- chemweb - imperial.ac.uk

chemdraw to gif
by G.P.Moss 01 Mar '96

01 Mar '96

I have no problem on the mac with chemdraw files if saved as a pict file. This can then be converted to gif by the shareware GraphicConverter. For the best effect I then set the background to transparent (from the colour setting). I have converted 100's of files this way on my IUPAC nomenclature Web pages which I will circulate details with a following message. Gerry Moss ___________________________________________________________________ Dr GP Moss Telephone: +44 171 775 3262 Department of Chemistry Queen Mary & Westfield College Facsimile: +44 181 981 8745 Mile End Road London E1 4NS, United Kingdom E-mail: g.p.moss(a)qmw.ac.uk World Wide Web server: http://www.qmw.ac.uk/~ugca000/chemistry.html IUPAC data base http://www.qmw.ac.uk/~ugca000/iupac.html ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Re: Converting Mac Chemdraw images to PC gif images. How?
by Dr. Alan Wilson 01 Mar '96

01 Mar '96

> At Bristol, we have the unfortunate situation of the Organic and > Inorganic Depts using Macs, while we in Physical Chemistry (including > me, the webmaster), use PCs and UNIX. Ditto!! However the WWW stuff is done on Macs so this is kind of an inverse problem...some of the following may therefore not be relevant. > The text is just about do-able, but I'm having real problems converting > the Chemdraw files. The best I've come up with is to get the author to My solution to the whole problem is not nice, but works. I use my PC to read in Mac files (eg Microsoft Word + embedded ChemDraw) which works ok. I then use Paint Shop Pro to cut out the images - drop them down to 8 bits and save as gifs. The rest of the processing is done on the Macs using Graphic Converter (resize, reduce res. to 72dpi, make transparent etc.) The good thing is that the Macs will read PC disks (if you have PC Exchange) and therefore anything I create on my PC can be read on the server (in fact I set my PC up as an FTP server and use Fetch on the Macs to pull over the images etc..) So... what does this mean for your problem? I guess that if you can get people to write their stuff on a PC disk that would help. Mac files with OLE information shouldn't present a problem. If you have Mac disks with only ChemDraw files, again they are readable by the PC version and you can cut and paste them into PSP when they are open. Sorry if this sounds a bit convoluted but it's almost going home time and I'm not ready for it... Alan Dr. Alan Wilson School of Chemistry University of Birmingham, UK V 0121-414-7189 F 0121-414-4403 E a.wilson(a)bham.ac.uk ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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MOTM
by Paul May 01 Mar '96

01 Mar '96

Hi, It's March, so we have a new Molecule of the Month, kindly provided by Alan Wilson at Birmingham. The direct address for it is: http://chemwww.bham.ac.uk/motm/motm.html or you can get to it (and all the previous MOTMs) from the MOTM Home page at: http://www.bristol.ac.uk/Depts/Chemistry/MOTM/motm.htm We have at least 3 more MOTMs in preparation, but that only takes us till the summer. So, does anyone fancy writing one for June or July? Regards, ----------------------------------------------------------------------------- Dr Paul May, School of Chemistry, University of Bristol, UK tel: +44 (0)117 9287667, fax: +44 (0)117 9251295 email: paul.may(a)bris.ac.uk WWW: http://www.bris.ac.uk/Depts/Chemistry/staff/pwm.htm "Another squashed hedgehog in the gutter of the information superhighway" ----------------------------------------------------------------------------- ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Using Chemscape Chime
by h.rzepa＠ic.ac.uk 29 Feb '96

29 Feb '96

The way one can embed a chemical document within a HTML window is to use the following syntax; <embed border=0 src="halo.pdb" align=abscenter width=150 height=150 spiny=360 startspin=true display3D=ball&stick PLUGINSPAGE="http://www.ch.ic.ac.uk/cgi-bin/plugin.cgi"></embed> <noembed> <A HREF="halo.pdb"><IMG width=150 height=150 SRC="halo.gif" alt="chemical MIME"></A></noembed> Verious less obvious items need explanation; 1. The file halo.pdb returns the MIME header chemica/x-pdb from the WWW server. This instructs Netscape (the only browser to support plug-ins, although another is apparently on its way) to look for a plug-in supporting this MIME type. 2. The commands height=150 etc are recognised by the Chemscape Chime plug-in, which reads the file and produces an image. If two plug-ins both exists supporting the MIME type, they are resolved alphabetically (ie Chime would be used instead of e.g XMol) 3. If no plug-in exists in the plugins folder, control is passed to the following script; PLUGINSPAGE="http://www.ch.ic.ac.uk/cgi-bin/plugin.cgi which will provide information about the MIME types, etc etc. This works on a Mac, but I am not sure about Windows or Unix. 4. If the user is not using Netscape 2, the contents of <noembed> are displayed (Netscape 2 suppresses them), thus ensuring that something at least happens. Dr Henry Rzepa, Dept. Chemistry, Imperial College, LONDON SW7 2AY; rzepa(a)ic.ac.uk; Tel (44) 171 594 5774; Fax: (44) 171 594 5804. URL: http://www.ch.ic.ac.uk/rzepa/ ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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UK Mirror for MDLI's Chime Netscape PlugIn
by Dr Alan Mills 28 Feb '96

28 Feb '96

For those who still have difficulty getting hold of the Chime Netscape PlugIn from MDL Information Systems Inc's US site, we have put up a UK mirror for MDLI. It is at http://www.venus.co.uk/mdli/chemscape/chime/chime.html and includes a sample page with which to test the PlugIn, and screenshots of what it looks like in operation. This is an attempt to help overcome bandwidth problems experienced by people on this list, and should not be construed in any way as a product endorsement. Rgds., Alan Mills at Venus Internet Ltd, 24 Denmark Street, London WC2H 8NJ, UK email:alan@venus.co.uk web:http://www.venus.co.uk Tel: +44 (0)171 240 5858 Fax: +44 (0)171 240 5859 Providing Web and Internet services and solutions ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Chime and External Helpers
by h.rzepa＠ic.ac.uk 27 Feb '96

27 Feb '96

The implications of using plug-ins are actually quite subtle and interesting. For example, MDLI Chemscape Chime has encoded internally some six chemical MIME types. When used as a plug-in, it appears to delete all these types from the options/general/helpers list that Netscape uses. The user does have the option of re-installing external helpers for chemical MIME, and these do take precedence over the plug-in definitions. What happens when for example two plug-ins both use the same MIME type is uncertain, largely because we have not yet found two plug-ins that address the same MIME type. The other aspect we are trying to resolve is that when the plug-in for a MIME type is not installed, and the HTML document references e.g a pdb file using an <embed> tag, Netscape invokes the following script; http://cgi.netscape.com/eng/mozilla/2.0/extensions/plugin.cgi?chemical/x-pdb Currently, Netscape have not implemented any info on chemical MIME, but when they do, some people might presume that this will act as the de-facto source of information on the topic. We are trying to find out if Netscape might be willing to put something useful to the chemical community into the response that http://cgi.netscape.com/eng/mozilla/2.0/extensions/plugin.cgi? produces. It is also possible to change the resource strings using an editor (such as ResEdit on a Mac) to redirect this to say; http://www.ch.ic.ac.uk/chemime/ but this runs the risk of contravening the Netscape license. We hope that the answers to these and other questions will be resolved shortly. If anyone has other thoughts/questions etc about the use of plug-ins in this context, do please send them to this list. Dr Henry Rzepa, Dept. Chemistry, Imperial College, LONDON SW7 2AY; rzepa(a)ic.ac.uk; Tel (44) 171 594 5774; Fax: (44) 171 594 5804. URL: http://www.ch.ic.ac.uk/rzepa/ ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Chime Netscape plug in
by Stuart J. Fairall 23 Feb '96

23 Feb '96

If anyone wants a copy and indeed can place it somewhere more appropriate then a copy is available at:- http://www.dmu.ac.uk/~sfairall/chi08w95.exe Installs with a seamless no input installation. Hasn't made my Netscape 2/ Win 95 setup any slower or less stable than it was already. The Tags used to include it are simple and the embedded objects appear seamlessly and indeed due to the file sizes download faster than conventional graphics would. The display options available on the right click menu are reasonably comprehensive and the speed of response to changes in rendering is good. At present I cant quite see how to use RasMol as well and indeed cant even associate it again. When using it to view a standalone pdb file it seems to dislike resizing the window size and doesn't always update. Very interesting to see although rotating molecules on loading is a bit gee whizz. However how many people are using Netscape 2? I'm in the minority here and certainly our students won't be using it until it improves. ************************************************************** * Stuart J. Fairall * * sfairall(a)dmu.ac.uk * * http://www.dmu.ac.uk/~sfairall * * * * "If there was a GOD things like LIFE wouldn't happen." * * * ************************************************************** ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Answers to some of the Questions about Chemscape Chime
by Bryan Van Vliet 22 Feb '96

22 Feb '96

I am the project manager for Chemscape at MDL. With regard to some of the questions regarding Chime(tm): * Do not download chi08w95.exe from www.dmu.ac.uk. This is an old version of Chime. We have addressed some of the initial problems discovered in this version (0.8), and have released Version 0.8a. Among the important problems we have fixed are installation failures and crash-related errors. You can download Version 0.8a, at our Web site http://www.mdli.com. We are also now providing a 16-bit version for Windows 3.1. MDL would like to have a mirror site on the other side of the Atlantic, but we would like to have the full set of Chime pages mirrored, which include an FAQ for using Chime. We will try to arrange this with one of the UK sites. * We are expiring Chime at the end of March because it is a prototype that we don't want floating around forever. We will be providing newer versions of Chime on our Web page and want users to move to them and avoid running into bugs which have already been fixed. Our intent is to make Chime free for academic users and personal use at home even for final versions. We also intend to make it free for commercial sites, but are struggling with the issue of how we would provide support services, which are important to companies. * This is a prototype (pre-Beta), and we do expect users to find problems. We plan to use the Web to provide updates as quickly as possible and address any problems. * We will be providing a Macintosh version as well as an SGI version. The Macintosh version is scheduled for completion by the end of April, but may be released (in prototype form) sooner. The SGI version is not due until early summer. * It will support TGF as well as 2D MDL Molfile and RxnFile. (There is a mistake in our FAQ regarding TGF support which I will correct.) We will be incorporating the necessary structure rendering code to do this in an upcoming version. * Netscape supports a NOEMBED tag which allows for an alternative to just displaying a blank page or "broken" plug-in image. We will have details on this in our FAQ, but just to be clear, the format is: <NOEMBED> HTML to be ignored </NOEMBED> For example: <EMBED SRC="sample1.rpm" WIDTH=300 HEIGHT=134> <NOEMBED> <A SRC="sample1.ram"> Play the audio using helper app! </A></NOEMBED> We appreciate all of the feedback on Chime and will strive to address any problems. Thank you. Bryan -- Bryan Van Vliet Project Manager, Internet Technologies MDL Information Systems, Inc. bryan(a)mdli.com 510.895.1313 x1160 ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Re: Chime Netscape plug in
by jsb2＠camsci.com 22 Feb '96

22 Feb '96

>>However how many people are >>using Netscape 2? I'm in the minority here and certainly >>our students won't be using it until it improves. > >On our site, 49% of all browsers visiting are Netscape 2, 41% >are V 1.0, Mosaic is 2% and the rest nowhere. This is for >82000 hits over the last 10 days or so. Interestingly, 13% >were Windows-95, 32% Win-31, and 22% Mac. Interesting. On our site, from 10/Feb through 19/Feb, Netscape 2 was barely 33% of traffic. Netscape 1.x was about 47%. This is counting unique site-days: if one person looks at 10 pages, it counts the same as a second person looking at 1 page. MSIE figures excluded, of course. I think this is the most accurate way to measure browser distribution. What fraction of your users are local? I could see the numbers being skewed if, for example, Netscape 2.0 were readily available on a campus local server... Jonathan Brecher CambridgeSoft Corporation jsb(a)camsoft.com ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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Re: Chime Netscape plug in
by h.rzepa＠ic.ac.uk 22 Feb '96

22 Feb '96

>However how many people are >using Netscape 2? I'm in the minority here and certainly >our students won't be using it until it improves. On our site, 49% of all browsers visiting are Netscape 2, 41% are V 1.0, Mosaic is 2% and the rest nowhere. This is for 82000 hits over the last 10 days or so. Interestingly, 13% were Windows-95, 32% Win-31, and 22% Mac. I dont think Netscape 2 is a minority from this! Dr Henry Rzepa, Dept. Chemistry, Imperial College, LONDON SW7 2AY; rzepa(a)ic.ac.uk; Tel (44) 171 594 5774; Fax: (44) 171 594 5804. URL: http://www.ch.ic.ac.uk/rzepa/ ----- chemweb: A list for Chemical Applications of the Internet. Archived as: http://www.ch.ic.ac.uk/hypermail/chemweb/ To unsubscribe, send to listserver(a)ic.ac.uk the following message; unsubscribe chemweb List coordinator, Henry Rzepa (rzepa(a)ic.ac.uk)

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