X or Mosaic in future Interface Design?

marc colet marc at dec5.ulb.ac.be
Mon Sep 19 05:27:26 EST 1994

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: 
: <a href=gopher://gopher.bio.net/77/.wais-sources/biosci?mosaic+and+przemko+not+merck> X-GCG  </a>]

: micha at amber.biophys.uni-duesseldorf.de wrote:
: : Przemko (przemko at 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 


: <p>
: <h2> Paper on stateful WWW server (preliminary copy, final still pending:</H2>
: <EM>Keywords:</EM> applications, biology, indexing, databases<BR>
: <EM>Title:</EM><B> The use of WWW in Biological research</B><BR>
: <EM>Author:</EM> R.Doelz &lt;doelz at comp.bioz.unibas.ch&gt;<BR>
: <EM>Institute:</EM> Biocomputing Basel, CH<BR>
: <EM>Author:</EM> T.Etzold &lt;etzold at embl-heidelberg.de&gt;<BR>
: <EM>Institute:</EM> EMBL Heidelberg, DE<BR>
: <A HREF="http://www1.cern.ch/PapersWWW94/doelz.ps">PostScript</A>, 
: <A HREF="http://beta.embnet.unibas.ch/conference/paper.html"> HTML document </a>
: <p> <h2>Conference workshop: Use of WWW in Biology</h2>
: There is an 
: <a href="http://beta.embnet.unibas.ch/conference/welcome.html">
: extensive list of topics and a discussion group </a> which you are 
: invited to read.  <p> <h4>The workshop final report is available from
: <a href="http://www.embnet.unibas.ch/bio-www/www-bio.html">Biozentrum der
:     Universitaet Basel</a> and
: <a href= "http://cui_www.unige.ch/WWW94/Workshops/Biology.report.html">CUI</a>
:     (also in 
: <a href= "http://cui_www.unige.ch/WWW94/Workshops/Biology.report.ps">
:     Postscript</a>).
: </h4>

: -- 
:  R.Doelz         Klingelbergstr.70| Tel. x41 61 267 2247  Fax x41 61 267 2078|
:  Biocomputing        CH 4056 Basel| electronic Mail    doelz at ubaclu.unibas.ch|
:  Biozentrum der Universitaet Basel|-------------- Switzerland ---------------|
: <a href=http://beta.embnet.unibas.ch/>EMBnet Switzerland:info at ch.embnet.org</a> 
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
       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.

Marc Colet

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