From owner-www@net.bio.net Sun Sep 04 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: eggenber (F. Eggenberger) Subject: WWW Introduction for Biologists Message-ID: <1994Sep5.064025.23327@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 5 Sep 1994 06:40:25 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 172 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 availble 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: Mon, 5 Sep 1994 17:58:03 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 204 [ Article crossposted from comp.infosystems.www,comp.infosystems.www.users ] [ Author was Mosaic-2.4.2 (TueV) ] [ Posted on 5 Sep 1994 16:18:29 GMT ] [ Article crossposted from zdv.test ] [ Author was Mosaic-2.4.2 (TueV) ] [ Posted on 5 Sep 1994 16:10:14 GMT ] ********************************************************************** * ANNOUNCE: Tuebingen Version 2.4.2 of NCSA Mosaic * ********************************************************************** The Computing Center (ZDV) of the University of Tuebingen is proud to present Mosaic (TueV) 2.4.2, an extended multilingual update of the original NCSA Mosaic 2.4 for X-Windows. This distribution was coordinated by Mike Peter Bretz. We want to express our gratidude to all contributers. NOTE: THIS IS A MODIFIED VERSION AND NOT THE ORIGINAL NCSA MOSAIC DISTRIBUTED BY THE UI! THE ZDV MAKES NO REPRESENTATIONS ABOUT THE SUITABILITY OF THIS SOFTWARE FOR ANY PURPOSE. IT IS PROVIDED "AS IS" WITHOUT EXPRESS OR IMPLIED WARRANTY. THE ZDV SHALL NOT BE LIABLE FOR ANY DAMAGES SUFFERED BY THE USERS OF THIS SOFTWARE. THIS IS STILL COPYRIGHTED SOFTWARE. THE LICENSE TERMS OF NCSA AND OTHERS ARE STILL APPLICABLE! It contains lots of bugfixes and improvements, such as: o support of multilanguage user interface (Right now: english, german, french, dutch) PS: Hey, where are the other language definitions ? o Imake-support o a new 'finger:' and 'mailto:' protocol, o Fish-search (Eindhoven University of Technology, Netherlands) o TERM-support o fixed color-bug (caused by 'internal-' images) o and lots of other stuff. For more information please have a look at the changes at the end of this announce (taken from the "CHANGES"-file). This version was tested on the following platforms/systems: - DEC Ultrix 4.3 - DEC ALPHA OSF/1 - HP/UX 9.01/9.05 - RS6000 AIX 3.2 - SUN 4 SunOS 4.1.3 - SGI 4.0 - SGI 5.2 - ConvexOS 10.0 - Linux 1.x Sources: ======== Source for Mosaic 2.4.2 is available at ftp://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/source or http://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/source Binaries: ========= Binaries for most platforms are available via anonymous FTP at ftp://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/binaries or http://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/binaries Installation: ============= Install with Imakefile support (c.f. README.imake). If you have any bug-reports, language additions or just some comments, please send email to: mosaic@zdv.uni-tuebingen.de or if related to the original code to: mosaic-x@ncsa.uiuc.edu ------8<-----snip-----8<-----snip-----8<-----snip-----8<-----snip-----8<----- CHANGES from Mosaic 2.4.1 to 2.4.2 ................................ o Multiple submit buttons support. o Closing of windows refixed (Exit confirmation pops up on last window now). o News page style improved. o Little patch for News protocol. (switch to 'mode reader' included) (Thanks to: Christian Treber ) o Added '-speed ' argument, to slow down the spinning earth icon ( 1: normal, 2: half of the normal speed, 3: 1/3 of the normal speed ...) This is useful for most Linux architectures (there is was really too fast!), if the user wants to see that it is the earth which is rotating (and not just a 'something') o Added Imake stuff from Fish-search Mosaic, made some fixes, so it works just fine on tested architectures (c.f. README) (Original Imakefiles: Rainer Klute ) o Added several features to Mosaic.cf file. o Added fish search source o Changed HTML-only functionality, so that really only http://*.html files get checked. (A better patch will follow later) o Fixed ftp-filedate function. o Finally fixed the stupid colorbug again. Thanx for all your complaining. o Fixed qsort() function calls! o Fixed fontSet resource initialisation o Fixed finger protocoll (was hanging up sometimes) o Edit source window advanced (Thanks to: Panagiotis Christias ) o Added: MAILTO protocoll o Added TERM source Changes from Mosaic 2.4 to 2.4.1 .............................. o Rewrote the source (libXmx, libhtmlw, libwww2, src) so that you easily can translate Mosaic into another language. (Using include-files) o Realized the -geometry option. o Fixed mo_post_exitbox() function, so that the Exit Confirmation box appears in the middle of the main window, not in the upper left corner of the screen. o Added -in option for iconName XResource: *iconName o Added -fq option for forceQuit (Exitbox does not appear at all on the last Window) Added resource *forceQuit as well. o Fixed testing of "internal-" prefix of image filenames. The images can be in another directory now. (Oh, I think this is really undocumented, this feature. If you have an image which name starts with "internal-" so the image won't get a border in the document window (even if it is a link).) o Fixed color initialising in colormap o Added Mosaic*fontSet XResource: If you set fontSet to a valid of the option/fonts-menu Mosaic will load this font on start. Example.: If you have Mosaic*fontSet: New Century Large or similar in your .Xdefaults Mosaic starts with the requested font. (Thanks to: Glenn Randers-Pehrson ARL|WTD|TED|TIB ) o Added french include file (Thanks to: Nicolas Pioch ) o Added finger protocoll (Thanks to: Andrew Brooks ) o Show filedate and filesize in ftp documents, if available. If your system has the strptime() function, you should define HAVE_STRPTIME as a sysconfigflag in your Makefile(s). o Made source window editable. (Thanks to: Panagiotis Christias and Eric Bartley ) ------8<-----snap-----8<-----snap-----8<-----snap-----8<-----snap-----8<----- Uwe Koch Mike Peter Bretz Information System Manager Maintainer Zentrum fuer Datenverarbeitung Unversitaet Tuebingen Brunnenstr. 27 D-72074 Tuebingen Fed. Rep. of Germany -- .------------------------------------+------------------------------------. | Mosaic-2.4.2 (TueV) | ,---o Mosaic-2.4.2 is an update | | University of T"ubingen, Germany | `(X). of NCSA's original | | mosaic@zdv.uni-tuebingen.de | o---' Mosaic-2.4 for X11 | +-----------------------------------'=`-----------------------------------+ \ ______ ftp.uni-tuebingen.de (login: ftp) /pub/WWW/Mosaic-TueV/ ______ / \ http://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/ / `---------------------------------+---------------------------------' -- .------------------------------------+------------------------------------. | Mosaic-2.4.2 (TueV) | ,---o Mosaic-2.4.2 is an update | | University of T"ubingen, Germany | `(X). of NCSA's original | | mosaic@zdv.uni-tuebingen.de | o---' Mosaic-2.4 for X11 | +-----------------------------------'=`-----------------------------------+ \ ______ ftp.uni-tuebingen.de (login: ftp) /pub/WWW/Mosaic-TueV/ ______ / \ http://ftp.uni-tuebingen.de/pub/WWW/Mosaic-TueV/ / `---------------------------------+---------------------------------' -- 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 Sep 13 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: ola.myklebost@labmed.uio.no (Ola Myklebost) Subject: Mosaic 2.00 a6 and GDB crashes Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Inst for Cancer Research, Oslo Date: Fri, 9 Sep 1994 14:23:15 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 14 When I retrieve a locus from the Genome Data Base through http://gdbwww.gdb.org/gdbdoc/topq.html Mosaic 2.00 a6 for Mac crashes. If i start it once more my mac freezes. I wonder whether this is an error with the GDB setup or in Mosaic? - -- Ola Myklebost Email ola.myklebost@labmed.uio.no Dept of Tumor Biology Inst for Cancer Research Tel +47-2293-4299 The Norwegian Radium Hospital Fax +47-2252-2421 N-0310 OSLO, Norway From owner-www@net.bio.net Tue Sep 13 23:00:00 1994 Newsgroups: bionet.molec-model,bionet.software,bionet.software.pc,bionet.software.www,comp.infosystems.www.providers,sci.chem,sci.engr.chem Path: biosci!daresbury!bioftp.unibas.ch!moderate From: brecher@terminator.rs.itd.umich.edu (Jonathan Brecher) Subject: Desktop Chemists' WWW Server Message-ID: <34ls3m$emk@terminator.rs.itd.umich.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Cambridge Scientific Computing, Inc. Date: Thu, 8 Sep 1994 02:15:18 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 30 Xref: biosci bionet.molec-model:100 bionet.software:9305 bionet.software.www:25 comp.infosystems.www.providers:4561 sci.chem:16516 sci.engr.chem:3019 Cambridge Scientific Computing, Inc., is pleased to announce our new WWW server, located at http://www.camsci.com. From this site we will be able to better support the current and potential users of CS ChemOffice, including CS ChemDraw, CS Chem3D and CS ChemFinder. We also have press releases, demo versions, and information about the other services we provide. Shortly we will provide tech notes, selections from our CS Catalyst newsletter, and lots of other good stuff. You want something you don't see? We'll take requests, too. Because we are dedicated to providing the best information available the desktop chemist worldwide, we have tried to include links to other resources as we've found them across the Web. The one thing that really struck us was how little information there is on WWW about desktop chemistry software. This is unfortunate. Accordingly, we would like to offer space on our WWW server to anyone who wants to provide information about software that would be useful to chemists. If finding a server is stopping people from providing information, we want to help. Please contact us (info@camsci.com) for details, because there are a few limits to our generosity (no multi-megabyte mpegs allowed, sorry!). Let's hear what you think! Jonathan Brecher Cambridge Scientific Computing, Inc. jsb@camsci.com From owner-www@net.bio.net Tue Sep 13 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Posting own links or mails via W3 Message-ID: <1994Sep1.205501.9684@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 1 Sep 1994 20:55:01 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 19 Colleagues, the home page of the bionet.software.www group at Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Wed, 14 Sep 1994 14:43:54 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 28 [ Article crossposted from bionet.announce ] [ Author was Erik Sonnhammer ] [ Posted on 12 Sep 1994 22:13:56 -0700 ] The Protein Domain database PRODOM is now accessible on the Web at: URL ProDom is a collection of protein domain families that have been generated automatically from Swissprot by Blastp and the Domainer algorithm (See Sonnhammer ELL & Kahn D (1994) Protein Science 3:482-492). The ProDom WWW server allows you to query ProDom by keywords, Blast, or directly with Swiss-prot acronyms. It also makes it very easy to retrieve and display the families. The main new feature of ProDom (apart from being updated to Swiss-prot 28) is that it now graphically displays the domain organization of Swiss-prot sequences according to ProDom. Also the algorithm has been improved to cause less fragmentation of the sequences. _______________ Erik Sonnhammer Sanger Centre Cambridge UK From owner-www@net.bio.net Tue Sep 13 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: robison@golgi.harvard.edu (Keith Robison) Subject: WWW VL Biosciences Organization Change Message-ID: <1994Sep9.131235.34678@hulaw1.harvard.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Fri, 9 Sep 1994 17:12:34 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 57 The WWW Virtual Library: Biosciences has undergone a small organizational shift. The main list of sites is creeping up on 60Kb, and is becoming less generally useful for users. So, the following changes have been made: 1. Introduction This URL now leads to a compact introduction to the VL Biosciences, related areas in the WWW VL. This should be more generally useful, and will encourage people to go to sub-libraries rather than the main list 2. Index This is a searchable index form of the main list. A short description of some useful regular expression syntax is included on the search page. 3. This is the new URL for the comprehensive list. It is suggested that most pages switch their links pointing to the VL Biosciences to either above URL #1, URL #2, or to appropriate sub-libraries as seen fit. Please change any other URLs which you may have (such as biopages.list), as they may disappear in the future or may give some browsers fits. Also, just for consistency, please label your links (for the sake of consistency.) The WWW Virtual Library: Biosciences Two other items of related relevance: A more detailed announcement will be posted in the near future, but I am attempting to solicit curators for more sub-branches of the library. CERN is promoting the development of "thumbnail" icons for the VL branches. So far there are none for the Biosciences or its branches. If you are interested in either of these, please E-mail me. Keith Robison Harvard University Department of Cellular and Developmental Biology Department of Genetics / HHMI krobison@mito.harvard.edu Cut-and-pastable HTML for the suggested general entry points. From owner-www@net.bio.net Thu Sep 15 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: josh@pogo.cqs.washington.edu (doc) Subject: Announcement: sci.bio.evolution home page Message-ID: <3578g7$gel@news.u.washington.edu> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Washington Date: Wed, 14 Sep 1994 16:31:03 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 24 Friends: The moderated Usenet newsgroup, sci.bio.evolution, now has its own home page, at: http://www.cqs.washington.edu/~evolution This page links to the archive of previous articles in the newsgroup, relevant documents in the talk.origins archive, text versions of _The Voyage of the Beagle_ and _The Origin of Species_, and a mailer that allows readers to post articles to the newsgroup using their WWW browser if it supports forms. I welcome questions and comments on the page (there is also a mailer link on the page to send mail to me). Cheers, Josh Hayes, moderator, sci.bio.evolution -- Josh Hayes josh@cqs.washington.edu Disc Golf Page: http://www.cqs.washington.edu/~josh/discgolf.html She wants to see you again/slowly twisting in the wind From owner-www@net.bio.net Thu Sep 15 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: BCM Annotation server Message-ID: <1994Sep15.063139.4761@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 15 Sep 1994 06:31:39 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 85 [ Article crossposted from bionet.molbio.genbank ] [ Author was Brian Foley ] [ Posted on Wed, 14 Sep 1994 20:58:22 GMT ] I have added a few annotations to entries for elongation factor 2 genes/cDNAs, and I have gone back to view these entries after annotation. I have also called up these entries with NCBI NENTREZ. The annotations appear when I call up the entries from within BCM, but not when they are called up directly from NCBI. 1) Will the annotation "post-it notes" become a part of the NCBI ENTREZ system? Or will they just be tacked on on top of ENTREZ entries stored at BCM? If they are added to ENTREZ at NCBI, what will the lag time be between adding annotations, and their entry into the ENTREZ system? 2) I really like the idea of being able to add annotations to GenBank entries, but I very much dislike using a WWW browser to do so. I used to work at GenBank as a sequence annotator, and even back in the days before the "Annotator's Workbench" was developed we had a few very important tools at hand to help us do accurate and consistent annotation. The WWW server just gives me a window to type some text in. Not even a spell checker is provided. I can see the ENTREZ entry below if I scroll down there, but if I position my cursor over the A of an ATG start codon I want to annotate, it does not tell me the base number, I have to count it out by hand (error-prone). There is a window to type in "keywords" but no way for me to check a list of keywords to keep things consistent (I might use "EF-2" and another person might use "EF2" or "ef2" or "elongation factor"). The idea of an "annotation server" is great. But I would be a lot better off if I had the ability to use the "anotators workbench" or AUTHORIN or even Microsoft Word (at least it has a spell-checker) to spend some time making up a realy nice entry and checking the results before it gets pasted in stone into a world-accessible database. 3) Perhaps the "Links to WWW URLs" is the best feature of the BCM service. I see the addition of free-form comments to be very limmited in usefulness. However there are sites such as: On-line Directory of P450-containing Systems , developed at International Centre for Genetic Engineering and Biotechnology , Trieste that provide much more than simple "annotation" of a single GenBank entry. Such sites can supply multiple sequence alignments and links to other databases. This is great, but if we read Tom Schneider's "Philosophy" papers and look in the ASN.1 documentation, we'll see that we should really be working toward standardization so that if the folks in Trieste do a multiple sequence alignment of P450 proteins, and I do a multiple sequence alignment of EF-2 proteins, the same software can be used to analyze both sets of data. My interest may be in looking at a certain conserved region of amino acids involved in catalysis, but some evolutionary biologist may want to use both the P450 and EF-2 data to generate an evolutionary tree. It is frustrating to wait for the perfect system to come along, when we want to build something TODAY. But we should at least be working toward building the best system we can. The "annotators workbench", AUTHORIN, and other great tools are already built, yet they are not included in the BCM server. We have ASN.1 definitions for all sorts of DNA sequence features, but few tools to help us incorporate them into WWW sites so that our WWW server feeds out standard objects, instead of free-form text. -- ******************************************************************** * Brian Foley * If we knew what we were doing * * Molecular Genetics Dept. * it wouldn't be called research * * University of Vermont * * ******************************************************************** -- 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 Thu Sep 15 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: fuellen@techfak.uni-bielefeld.de (Georg Fuellen) Subject: Collaborators needed for ONLINE Biocomputing Course !! Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Universitaet Bielefeld, Technische Fakultaet. Date: Fri, 16 Sep 1994 09:39:11 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 50 If you're interested in the Internet Biocomputing Course, as a coursebook author, online instructor, or student, please read on !! The GNA-VSNS Biocomputing Course Preparation Group is looking for collaborators and prospective students. Our first online meeting will be held on 20 Sep 1994. The course will be free of charge, and shall start in Spring 1995. MORE DETAILS about the meeting, the course in general, and the GNA Virtual School of Natural Sciences can be found on our www page. Please point your hypertext browser to http://www.techfak.uni-bielefeld.de/techfak/persons/fuellen/BCChome.html Our US mirror is http://www.mit.edu:8001/afs/athena/user/f/u/fuellen/News/Ga/REM/Gna/BCChome.html Future follow-up courses shall be available to email-only users, and be announced here. __To participate in our prototype course, you will need a www/hypertext browser.__ Please take a look at the FAQ of the comp.infosystems.www.misc newsgroup for further information about how to obtain a www/hypertext browser, or ftp to rtfm.mit.edu, directory /pub/usenet/comp.infosystems.www.misc. kindest regards, georg fuellen@dali.Mathematik.Uni-Bielefeld.DE fuellen@MIT.EDU fuellen@Techfak.Uni-Bielefeld.DE Dr Stephen R Covey, The 7 Habits of Highly Effective People, Habit #3: Put First Things First ! >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> IN NO EVENT SHALL THE GLOBEWIDE NETWORK ACADEMY, THE VIRTUAL SCHOOL OF NATURAL SCIENCES, BIOMOO, OR ANY OTHER PARTICIPATING VOLUNTEER BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES ARISING OUT OF THE PARTICIPATION IN THIS CLASS, AND/OR OUT OF THE USE OF THE INFORMATION PROVIDED IN THIS CLASS, EVEN IF THE GLOBEWIDE NETWORK ACADEMY, THE VIRTUAL SCHOOL OF NATURAL SCIENCES, BIOMOO, OR ANY OTHER PARTICIPATING VOLUNTEER HAVE BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. THE GLOBEWIDE NETWORK ACADEMY, THE VIRTUAL SCHOOL OF NATURAL SCIENCES, BIOMOO, AND ANY OTHER PARTICIPATING VOLUNTEER SPECIFICALLY DISCLAIM ANY WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE CLASS PROVIDED HEREUNDER IS ON AN "AS IS" BASIS, AND THERE IS NO OBLIGATION WHATSOEVER TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR MODIFICATIONS. <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< From owner-www@net.bio.net Sun Sep 18 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: fuellen@techfak.uni-bielefeld.de (Georg Fuellen) Subject: Re.: Collaborators needed for ONLINE Biocomputing Course !! Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Universitaet Bielefeld, Technische Fakultaet. Date: Fri, 16 Sep 1994 19:43:02 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 39 Folks: It seems that your requests for information are overwhelming our server, so please: If you're interested in the course as a student, dont retrieve the documents now, just wait a few days/weeks. No harm will be done, admission will not be on a first come - first serve basis. The course starts April next year at the earliest. If you're just curious, please wait a few days/weeks (at least until next weekend, starting Sept 24). Anyway, the information will be more accurate by then ! Finally if you're not involved in the Preparation Group meeting, please avoid accessing the servers during Bielefeld peak hours, i.e. roughly Mo-Fr 7 am - 3 pm GMT time (3 am - 11 am US East Coast time), for all pages except the US mirror pages (only the Homepage and the "How To attend..." page are mirrored in the US), for which Mo-Fr 1 pm - 9 pm GMT time are the same hours as the US East Coast peak hours. Note: The Bielefeld server has got the feature of responding "Error 404 Not found - file doesn't exist or is read protected [even tried multi] " is it is overworked. Thanks for your kind considerations ! kindest regards, georg fuellen@dali.Mathematik.Uni-Bielefeld.DE fuellen@Techfak.Uni-Bielefeld.DE fuellen@MIT.EDU Begin with the End in Mind ! (Dr Stephen R Covey, The 7 Habits of Highly Effective People, Habit #2) From owner-www@net.bio.net Sun Sep 18 23:00:00 1994 Newsgroups: bionet.software.gcg,bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: X or Mosaic in future Interface Design? Message-ID: <1994Sep19.072200.21360@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 19 Sep 1994 07:22:00 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 76 Xref: biosci bionet.software.gcg:739 bionet.software.www:34 [Discussion is whether a command-line driven program package (example: Genetics Computer Group, GCG Inc, Madison) is evolving correctly into an X-based Graphical User Interface or whether Mosaic can be used]. [the earlier thread on this can be reviewed using the following URL: X-GCG ] micha@amber.biophys.uni-duesseldorf.de wrote: : Przemko (przemko@reks.uia.ac.be) wrote: : : Or (just dreamin') a Mosaic access... [...] One very important argument why MOSAIC _cannot_ be used is that the client by definition does not implement 'conditional input' - i.e. the evaluation of parameters depending on other input. example: sequence DNA : wordsize 6 sequence Protein: wordsize 2 Even worse, input which requests the 'read' of earlier data fails entirely: example: sequence: test.seq From? To? As the FORMS evaluation takes place as 'batch' you need to specify all and everything before you even start and, thus, have very little chance to be realistically implemented in a one-shot page. We have been successful to create a stateful WWW server (reference below), but this is only useful for synchronous queries, as the client 'hangs' and waits for an answer. The subsequent presentation of pages, in particular FORMS pages, might be not performing as well as you would like to see, due to the time required for computation and transmission of the page. Sequence searching, in particular, is not suited for synchronous requests. Apologies to all who do not read this thread for the sake of Mosaic, the discussion should be rethreaded to bionet.software.www. A couple of URL's follow. Regards Reinhard

Paper on stateful WWW server (preliminary copy, final still pending:

Keywords: applications, biology, indexing, databases
Title: The use of WWW in Biological research
Author: R.Doelz <doelz@comp.bioz.unibas.ch>
Institute: Biocomputing Basel, CH
Author: T.Etzold <etzold@embl-heidelberg.de>
Institute: EMBL Heidelberg, DE
PostScript, HTML document

Conference workshop: Use of WWW in Biology

There is an extensive list of topics and a discussion group which you are invited to read.

The workshop final report is available from Biozentrum der Universitaet Basel and CUI (also in Postscript).

-- 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 Mon Sep 19 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: przemko@reks.uia.ac.be (Przemko) Subject: Mosaic cont. Message-ID: <1994Sep19.110216.16063@reks.uia.ac.be> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Antwerp Date: Mon, 19 Sep 1994 11:02:16 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 17 Hi! Thank you all for responding to my questions about Mosaic. I think I understand now the problem of forms etc. I was not aware of this particular limitation of the software. I agree that there are mail servers that can do the job. Once you learn all the switches etc, it goes rather smoothly. On the other hand it would be nice to have a possibility of submitting queries by Mosaic and get the answer by e-mail. One of advatages, mentioned somwhere in the thread, would be that we could "dispense" with varioous file formats. If, in the input window I could put a file name containing ONLY a sequence, each server could format this sequence to its liking. I would not have to worry about // or ; or 1 or anything like that. Just a thought Przemko From owner-www@net.bio.net Mon Sep 19 23:00:00 1994 Path: biosci!agate!howland.reston.ans.net!EU.net!Germany.EU.net!news.dfn.de!scsing.switch.ch!yogi!bioftp.unibas.ch!moderate Newsgroups: bionet.software.gcg,bionet.software.www Subject: Re: X or Mosaic in future Interface Design? Message-ID: <35jp2e$fhf@rc1.vub.ac.be> From: marc@dec5.ulb.ac.be (marc colet) Date: Mon, 19 Sep 1994 10:27:26 GMT Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Brussels Free Universities VUB/ULB Approved: bio-www@comp.bioz.unibas.ch Lines: 93 Xref: biosci bionet.software.gcg:745 bionet.software.www:35 Reinhard Doelz (doelz) wrote: : [Discussion is whether a command-line driven program package (example: : Genetics Computer Group, GCG Inc, Madison) is evolving correctly into : an X-based Graphical User Interface or whether Mosaic can be used]. : [the earlier thread on this can be reviewed using the following URL: : X-GCG ] : micha@amber.biophys.uni-duesseldorf.de wrote: : : Przemko (przemko@reks.uia.ac.be) wrote: : : : Or (just dreamin') a Mosaic access... : [...] : One very important argument why MOSAIC _cannot_ be used is that the client : by definition does not implement 'conditional input' - i.e. the evaluation : of parameters depending on other input. : example: : sequence DNA : wordsize 6 : sequence Protein: wordsize 2 : Even worse, input which requests the 'read' of earlier data fails entirely: : example: : sequence: test.seq : From? To? : As the FORMS evaluation takes place as 'batch' you need to specify all and : everything before you even start and, thus, have very little chance to : be realistically implemented in a one-shot page. We have been successful : to create a stateful WWW server (reference below), but this is only useful : for synchronous queries, as the client 'hangs' and waits for an answer. : The subsequent presentation of pages, in particular FORMS pages, might be : not performing as well as you would like to see, due to the time required : for computation and transmission of the page. : Sequence searching, in particular, is not suited for synchronous requests. : Apologies to all who do not read this thread for the sake of Mosaic, : the discussion should be rethreaded to bionet.software.www. A couple of : URL's follow. : Regards : Reinhard : :

:

Paper on stateful WWW server (preliminary copy, final still pending:

: Keywords: applications, biology, indexing, databases
: Title: The use of WWW in Biological research
: Author: R.Doelz <doelz@comp.bioz.unibas.ch>
: Institute: Biocomputing Basel, CH
: Author: T.Etzold <etzold@embl-heidelberg.de>
: Institute: EMBL Heidelberg, DE
: PostScript, : HTML document :

Conference workshop: Use of WWW in Biology

: There is an : : extensive list of topics and a discussion group which you are : invited to read.

The workshop final report is available from : Biozentrum der : Universitaet Basel and : CUI : (also in : : Postscript). :

: -- : 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 I do not agree with Reinhard when he is saying that 'conditional input' is an important argument no to use MOSAIC as an interface to GCG. The reason is that if you put the "-Default" in the command_line, the conditional parameters will be adapted to what is necessary, EXAMPLE: sequence DNA : the -Def parameter will do that it is NOT NECESSARY for you to enter any value for wordsize, it will be by default 6 sequence PROTEIN : the -Def will do that wordsize will be 2 . Of course the interface must offer the possibility to modify the defaults values, but in any case program will run correctly by ajusting to appropriate default those parameters you did'nt touch. Regards Marc Colet From owner-www@net.bio.net Wed Sep 21 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Re: documentation on mosiac Message-ID: <1994Sep22.063137.23321@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 22 Sep 1994 06:31:37 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 31 Sharokh (sharokh@ramp.com) wrote: : I've already setup my home page, but I was wondering if there is any : documentation out there to develop and create multi-pages, programming, etc : for mosiac/www. Even like how to include graphic files in X and other : graphic interface. Any suggestion would be greatful. Thanks In the Mosaic 'Help' button at the top-right of the screen is a pointer to a FAQ which might be useful. The NCSA httpd has a couple of tutorials The CERN httpd is basically compatible with the NCSA one but has some nice features which are diffrent from NCSA's. The CERN server FAQ is on CERN . In particular, the 'Common Gateway Interface' (CGI) is important, see the corresponding documentation . Regards Reinhard -- 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 Sep 21 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: sharokh@ramp.com (Sharokh) Subject: documentation on mosiac Message-ID: <35qjsf$ie8@glock.ramp.com> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: OnRamp Incorporated. Date: Thu, 22 Sep 1994 00:41:51 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 11 Hi, I've already setup my home page, but I was wondering if there is any documentation out there to develop and create multi-pages, programming, etc for mosiac/www. Even like how to include graphic files in X and other graphic interface. Any suggestion would be greatful. Thanks sharokh sharokh@ramp.com From owner-www@net.bio.net Thu Sep 22 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Rafe Ronkin Subject: Re: documentation on mosiac Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Thu, 22 Sep 1994 19:33:05 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 7 Can someone kindly direct me to on-line sources (via gopher or ftp) for basic info (entry-level, how-to) on www, Mosaic? Thank you. Rafe R.R. Ronkin rronkin@vita.org From owner-www@net.bio.net Thu Sep 22 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: hoffman@cs.unc.edu (Doug Hoffman) Subject: BioSCAN web pages updated Message-ID: <35sid9$i4e@ashe.cs.unc.edu> Keywords: bioscan www sequence comparison Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: The University of North Carolina Date: Thu, 22 Sep 1994 18:28:57 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 31 The BioSCAN development group at UNC Chapel Hill is pleased to announce a new and improved version of the BioSCAN Online web pages. The new version of BioSCAN Online features separate query forms for protein and nucleic acid sequences, new query and report options, and longer, more descriptive database and similarity table names. We hope that these changes will make access to the BioSCAN server easier than ever. For more information regarding the BioSCAN server you can access the BioSCAN Home Page at http://www.cs.unc.edu/bioscan/bioscan.html To peruse the new web pages you can use http://www.cs.unc.edu/bioscan/online.html As always we look forward to your comments and suggestions regarding any and all aspects of the BioSCAN project. Try scanning with your favorite sequence today. Regards, Doug ============================================================================= Doug L. Hoffman | University of North Carolina - Chapel Hill 3213 NC 62 East | hoffman@cs.unc.edu Liberty, NC 27298 | Work: (919) 962-1883, Home: (919) 565-4845 ============================================================================= "Democracy, which is a charming form of government, full of variety and disorder, and dispensing a sort of equality to equals and unequals alike" Plato, _The Republic_ From owner-www@net.bio.net Thu Sep 22 23:00:00 1994 Newsgroups: bionet.software.gcg,bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: nrd@scrapie.med.umn.edu (Neal Dalton) Subject: Re: X or Mosaic in future Interface Design? Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Minnesota, Twin Cities Date: Thu, 22 Sep 1994 16:06:48 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 40 Xref: biosci bionet.software.gcg:748 bionet.software.www:41 Reinhard Doelz (doelz) wrote: : [Discussion is whether a command-line driven program package (example: : Genetics Computer Group, GCG Inc, Madison) is evolving correctly into : an X-based Graphical User Interface or whether Mosaic can be used]. : [the earlier thread on this can be reviewed using the following URL: : X-GCG ] : micha@amber.biophys.uni-duesseldorf.de wrote: : : Przemko (przemko@reks.uia.ac.be) wrote: : : : Or (just dreamin') a Mosaic access... : [...] : One very important argument why MOSAIC _cannot_ be used is that the client : by definition does not implement 'conditional input' - i.e. the evaluation : of parameters depending on other input. This really doesn't matter! It the user enters a bad combination, the software better send a error. Especailly since GCG is already set-up for batch mode, hence the command line options. : As the FORMS evaluation takes place as 'batch' you need to specify all and : everything before you even start and, thus, have very little chance to : be realistically implemented in a one-shot page. It would mainly be implemented as a huge form with all the defaults values. Then people can change them. The CGI interface would need to make a URL to the output files or grab them and make a html. Timeout for larger runs might be a problem. : Sequence searching, in particular, is not suited for synchronous requests. That depends on the machine you run them on. Neal From owner-www@net.bio.net Thu Sep 22 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: The JAM Format and its use Message-ID: <1994Sep23.055741.25894@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Fri, 23 Sep 1994 05:57:41 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 24 S E M I N A R O N ' J A M ' L A N G U A G E * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * The Documentation of Biological Environments is difficult to achieve if several formats, styles and media (printed/electronic) are to be considered. The JAM language (Just Another Metafile) is a simple-to-use language to be used in order to produce HTML, RTF or TaTEX format. As a special feature, the HTML version allows to have jobs executed on the client's (VMS/UNIX) machine. The purpose of the seminar is to introduce basic concepts and to discuss implementation matters. Date: September 30, 1994, noontime GMT Place: EMBnet Cafe @BIOMOO * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * -- 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 Mon Sep 26 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: robison%%lipid.harvard.edu@HULAW1.HARVARD.EDU Subject: Re: Mosaic cont. Message-ID: <01HHK91C3U769KNH38@HULAW1.HARVARD.EDU> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Mon, 26 Sep 1994 12:51:04 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 70 Relay-Version: VMS News - V6.0-3 14/03/90 VAX/VMS; site hulaw1.harvard.edu Path: lipid!robison Newsgroups: bionet.software.www Subject: Re: Mosaic cont. Message-ID: <1994Sep26.085056.34948@hulaw1.harvard.edu> From: robison@lipid.harvard.edu (Keith Robison) Date: 26 Sep 94 08:50:54 EDT References: <1994Sep19.110216.16063@reks.uia.ac.be> Nntp-Posting-Host: lipid.harvard.edu X-Newsreader: TIN [version 1.2 PL2] Lines: 58 Przemko (przemko@reks.uia.ac.be) wrote: : Hi! : Thank you all for responding to my questions about Mosaic. I think : I understand now the problem of forms etc. I was not aware of this : particular limitation of the software. : I agree that there are mail servers that can do the job. Once you : learn all the switches etc, it goes rather smoothly. As pointed out earlier in this thread, the "problem" with Mosaic & complex program setup is that various Form items cannot interact with each other. Hence the user can't be prevented from setting conflicting switches, or encouraged to set necessary ones in a context-dependent manner. Of course, neither can E-mail or command-line programs. The real problem is that once we humans get a fancy interface like Mosaic, we (rightfully) expect such higher-level interface smarts. Mosaic isn't the first program to bump into this; it is a minor annoyance in GDE. In such cases, the complications of providing a dependency meta-language are formidable. : On the other hand : it would be nice to have a possibility of submitting queries by : Mosaic and get the answer by e-mail. Several servers already work this way (such as the EBI/EMBL's Blitz server). This is a server issue, not a client (Mosaic) issue. Of course, having the returned input pop-up back in Mosaic is a client-end issue, but I think MIME-compliant mail programs should do something of the sort. : One of advatages, mentioned : somwhere in the thread, would be that we could "dispense" with varioous : file formats. If, in the input window I could put a file name : containing ONLY a sequence, each server could format this sequence : to its liking. I would not have to worry about // or ; or 1 or anything : like that. Again, the file format issue is really not a Mosaic problem -- it is a server set-up issue. If the server slurps the input sequence through a tool such as READSEQ, then the format becomes irrelevant. On the other hand, getting the sequence into Mosaic is a client issue. I think I would definitely prefer a means to import a file into the existing text entry areas versus a separate "File Load" form item. First, its safer -- No chance for a default to /etc/passwd. Second, it would mean changing Mosaic only, rather than Mosaic plus changing all those existing forms. Keith Robison Harvard University Department of Cellular and Developmental Biology Department of Genetics / HHMI robison@mito.harvard.edu From owner-www@net.bio.net Wed Sep 28 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: Mosaic cont. Message-ID: Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: University of Minnesota, Twin Cities Date: Wed, 28 Sep 1994 20:50:14 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 30 robison%%lipid.harvard.edu@HULAW1.HARVARD.EDU wrote: : As pointed out earlier in this thread, the "problem" with Mosaic & : complex program setup is that various Form items cannot interact : with each other. The software or CGI should tell them the error when they run it. Just like if you where doing it from a command line or email. It the software doesn't handle this, the software is broken. To work around the bug in the software, the CGI can do the error checking. : The real problem is that once we humans get a fancy interface : like Mosaic, we (rightfully) expect such higher-level interface smarts. I don't know about rightfully. Rightfully, the software should do error checking. : On the other hand, getting the sequence into Mosaic is a client issue. One option is to provide a ftp address that the CGI can grab. That is until they fix this in the Mosaic clients. Which I believe they plan on doing. Yes, it would be nice, if you could have the client check your params for you. But it would take away much of the elegance of HTML. Neal From owner-www@net.bio.net Wed Sep 28 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: Cleveland A Gibbon Subject: [Q] WWW Forms Message-ID: <1994Sep29.064619.3119@comp.bioz.unibas.ch> Summary: Using POST method WWW forms Keywords: forms Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Nottingham University Date: Tue, 27 Sep 1994 14:17:26 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 30 Hi, In a nutshell, I am playing with the POST method of WWW form concept. I am using the WWW Browser, Mosaic, and have copied/mutilated the post-query.c C program. This program allows you to get the information from the form and anything you print to the stout is display on the WWW. However, when I try to store the information from these forms in a file it creates a file that I cannt find. Ideally, all I want to do is the display the information the user has input back to them(I have succeeded here) and then email myself a copy of what they have input. - Is this possible.... - Cleve ---------------------------------------------------------------- - Learning Technology Research, Email: cag@cs.nott.ac.uk Dept. of Computer Science, Tel: +44 602 514239 Nottingham University, Fax: +44 602 514254 Nottingham, NG7 2RD. ENGLAND - WWW address: http://www.crg.cs.nott.ac.uk/ceilidh/c.gibbon ---------------------------------------------------------------- From owner-www@net.bio.net Thu Sep 29 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: bks@s27w007.pswfs.gov (Bradley K. Sherman) Subject: Forest tree genome research updates on WWW Message-ID: <36g4ei$1sq@overload.lbl.gov> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: Dendrome, A Genome Database for Forest Trees Date: Fri, 30 Sep 1994 04:33:22 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 7 The publication, Dendrome Forest Tree Genome Research Updates, is now available as URL http://s27w007.pswfs.gov/Newsletter/index.html From owner-www@net.bio.net Thu Sep 29 23:00:00 1994 Newsgroups: bionet.software.www Path: biosci!daresbury!bioftp.unibas.ch!moderate From: doelz (Reinhard Doelz) Subject: Meeting on the Interconnection of Molecular Biology Databases Message-ID: <1994Sep30.065524.4425@comp.bioz.unibas.ch> Sender: moderate@comp.bioz.unibas.ch (Bio-WWW moderator @ EMBnet Switzerland) Organization: EMBnet Switzerland [Basel] Date: Fri, 30 Sep 1994 06:55:24 GMT Approved: bio-www@comp.bioz.unibas.ch Lines: 62 [ Article crossposted from bionet.molbio.genome-program ] [ Author was Peter Karp ] [ Posted on 29 Sep 1994 15:16:24 -0700 ] There is tremendous synergy between the roughly 100 existing molecular-biology databases. Once these databases are interconnected, biologists will be able to integrate diverse sources of information to answer questions that are laborious or impossible to tackle today. A workshop entitled ``Interconnection of Molecular Biology Databases'' was held at Stanford University on August 9-12, 1994. The workshop was sponsored by the National Science Foundation and by the Biomatrix Society, and was organized by Dr. Peter D. Karp of the SRI International Artificial Intelligence Center, with program committee assistance. The meeting brought together 55 bioinformatics researchers, computer scientists, and biologists from nine countries. The participants included members of genome centers at Baylor College of Medicine, the University of Pennsylvania, the Whitehead Institute, Lawrence Berkeley Laboratory, Lawrence Livermore National Laboratory, Genethon, and the Sanger Centre. The workshop surveyed existing molecular-biology databases and the requirements for interoperation among them. Computer scientists presented an overview of the database-operation problem, and of techniques for solving it. Participants described a wide range of approaches to interoperation of molecular-biology databases, that are generating practical results. Existing systems allow multidatabase queries to databases such as Genbank, GDB, and PDB. There now exists no single, final resolution to the interoperation problem. Current approaches differ along a variety of dimensions including ability to handle complex queries, difficulty of implementation, required user expertise, and scalability. An understanding of these dimensions is important when deciding what techniques to employ for a given collection of databases and a given scientific community. The workshop identified a number of barriers to interoperation, such as resistance to standards, inaccessibility of existing databases to structured query via Internet, and poor documentation of many databases. But interoperation is proceeding at a rapid pace that promises to fuel scientific discovery. Scientists can use the Internet to access the following hypertext documents from the SRI International Web servers starting at URL http://www.ai.sri.com/people/pkarp/mimbd.html: o The final report of the workshop o Abstracts from the workshop participants o The meeting agenda o The call for participation and summary of workshop goals o Contact information for workshop participants o A summary of biological databases, including Web pointers to many of them -- 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 Fri Sep 30 23:00:00 1994 Path: biosci!biosci!not-for-mail From: mangalam@uci.edu (Harry Mangalam) Newsgroups: bionet.announce,bionet.general,bionet.molbio.proteins,bionet.software.www,bionet.xtallography,infosystems.announce,infosystems.www.providers,comp.internet.library,sci.bio Subject: Protein Science Web Server Up. Date: 1 Oct 1994 16:40:27 -0700 Organization: Microbiology and Molecular Genetics, UC Irvine Lines: 62 Sender: biohelp@net.bio.net Approved: bionews-moderator@net.bio.net Distribution: world Message-ID: NNTP-Posting-Host: net.bio.net Xref: biosci bionet.announce:1456 bionet.general:11375 bionet.molbio.proteins:2792 bionet.software.www:48 bionet.xtallography:1201 comp.internet.library:945 sci.bio:11129 Posted ########## Announcing the Protein Science Web Server ############## # # # http://www.prosci.uci.edu/ # # # #################################################################### The Web Server for the eventual on-line publication of the journal Protein Science is now in operation. We have completed the first phase of the project which includes: * General information about Protein Science (editors, history, instructions for authors, etc.) * An introduction to the Web and the Internet through links to other Web sites * A message center for correspondence with the Protein Science (editorial office, the Protein Society, Cambridge Univ. Press) * On-line access to all kinetic protein images (kinemages) published in Protein Science to date [kinemages are viewed with MAGE software] * Instructions for setting up MAGE as an external viewer for kinemages using WinMosaic, WinWeb, Cello, and MacWeb as Web browsers (includes information about the various browsers) * Access to various Web sites expected to be of interest to Protein Scientists The Protein Science Gopher Space (gopher://ftp.uci.edu:1071/11/protein) continues to operate and is accessible from the Protein Science Home Page. The Protein Science Web Server is maintained by Louise Falevsky (falevsky@uci.edu) who is responsible for all technical aspects of its creation. Louise and I would be pleased to receive your comments and suggestions. If your Web site contains links to the Protein Science Gopher Space, we would appreciate it if you would add a link to our home page. If you do not have a link yet, perhaps you will consider adding one. Stephen White ************************************************* * Prof. Stephen White * * Dept. of Physiology & Biophysics * * Univ. of California * * Irvine, CA 92717-4560 * ************************************************* * Internet: blanco@helium.biomol.uci.edu or * * SHWhite@uci.edu * * http://helium.biomol.uci.edu/shw.shtml * ************************************************* * Voice: 714-856-7122 Fax: 714-856-8540 * ************************************************* ---------------------------------------------------------------------- Posted by Harry Mangalam (mangalam@uci.edu) by request. -- Harry Mangalam, VCO/Micro+Mol Genetics, Irvine Hall, College of Medicine, UC Irvine, Irvine, CA, 92717, Vox:(714) 856-4824, Fax:(714) 725-2118, mangalam@uci.edu There's no better glory, when it all gets harried, to be laughing in the midst of it all. --- Doug and the Slugs ---