Microelectronics and Computer Technology Corporation, Austin Texas. * NCSA Mosaic: Graphical interfaces for users on X-Windows, MacOS 7.x, and MS-Windows. Recommended if you can run it. Binaries for DEC Alpha, DEC Mips, HP 9000/730, IBM RS/6000, MacOS 7.x, MS-Windows NT, SGI Irix, Sun Solaris, Sun SunOS can be obtained from the National Centre of Supercomputing Applications (NCSA), Illinois. How to obtain and install the browser software will be described in the following parts of this series of postings. Florian Eggenberger EMBnet Switzerland WWW INTRODUCTION October 1994 ================ PART 6: Installing WinWeb under Windows 3.1 ------------------------------------------- This is the sixth part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. MCC's EINet WinWeb provides a graphical interface for IBM compatible PCs running Microsoft Windows 3.1 in 386 Enhanced Mode. WinWeb is a "Windows Sockets Application" and should operate with any Winsock-compliant networking package. (I have used it under the Trumpet Winsock shareware package, under FTP software's PC/TCP and OnNet.) The files you need to run WinWeb on your machine can be retrieved by anonymous FTP from sites including (this may change over time): IN ORDER TO AVOID UNNECESSARY NETWORK TRAFFIC, PLEASE RETRIEVE THE FILES FROM A HOST CLOSE TO YOUR LOCATION. EUROPEAN SITES Host: ftp.germany.eu.net Location: /pub/infosystems/www/einet/pc File: winweb.zip Location: /pub/infosystems/www/ncsa/Web/Mosaic/Windows/sockets File: winsock.zip Location: /pub/comp/msdos/mirror.garbo/connect File: pktd11.zip Host: ftp.switch.ch Location: /mirror/win3/winsock File: winweb.zip Location: /mirror/win3/winsock File: winsock.zip Location: /mirror/msdos/pktdrvr File: pktd11.zip US SITES Host: ftp.einet.net Location: /einet/pc/winweb File: winweb.zip, pkunzip.exe Host: ucselx.sdsu.edu Location: /pub/ibm File: winsock.zip Host: pc.usl.edu Location: /pub/packet_drivers File: pktd11.zip To get a complete list of sites providing these files, use "Archie" (ask a local expert). Obtaining and installing the software: 1) check what software is required to run WinWeb on your PC: if a Winsock-compliant networking package is already installed: "winweb.zip" if you need a complete networking package: "winweb.zip", "winsock.zip" and "pktd11.zip" 2) open an FTP session with the appropriate host (see above) 3) enter "anonymous" as username and your email address as password 4) type "cd " followed by the appropriate location (see above) 5) type "ls" and check whether the required files are present 6) type "binary" 7) type "get" followed by appropriate filename, this will load the file to your local disk and may take some time 8) type "bye" 9) install the software on your machine: Installing a Crynwr Packet driver: 1) unpack the archive "pktd11.zip" using "pkunzip" 2) see the instructions included in the file "install.doc" for specific information on how to install a Packet driver for your network board 3) add a line to the file "c:\autoexec.bat" that will load the Packet driver, e.g. for a 3Com EtherLink III adapter installed at I/O base 300 hex: c:\network\3c509\3c5x9pd -w 0x60 IOBASE=0x300 4) reboot and check whether the driver loads successfully 5) if the driver does not load, then try to switch to another interrupt e.g. for an EtherLink III adapter installed at I/O base 300 hex: c:\network\3c509\3c5x9pd -w 0x7e IOBASE=0x300 Important: the following steps assume that: 1) the Packet driver for your network board has been properly installed 2) you know your Internet IP address and network mask 3) you know the IP addresses of name server and local gateway. Installing the Trumpet Winsock package: Note that this TCP/IP package is NOT freeware but is distributed under the shareware philosophy. 1) create a directory, put "winsock.zip" in this directory and unpack the archive using "pkunzip" 2) add the directory's name to the path list in the file "c:\autoexec.bat" 3) if you are going to use SLIP, then reboot, see the instructions included in the file "install.txt" and proceed with 6) 4) add a line in the file "c:\autoexec.bat" that will load the Winsock driver immediately after your Packet driver, e.g.: c:\winsock\winpkt.com 0x60 (make sure you supply the same software interrupt number that you gave to the Packet driver) 5) reboot and check that both drivers load successfully 6) start Windows and add "tcpman.exe" as a new program item 7) double-click the icon "Tcpman" and fill in the following options: IP address, netmask, default gateway, name server, time server (leave empty), domain suffix (list of suffixes to be used when resolving host names), packet vector (60, given the assumption above), MTU (1500), TCP RWIN (4096), TCP MSS (1460) and internal SLIP options (leave these options unchecked or empty unless you are using SLIP) 8) press the "OK" button Installing WinWeb: 1) create a directory, copy "winweb.zip" into this directory and unpack the archive using "pkunzip" 2) copy "vbrun300.dll" into the system directory of Windows (usually c:\windows\system) 3) start Windows and add "winweb.exe" as a new program item 4) modify the file "winweb.ini" in the Windows directory (optional) That's it, double-click the icon "WinWeb". Florian Eggenberger EMBnet Switzerland WWW INTRODUCTION October 1994 ================ PART 7: Installing MacWeb on the Mac ------------------------------------ This is the seventh part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. MCC's EINet MacWeb provides a WWW interface for Macs running System 7.x/MacTCP 2.0.2 or later (MacTCP 2.0.4 is recommended). The files required to run MacWeb on your machine, can be accessed by anonymous FTP from sites including (it is quite likely that this may change over time): IN ORDER TO AVOID UNNECESSARY NETWORK TRAFFIC, PLEASE RETRIEVE THE FILES FROM A HOST CLOSE TO YOUR LOCATION. EUROPEAN SITES Host: ftp.germany.eu.net Location: /pub/infosystems/www/einet/mac File: macweb.latest.sea.hqx Host: ftp.switch.ch Location: /software/mac/www File: macweb1.00A2.sea.hqx Host: ftp.cnr.it Location: /pub/tp_cnuce/mac/client/WWW File: macweb1.00A2.2.sea.hqx US SITES Host: ftp.einet.net Location: /einet/mac/macweb File: macweb.latest.sea.hqx Host: ucselx.sdsu.edu Location: /pub/mac File: macweb1.00A2.sea.hqx Host: hub.ucsb.edu Location: /pub/networking/mac File: binhex.macbinary To get a complete list of sites providing these files, use "Archie" (ask a local expert). Obtaining the software: 1) check what software is required to run MacWeb on your Mac: if a program to handle files in BinHex format is already installed: "macweb***.sea.hqx" (*** stands for the version number) if you need a program to convert files in BinHex format: "macweb***.sea.hqx" and "binhex.macbinary" 1) open an FTP session with the appropriate host (see above) 2) enter "anonymous" as username and your email address as password 3) change to the appropriate location (see above) 4) select "ascii" (or equivalent) to download text files or files in BinHex format (indicated by the file suffix "hqx") otherwise select "binary" (or equivalent) 5) load the file to your disk 6) disconnect from the host and close the FTP session Installing MacWeb: 1) decode the MacWeb archive using the program "BinHex 4.0" or equivalent (file transfer programs like "Fetch" include conversion from BinHex) 2) double click the de-binhexed file "macweb***.sea" to produce the program "MacWeb***" and a folder with documents. That's it, go ahead and double-click the icon "MacWeb***". Florian Eggenberger EMBnet Switzerland -- +------------------------------+--------------------------------+ | F. Eggenberger, Ph.D. | eggenber@comp.bioz.unibas.ch | | Biocomputing | eggenberger1@ubaclu.unibas.ch | | University of Basel | Fax +41 / 61 267 20 78 | | Switzerland | Tel +41 / 61 267 22 47 | +------------------------------+--------------------------------+ From owner-www@net.bio.net Sun Oct 23 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: mjc@ncgr.org (Michael J. Cinkosky) Subject: GSDB Web server available Message-ID: <1994Oct24.074621.9735@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 20 Oct 1994 10:01:15 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 49 NCGR ANNOUNCES NEW WEB SERVER The National Center for Genome Resources in Santa Fe, NM is pleased to announce the availability of a new WWW server for genome-related information. The URL for this server is: http://www.ncgr.org This server currently includes pages for both the Genome Sequence Data Base (GSDB) and SIGMA (System for Integretated Genome Map Assembly). The Genome Sequence Data Base pages provide: - DNA sequence entry retrieval and SQL-based queries. Entries retrieved in this way include hyperlinks to related information in other databases such as GDB and Swiss-Prot. - Data submission instructions and submission tracking reports. - On-line database updates forms. Corrections and updates to existing entries can be requested directly from the Web server. - Offsite User Registration. Users can register for read/write accounts on the GSDB database through an on-line form. - Access to all GSDB software and documentation for downloading and on-line reading. The SIGMA pages include: - A hypertext, "guided tour" of SIGMA. - Sample maps, including one of the human X chromosome. - Access to the SIGMA software and documentation. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ The National Center for Genome Resources 1800 Old Pecos Trail Santa Fe, NM 87505 (505) 982-7840 (505) 982-7690 fax ncgr@ncgr.org From owner-www@net.bio.net Sun Oct 23 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Alan Bleasby Subject: PRINCIPLES OF PROTEIN STRUCTURE: A virtual multimedia course Message-ID: <1994Oct24.141343.15610@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 24 Oct 1994 14:13:43 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 140 [ Article crossposted from embnet.general ] [ Posted on 21 Oct 1994 04:10:05 GMT ] PRINCIPLES OF PROTEIN STRUCTURE ------------------------------- A free, self-paced, interactive course on the biological WWW Sponsored by Birkbeck College, London, UK and the Virtual School of Natural Sciences of the Globewide Network Academy Summary ------- We are developing a course on Protein Structure to be offered in January 1995 and available to anyone on the Web. This course will break completely new ground in education and training as it uses tools and ideas that have only become possible with the development of the Internet and multimedia. Leading protein structure groups have freely offered their services as consultants to help develop it. The course (which carries no accreditation) breaks the tradiional mould of 'teacher' and 'student' and offers several different methods of *learning*. It is designed for many types of people including professional biologists in other disciplines who wish to learn more about this essential aspect of modern biology. We are seeking additional consultants now and will be starting to register students in November 1994. Much course material is in place and the rest will be generated by the end of the year (but we'd be delighted to be offered any additional material). The course will use several radically new methods of learning including interactive sessions in the virtual environment at BioMOO and (free) software for molecular visualisation and self-assessment. Students will have an important role in helping to create course material while they learn and we intend that there will be scope for project work. Essential Information --------------------- Please do not mail us at present to enquire about registration as a student, course details, or technology as this will be automated through the WWW CGI-forms technology. The course has a HOME PAGE at: http://seqnet.dl.ac.uk:8000/vsns-pps which we intend to mirror at various sites. The minimum equipment required to take the course will be a modern machine (PC, Mac or UNIX) connected to WWW and capable of running forms and graphics browsers (e.g. Mosaic, MacWeb, XEmacs). You (or your local sysperson) should be able to install simple packages (e.g. RasMol, Kinemage) on the machine. Offers of consultancy or material should be posted to: vsns-pps-offers@tsun.desy.de Additional information (for greater detail see the WWW pages) ------------------------------------------------------------- Course Content: - - - - - - - - The course has three components, all of which will be partly self-paced: - Technology of the biological Web (databases, programs, BioMOO) - Principles of protein structure (basic chemistry and biology, primary, secondary, tertiary, quaternary). These two will run in parallel and will have objectives which will help students measure their progress. - Protein structure and function. This will concentrate on a number of key structural families (e.g. proteases, immunoglobulins, membrane proteins, etc). The course will *not* cover some of the areas which interact with protein structure such as molecular evolution, protein folding, reaction mechanisms, drug design, protein engineering. However we shall have a series of electronic discussion groups and it is possible for course members to branch out into areas like these on a 'self-help' basis. Students: - - - - - The course is designed for 'virtual' students, who may never meet any of the other course members in real life (IRL). Students are expected to 'pay' for this course by contributing in some way such as producing material,helping with technology, or leading electronic discussions. Since feedback is vital for the consultants we shall require that all students are prepared to contribute in some way and this will be part of the basis of selection. We need to set a limit to student numbers as this limits the e-mail pressure on consultants and the load on BioMOO and other servers. There will be a selection proceedure which will encourage: - commitment to the course - diversity of disciplines - geographical and cultural diversity We also anticipate that there may be RL students who work close to a consultant. These may or may not be on a formal accredited course, but it is not intended that they get special attention; an important benefit is added feedback for the consultants. Downloading the course: - - - - - - - - - - - - We intend to make the course downloadable for personal use (although this may take a little time). Anyone who wishes to use the course material for teaching or training should consult us beforehand. Timescale and Flexibility: - - - - - - - - - - - - - Two of us were involved in the first virtual course on the Internet (on C++) and are using experience there to plan the timescale. 15 weeks seems about right, with a weekly commitment from students of at least 5 hours/week. The course will, however, have a great deal of flexibility since some things will work better than others, and there will also be more resources on the Web when we start! Because of this we are quite prepared to change direction and no-one who wants a quiet life need apply! We are also very receptive to suggestions from course members. Course organisers ----------------- Consultants have offered their services from Birkbeck, UCL, Manchester, Daresbury, Glaxo, Aarhus, Uppsala, DESY, Duke, Columbia, Brookhaven, BioMOO and elsewhere (see WWW pages). Please don't mail them about the course - they will only have to bounce it to us! The administrative aspects of the course are being run by: Marcus Speh (DESY/Berlin, DE) for the VSNS and GNA Alan Mills (Crystallography, Birkbeck College, UK) and me Peter Murray-Rust (Glaxo and Birkbeck, UK) We expect a heavy load of mail so please limit it at present to: vsns-pps-offers@tsun.desy.de and wait until further information appears on the WWW pages. There is also a comments form which we'd like you to use rather than mail where possible: http://seqnet.dl.ac.uk:8000/vsns-pps/comments.html Peter Murray-Rust (pmr1716@ggr.co.uk) Glaxo Research and Development, Greenford mbglx@seqnet.dl.ac.uk (Mailbox at Daresbury by kind permission of Alan Bleasby) From owner-www@net.bio.net Mon Oct 24 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: dmaddsn@ccit.arizona.edu (David Maddison) Subject: [Q] databases & GIF files Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Arizona Date: Mon, 24 Oct 1994 22:07:26 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 18 We would like to build a database with pictures, that we can export as a collection of HTML and GIF files. Ideally, we would have an "EXPORTTOGIF" command in the database engine, but we have been unsuccessful at finding a database program that can do this. Does anybody know of any database program that can itself, or with the aid of a third-party plugin, export image fields as GIF files? Ideally this would be on the Mac, and ideally associated with 4D. Thanks! -- David Maddison Dept. of Entomology University of Arizona Tucson, AZ 85721 dmaddsn@ccit.arizona.edu From owner-www@net.bio.net Mon Oct 24 22:00:00 1994 Path: biosci!biosci!not-for-mail From: rawlings@cco.caltech.edu (Jeffrey Rawlings) Newsgroups: bionet.announce,bionet.software.www,sci.bio,sci.bio.technology Subject: ANNOUNCE: IBEX'94 conference information on the WWW Date: 25 Oct 1994 15:15:50 -0700 Organization: California Institute of Technology, Pasadena Lines: 26 Sender: biohelp@net.bio.net Approved: bionews-moderator@net.bio.net Distribution: world Message-ID: <38hu2l$1mc@gap.cco.caltech.edu> NNTP-Posting-Host: net.bio.net Summary: The IBEX'94 Conference has a new WWW site. Keywords: biotechnology,biology,conference,exposition,IBEX Xref: biosci bionet.announce:1513 bionet.software.www:75 sci.bio:11651 sci.bio.technology:1782 ANNOUNCEMENT The IBEX'94 Conference Meets November 30-December 2 in San Francisco; the Schedule is available on the World Wide Web. The seventh annual International Biotechnology Expo & Scientific Conference (IBEX'94) is one of the largest conference and biotechnology trade shows in the Northern Hemisphere and is a comprehensive gathering of those involved in biotechnology and bioscience. For further information, the schedule, and conferences features, please visit the following URL: http://www.bioweb.com/IBEX94/ The IBEX'94 World Wide Web site is the first publication of BioWeb, a new information resource for the online biology community. Please feel free contact me via email if you have any questions. -- Jeff Rawlings rawlings@presence.com Publishing Director, BioWeb *Internet Construction Ahead* From owner-www@net.bio.net Tue Oct 25 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Fredj Tekaia Subject: HTML-marked documents related to BLAST, FASTA and PHYLIP Message-ID: <941025173839@www.ma.is.chbs> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Tue, 25 Oct 1994 17:38:39 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 15 BLAST
  • blast and blast3 manuals in postscript or in text format
  • Example of blast output (How to read it) FASTA
  • FASTA algorithm and an example of FASTA output PHYLIP documentation :
  • PHYLIP Documentation Phylogeny Inference Package version 3.5 i Sent by: the WWW suggestion program @EMBnet Switzerland (info@ch.embnet.org) Signed: Fredj Tekaia Date: Oct 25 1994 at 17:38:39 GMT. From owner-www@net.bio.net Tue Oct 25 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: wnoe@kidney.ecn.purdue.edu (W A Noe) Subject: [Q] Looking for medical illustrations... Message-ID: <38kivi$4tk@mozo.cc.purdue.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Purdue University Date: Wed, 26 Oct 1994 03:38:26 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 12 I am looking for WWW or ftp sites which provide medical illustrations and clip art. Please e-mail replies to wnoe@ecn.purdue.edu. I will post a summary of replies to the newsgroups listed if readers are interested. Thank you. ...B -- wnoe@ecn.purdue.edu ------------------------------------------------------------------------------- "Success is relative: It is what we can make of the mess we have made of things." -T.S. Eliot From owner-www@net.bio.net Wed Oct 26 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Raymond Rohner Subject: PIGVISION's call for interest on art/science projects Message-ID: <1994Oct26.114558.13102@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 26 Oct 1994 11:45:58 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 21 [ Article crossposted from bionet.users.addresses ] [ Posted on 26 Oct 1994 06:31:13 GMT ] CALL FOR INTEREST PIGVISION is a collaborative project between artists and scientists with a main focus on agricultural issues. Part of our project is to provide a WWW service for people with a similar interest. We would like to offer WWW links to sites which deal particularly with the interface between art and science. We would also wellcome addresses for Gopher and ftp sites. Please feel free to browse through our documents. The URL address is: http://toolshed.artschool.utas.edu.au/PigVision/pigvision.html Your comments and interest will be appreciated. Please send them to: rrohner@postoffice.utas.edu.au Raymond Rohner From owner-www@net.bio.net Wed Oct 26 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: m_cockerill@icrf.icnet.uk (Matthew Cockerill) Subject: Xenopus laevis - Nieuwkoop and Faber pix available on net Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Imperial Cancer Research Fund Date: Wed, 26 Oct 1994 10:28:32 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 32 With permission from Pieter Nieuwkoop and Garland Publishing Inc., I am making available on the internet electronic versions of the drawings from: "The Normal Table of Xenopus Laevis (Daudin)" Pieter D Nieuwkoop and J. Faber (Eds) The frog Xenopus laevis is widely used by biochemists and developmental biogists. Nieuwkoop and Faber is the standard reference describing the stages of Xenopus development. 81 high quality scans from the book depict the development of the frog from egg to tadpole. The scans are available, together with thumbnail previews, on the web at: http://timpwrmac.clh.icnet.uk/xenopusintro.html or by anonymous ftp from ftp://mpf.clh.icnet.uk Matthew Cockerill ===================================================================== Matthew Cockerill Tel: 071 269 3877 Imperial Cancer Research Fund (Cell Cycle Group) Fax: 071 269 3801 "Don't think of the user as making errors, think of the user's actions as approximations of what is desired." Don Norman, in The Psychology of Everyday Things. ===================================================================== From owner-www@net.bio.net Wed Oct 26 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: i190@stio1.sari.fh-wuerzburg.de (Schell Robert) Subject: [Q] Needed: Freeware WYSIWYG-HTML-Editors Message-ID: <38l97c$5h2@winx03.informatik.uni-wuerzburg.de> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: FH Wuerzburg-Schweinfurt-Aschaffenburg Date: Wed, 26 Oct 1994 09:58:04 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 6 I need (if possible) a list of all Freeware WYSIWYG-HTML-Editors, or some FTP-servers where I can look at. I know until now 'tkwww' but I need more for a investigation of those editors within my studies. Thanks a lot for every hint ... :-) Robert From owner-www@net.bio.net Wed Oct 26 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: smorad@ritsec.com.eg (Sherif Morad) Subject: [Q] Help on production of Mycolases and Asparaginase by Streptomyces Message-ID: <38ltlp$ijo@mserv1.dl.ac.uk> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 26 Oct 1994 15:47:05 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 25 Hello everybody I need help on Production of Mycolases by Actinomycetes genus : Streptomyces spp Production of Asparaginase by Actinomycetes genus : Streptomyces spp I can use any availabel papers and documents concerning these topics. Also, I'll be greatful if you send me the names of mailing lists news groups and journals concerned with microbiology and how can i subscribe there. Thanks in advance Sherif Mourad Ghaleb Regional Information Technology and Software Engineering Center (RITSEC) Cairo, Egypt. e-mail smorad@ritsec.com.eg From owner-www@net.bio.net Sun Oct 30 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: brydgesw@nbnet.nb.ca (William Brydges) Subject: RE: freeware HTML editors Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: New Brunswick Department of Education Date: Sat, 29 Oct 1994 08:29:27 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 4 I can't give you specific sites, but find HOTMETAL. It's a pretty good editor na dgood features. There is a shareware version and a commercial version From owner-www@net.bio.net Sun Oct 30 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: westview@hookup.net (Brian Pugh) Subject: [Q] web server hardware Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Westview C. Secondary School Date: Sat, 29 Oct 1994 15:29:19 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 23 We are presently setting up an ethernet LAN in our school (multi-protocol, mostly Mac & ppp), connecting to the Internet using ISDN and Ascend Pipeline 50 to achieve up to 128kb. We want our students to be producers as well as consumers of information; thus, we are working with them, using Robert Bates' Supertext HTML editor, to create mosaic pages. We wanted to purchase the Bolt, Beranek & Newman server, but it may be a bit costly for our budget. Can you recommend any hardware,including Mac, that we might use. Further, what minimum RAM and storage capacity would we need? (I read that the Murray Elem. School in Virginia had approx. 7,300 accesses at one, 24-hour peak period). Any help, re-direction, hints, etc. would be much appreciated. Thanks, Brian Pugh Head of English Westview Centennial Secondary School North York (Toronto), Ontario Canada From owner-www@net.bio.net Sun Oct 30 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (Florian Eggenberger) Subject: WWW Introduction: Part 8 Message-ID: <1994Oct31.095733.23010@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 31 Oct 1994 09:57:33 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 185 WWW INTRODUCTION October 1994 ================ PART 8: Installing NCSA Mosaic for Microsoft Windows ---------------------------------------------------- This is the eighth part of a series of postings describing the concept of the World-Wide Web and guiding anyone who is interested in obtaining and setting up the software required to access the Web. NCSA Mosaic for Microsoft Windows provides a graphical WWW interface for PC platforms that allow the running of 32-bit Windows applications (i.e. Windows NT, OS/2 v3 and 16-bit Windows environments with the Win32s software installed). NCSA Mosaic for Microsoft Windows is a "Windows Sockets Application" and should operate with any Winsock 1.1-compliant networking package (e.g. Microsoft's TCP/IP stack for Windows for Workgroups, the Trumpet Winsock shareware package, FTP software's PC/TCP and OnNet). The files you need to run NCSA Mosaic on your machine can be retrieved by anonymous FTP from sites including (it is quite likely that this may change over time): IN ORDER TO AVOID UNNECESSARY NETWORK TRAFFIC, PLEASE RETRIEVE THE FILES FROM A HOST CLOSE TO YOUR LOCATION. EUROPEAN SITES Host: ftp.germany.eu.net Location: /pub/infosystems/www/ncsa/Web/Mosaic/Windows File: wmos20a7.zip Location: /pub/infosystems/www/ncsa/Web/Mosaic/Windows File: win32s.zip Location: /pub/infosystems/www/ncsa/Web/Mosaic/Windows/sockets File: winsock.zip Location: /pub/comp/msdos/mirror.garbo/connect File: pktd11.zip Host: ftp.switch.ch Location: /mirror/win3/winsock File: wmos20a7.zip Location: /mirror/Mosaic/Windows File: win32s.zip Location: /mirror/win3/winsock File: winsock.zip Location: /mirror/msdos/pktdrvr File: pktd11.zip US SITES Host ftp.iastate.edu Location: /pub/pc/winsock/mosaic File: wmos20a7.zip Host: scss3.cl.msu.edu Location: /pub/pc/win File: win32s.zip Host: ucselx.sdsu.edu Location: /pub/ibm File: winsock.zip Host: pc.usl.edu Location: /pub/packet_drivers File: pktd11.zip To get a complete list of sites providing these files, use "Archie" (ask a local expert). The following installation description applies to Microsoft Windows 3.1, however, installing NCSA Mosaic on a different 16-bit Windows environment should be similar. Obtaining and installing the software: 1) check what software is required to run NCSA Mosaic on your machine: if version 1.1.5a (or later) of the Win32s software and a Winsock 1.1- compliant networking package are already installed: "winmos20a7.zip" if version 1.1.5a of the Win32s software is not already installed: "winmos20a7.zip" and "win32.zip" if you need a complete Winsock 1.1-compliant networking package: "winmos20a7.zip", "winsock.zip" and "pktd11.zip" 2) open an FTP session with the appropriate host (see above) 3) enter "anonymous" as username and your email address as password 4) type "cd " followed by the appropriate location (see above) 5) type "ls" and check whether the required files are present 6) type "binary" 7) type "get" followed by appropriate filename, this will load the file to your local disk and may take some time 8) type "bye" 9) proceed with: STEP 1 to install a complete networking package STEP 3 to install the Win32s software STEP 4 if version 1.1.5a (or later) of the Win32s software and a Winsock 1.1-compliant networking package are already installed STEP 1: Installing a Crynwr Packet driver 1) quit Windows 2) create a directory, put "pktd11.zip" in this directory and unpack the archive using "pkunzip" 3) see the instructions included in the file "install.doc" for specific information on how to install a Packet driver for your network board 4) add a line to the file "c:\autoexec.bat" that will load the Packet driver, e.g. for a 3Com EtherLink III adapter installed at I/O base 300 hex: c:\network\3c509\3c5x9pd -w 0x60 IOBASE=0x300 5) reboot and check whether the driver loads successfully 6) if the driver does not load, then switch to another interrupt e.g. for an EtherLink III adapter installed at I/O base 300 hex: c:\network\3c509\3c5x9pd -w 0x7e IOBASE=0x300 7) proceed with STEP 2 STEP 2: Installing the Trumpet Winsock package Note that this TCP/IP package is NOT freeware but is distributed under the shareware philosophy. The following steps assumes that: (i) the Packet driver for your network board has been properly installed (ii) you know your Internet IP address and network mask (iii) you know the IP addresses of name server and local gateway. 1) quit Windows 2) create a directory, put "winsock.zip" in this directory and unpack the archive using "pkunzip" 3) add the directory's name to the path list in the file "c:\autoexec.bat" 4) if you are going to use SLIP, then reboot, see the instructions included in the file "install.txt" and proceed with 7) 5) add a line in the file "c:\autoexec.bat" that will load the Winsock driver immediately after your Packet driver, e.g.: c:\winsock\winpkt.com 0x60 (make sure you supply the same software interrupt number that you gave to the Packet driver) 6) reboot and check that both drivers load successfully 7) start Windows and add "tcpman.exe" as a new program item 8) double-click the icon "Tcpman" and fill in the following options: IP address, netmask, default gateway, name server, time server (leave empty), domain suffix (list of suffixes to be used when resolving host names), packet vector (60, given the assumption above), MTU (1500), TCP RWIN (4096), TCP MSS (1460) and internal SLIP options (leave these options unchecked or empty unless you are using SLIP) 9) press the "OK" button 10) proceed with STEP 4 if version 1.1.5a (or later) of the Win32s software is installed on your machine, otherwise proceed with STEP 3 STEP 3: Installing the Win32s software 1) create a directory, put "win32s.zip" and unpack the archive using "pkunzip" (provide "-d" as argument to restore the directory structure) 2) select "Run..." in the Program Manager's "File" menu, select "setup.exe" in the subdirectory "DISK1" of the previously created directory, press the "OK" button and let you guide through the installation of the Win32s software 3) proceed with STEP 4 STEP 4: Installing NCSA Mosaic 1) create a directory, copy "winmos20a7.zip" into this directory and unpack the archive using "pkunzip" 2) start Windows and add "mosaic.exe" as a new program item 3) copy the file "mosaic.ini" to the Windows directory and modify it according your system configuration and preferences 4) double-click the icon "NCSA Mosaic". 5) if you are amongst those lucky people who do not get an error message: congratulations, enjoy the World-Wide Web! if you get a "Win32s Error" (this seems to happen rather often according to the number of postings in the newsgroup "comp.infosystems.www.users" asking for help on that problem): proceed with STEP 5 STEP 5: Troubleshooting "Win32s exceptions" in mosaic.exe (This section is based on an article recently posted by Xavier Sillen, UCL, Louvain-La-Neuve, Belgium to "comp.infosystems.www.users".) Note that proceeding with the following steps CAN CAUSE PROBLEMS WITH OTHER WINDOWS APPLICATIONS (see part 5 of this series of postings if you prefer to run another WWW browser instead). 1) quit Windows 2) move the file "CTL3DV2.DLL" from the Windows system directory to the Win32s directory (usually c:\windows\system\win32s) 3) rename "CTL3DV2.DLL" to "CTL3D32.DLL" 4) restart Windows and check that your applications still work properly 5) That's it, double-click the icon "NCSA Mosaic". Florian Eggenberger EMBnet Switzerland -- +------------------------------+--------------------------------+ | F. Eggenberger, Ph.D. | eggenber@comp.bioz.unibas.ch | | Biocomputing | eggenberger1@ubaclu.unibas.ch | | University of Basel | Fax +41 / 61 267 20 78 | | Switzerland | Tel +41 / 61 267 22 47 | +------------------------------+--------------------------------+ From owner-www@net.bio.net Sun Oct 30 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: GDB User Support Subject: GDB on WWW has links to GSDB sequence data Message-ID: <1994Oct29.180301.11809@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Sat, 29 Oct 1994 18:03:01 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 33 [ Article crossposted from bionet.molbio.gdb ] [ Posted on Fri, 28 Oct 1994 14:40:51 GMT ] -------------------------------------------------------------------------- GDB Browser on WWW includes links to sequence data at GSDB -------------------------------------------------------------------------- GDB and the Genome Sequence Data Base (GSDB), hosted at the National Center for Genome Resources in Santa Fe NM, have jointly developed improved connections between human gene mapping and sequence data via the World Wide Web. Detailed information about loci and probes retrieved from GDB's WWW server now includes links to GSDB DNA sequence entries. Selecting the DNA sequence accession number(s) associated with a locus or probe in GDB brings back a tabular summary of all associated sequences from GSDB. The summary shows the entry name, length, accession number, and a brief sequence description. Each summary line is linked to the detailed GSDB flatfile sequence entry. These GSDB sequence entries in turn include links to GDB through gene symbol and map location. For example, following the map location link from GSDB retrieves all the loci in GDB mapped to the same cytogenetic region as the sequenced locus. For more information, contact: GDB User Support Genome Data Base Johns Hopkins University School of Medicine 2024 E. Monument St. Baltimore MD 21205 help@gdb.org From owner-www@net.bio.net Sun Oct 30 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: muttiah@tamu.edu (Ranjan Muttiah) Subject: [Q] Mosaic w/o IP address Message-ID: <38jhu4$oee@news.tamu.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Texas A&M University, College Station, TX Date: Tue, 25 Oct 1994 18:14:28 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 9 Is it possible to set up mosaic without having an internet connection. I wish to use mosaic as stand alone hyper media (dos/unix/or mac doesn't matter which). muttiah@tamu.edu From owner-www@net.bio.net Mon Oct 31 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: paolo@istge.ist.unige.it (Ing. Paolo Romano;Ist. Oncologia - GE) Subject: CBA-IST new joint WWW server Message-ID: <1994Nov1.100946.28753@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: National Institute for Cancer Research, Genoa, Italy Date: Mon, 31 Oct 1994 11:45:18 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 37 This is to announce availability of the new CBA-IST joint WWW server at the following URL: http://www.ist.unige.it. CBA-IST WWW server is devoted to distribution of information about research, education and clinical activities that are carried out at the Advanced Biotechnology Center (CBA) and at the National Institute for Cancer Research (IST) of Genoa. Though still under construction, CBA-IST WWW server already includes valuable information on IST and CBA organization and structure. The first innovative service is HyperCLDB, a hypertextual version of the Cell Line Data Base, including detailed descriptions of ca. 2800 cell lines from European culture collections (ca. 26 Mbytes data). You are warmly invited to navigate it starting at http://www.ist.unige.it/cldb/indexes.html and send your comments to paolo@risc1.ist.unige.it. CBA-IST WWW server also includes a detailed description of all Interlab Project databases, the announcement of the next ISPO Conference on "Impact of Biotechnology on Predictive Oncology and Therapy", and access to the well established IST Gopher server and consequently to Archie, Veronica, lists of WAIS and Gopher servers and FTP sites for biology and biotechnology. Paolo Romano (http://www.ist.unige.it/staff/PR.html) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Paolo Romano is a Research Assistant at the Biotechnology Department of the National Institute for Cancer Research of Genoa, located in Viale Benedetto XV 10, 16132 Genova, Italy. You can fax (+39-10-5737295) or email (paolo@risc1.ist.unige.it) him. He will kindly answer. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ From owner-www@net.bio.net Mon Oct 31 22:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: "RNeubig@umich.edu" Subject: Re: [Q] Mosaic w/o IP address Message-ID: <393v22$jg7@lastactionhero.rs.itd.umich.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Michigan Date: Mon, 31 Oct 1994 23:36:34 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 14 > Is it possible to set up mosaic without having an internet connection. > I wish to use mosaic as stand alone hyper media (dos/unix/or mac doesn't > matter which). > > muttiah@tamu.edu Yes. You can use mosaic to read local files and html files can point to local files as well. So it is no problem to use it on a standalone system. I've done it on my 486 at home.