From owner-srs@net.bio.net Sat May 03 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!uwm.edu!newsfeeds.sol.net!news.maxwell.syr.edu!news-was.dfn.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Ramu Chenna Newsgroups: bionet.software.srs Subject: A Simple CGI with Icarus Date: 4 May 1997 15:40:07 GMT Organization: EMBL Heidelberg Lines: 60 Distribution: world Message-ID: <5kiakn$9be@lion.embl-heidelberg.de> NNTP-Posting-Host: shag.embl-heidelberg.de Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 1.12IS (X11; I; IRIX 5.3 IP22) To: etzold@ebi.ac.uk X-URL: news:bionet.software.srs?ALL Hello All I hope it is not too early to post this! Icarus will be more fun when function calls made available. You can add this as an example for teaching icarus. Ramu #!/usr/bin/icarus # # # A simple icarus cgi example # # Chenna Ramu # EMBL, Heidelberg, Germany # # html variables $tr = "" $tre = "" $ntd = "" $mime_html = "Content-type: text/html\n\n" $html_header = | \ | icarus example \ |

A Simple CGI example by Icarus

\ | $html_trailer = "
Name Value
" $rule = { allEnv: ~ line+ ~ line: ~ /([^=]+)=([^\n]+)?/ { $Print:"$tr $1 $ntd $2 \n"} /\n/ ~ } # get the envoronment variables $envi = ($System:env) $Print:$mime_html $Print:$html_header #do the job $Parse:[$envi prod:$rule start:allEnv] $Print:$html_trailer =============================================================== Chenna Ramu | EMBL E-mail: chenna@embl-heidelberg.de | Postfach 10.2209 Tel: (49) 6221 356229 (Res) | 69012 Heidelberg (49) 6221 387398 (Off) | Germany Fax: (49) 6221 387517 URL: http://www.embl-heidelberg.de/~chenna/ =============================================================== From owner-srs@net.bio.net Mon May 05 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!news.maxwell.syr.edu!news-was.dfn.de!news-kar1.dfn.de!news.embl-heidelberg.de!croma!etzold From: etzold@croma (Thure) Newsgroups: bionet.software.srs Subject: SRS release 5.0.1 Date: 6 May 1997 18:24:55 GMT Organization: EMBL Heidelberg Lines: 69 Distribution: world Message-ID: <5knt1n$lfh@lion.embl-heidelberg.de> NNTP-Posting-Host: croma.ebi.ac.uk X-Newsreader: TIN [version 1.2 PL2] Dear all, Version 5.0.5 is the first version where all buttons and hypertext links in SRSWWW should be functional. This includes the SAVE button! We added a command line option for wgetz that will allow us to download all information about all databanks of your server. The reports from all servers will be compiled into a searchable database of databanks that will replace the 'status page' of SRS4. Please create .it files for databanks you add (see 'SRSDB:template.it' and 'SRSDB:swissprot.it' for an example). We added menus, check lists, multiple selects to the query forms - we are sure it is an improvement in some cases but maybe not always - please give us feedback! As an incentive for you to write .i, .is and .it files: you can see them now in color through the 'databank information page'. The file is at ftp://ftp.ebi.ac.uk/pub/software/unix/srs/srs5.0.5.tar.gz Release notes: SRS version 5.0.5 ================= 1) Added menus, check lists and multiple select lists to query forms in SRSWWW. This can be customized in the ".i" files using attribute .guiInfo of $field and $srsfield and $guiInfo. 2) Added a new function 'PageFlatInfo' to wgetz so that all information about all databank served by SRSWWW can be obtained via a WWW call. This is the foundation for building the 'database of databanks' which will appear once a 'critical mass' of SRS5 servers has been installed. 3) The 'Save' works finally from a single entry, entry list and query manager. 4) All buttons and hypertext links in SRSWWW should now be fully functional. 5) Many little problems have been fixed in the ".i" and ".is" files and a few have been added (not problems but .i and .is files! ...maybe also problems). 6) The .i, .it, .is pages accessible through the 'databank information page' can now be seen in color which is done by 'SRSICA:colicarus.i' 7) The files 'SRSDB:srsdb.i' and 'SRSDB:srsgen.i' can be also accessed in the 'databank information page'. 8) All Icarus examples in the SRS documentation are also colorized. 9) Quite a few sections have been added to the chapter 'SRS Server Maintenance', however, they still need a bit of reviewing. 10) Subentries (features) from EMBLNEW, SWISSPROTNEW can now be safely displayed. 11) The sequence of protein databanks have now the correct size 12) The link to the status page has been replaced by a list of SRS5 servers which will be eventually have a link to the database of databanks. 13) All Icarus functions are now documented and listed within groups Known problems with this release -------------------------------- see also problems with 5.0.2 (srs.relnotes) - none of these have been fixed, instead there is now a new parsing error when doing 'srsinstall doc' ...don't worry about that! -- Thure Etzold, etzold@ebi.ac.uk Giorgio Verde, verde@ebi.ac.uk 5.May, 1997 From owner-srs@net.bio.net Tue May 06 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!news.maxwell.syr.edu!news-was.dfn.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: etzold Newsgroups: bionet.software.srs Subject: Re: SRS release 5.0.1 Date: Wed, 07 May 1997 12:09:51 +0100 Organization: EMBL-EBI Lines: 8 Distribution: world Message-ID: <337062FF.CA2560BB@ebi.ac.uk> References: <5knt1n$lfh@lion.embl-heidelberg.de> NNTP-Posting-Host: idefix.ebi.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.0b3 [en] (Win95; I) X-Priority: 3 (Normal) oh gosh ...i did it again! ...no announcement of a srs5 version without some serious flaw! ...it is of course release 5.0.5! the mistake happened since i had to type the subject about 30 times using 3 different news servers and 4 different clients ...will somebody please show me a news server and client that will ALWAYS work? thure From owner-srs@net.bio.net Tue May 06 23:00:00 1997 Newsgroups: bionet.software.srs Path: biosci!daresbury!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!ebi.ac.uk!news From: etzold Subject: SRS version 5.0.5 Sender: news@ebi.ac.uk (usenet news) Message-ID: <336E66CF.5FCA4DB1@ebi.ac.uk> X-Priority: 3 (Normal) Date: Mon, 5 May 1997 23:01:35 GMT Content-Transfer-Encoding: 7bit Content-Type: text/plain; charset=us-ascii Mime-Version: 1.0 X-Mailer: Mozilla 4.0b3 [en] (Win95; I) Organization: EMBL-EBI Lines: 78 Dear all, Version 5.0.5 is the first version where all buttons and hypertext links in SRSWWW should be functional. This includes the SAVE button! We added a command line option for wgetz that will allow us to download all information about all databanks of your server. The reports from all servers will be compiled into a searchable database of databanks that will replace the 'status page' of SRS4. Please create .it files for databanks you add (see 'SRSDB:template.it' and 'SRSDB:swissprot.it' for an example). We added menus, check lists, multiple selects to the query forms - we are sure it is an improvement in some cases but maybe not always - please give us feedback! As an incentive for you to write .i, .is and .it files: you can see them now in color through the 'databank information page'. The file is at ftp://ftp.ebi.ac.uk/pub/software/unix/srs/srs5.0.5.tar.gz Release notes: SRS version 5.0.5 ================= 1) Added menus, check lists and multiple select lists to query forms in SRSWWW. This can be customized in the ".i" files using attribute .guiInfo of $field and $srsfield and $guiInfo. 2) Added a new function 'PageFlatInfo' to wgetz so that all information about all databank served by SRSWWW can be obtained via a WWW call. This is the foundation for building the 'database of databanks' which will appear once a 'critical mass' of SRS5 servers has been installed. 3) The 'Save' works finally from a single entry, entry list and query manager. 4) All buttons and hypertext links in SRSWWW should now be fully functional. 5) Many little problems have been fixed in the ".i" and ".is" files and a few have been added (not problems but .i and .is files! ...maybe also problems). 6) The .i, .it, .is pages accessible through the 'databank information page' can now be seen in color which is done by 'SRSICA:colicarus.i' 7) The files 'SRSDB:srsdb.i' and 'SRSDB:srsgen.i' can be also accessed in the 'databank information page'. 8) All Icarus examples in the SRS documentation are also colorized. 9) Quite a few sections have been added to the chapter 'SRS Server Maintenance', however, they still need a bit of reviewing. 10) Subentries (features) from EMBLNEW, SWISSPROTNEW can now be safely displayed. 11) The sequence of protein databanks have now the correct size 12) The link to the status page has been replaced by a list of SRS5 servers which will be eventually have a link to the database of databanks. 13) All Icarus functions are now documented and listed within groups Known problems with this release -------------------------------- see also problems with 5.0.2 (srs.relnotes) - none of these have been fixed, instead there is now a new parsing error when doing 'srsinstall doc' ...don't worry about that! -- Thure Etzold, etzold@ebi.ac.uk Giorgio Verde, verde@ebi.ac.uk 5.May, 1997 From owner-srs@net.bio.net Tue May 06 23:00:00 1997 Newsgroups: bionet.software.srs Path: biosci!daresbury!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!ebi.ac.uk!croma!etzold From: etzold@croma (Thure) Subject: SRS release 5.0.1 Sender: news@ebi.ac.uk (usenet news) Message-ID: Date: Tue, 6 May 1997 18:19:07 GMT Organization: European Bioinformatics Institute X-Newsreader: TIN [version 1.2 PL2] Lines: 69 Dear all, Version 5.0.5 is the first version where all buttons and hypertext links in SRSWWW should be functional. This includes the SAVE button! We added a command line option for wgetz that will allow us to download all information about all databanks of your server. The reports from all servers will be compiled into a searchable database of databanks that will replace the 'status page' of SRS4. Please create .it files for databanks you add (see 'SRSDB:template.it' and 'SRSDB:swissprot.it' for an example). We added menus, check lists, multiple selects to the query forms - we are sure it is an improvement in some cases but maybe not always - please give us feedback! As an incentive for you to write .i, .is and .it files: you can see them now in color through the 'databank information page'. The file is at ftp://ftp.ebi.ac.uk/pub/software/unix/srs/srs5.0.5.tar.gz Release notes: SRS version 5.0.5 ================= 1) Added menus, check lists and multiple select lists to query forms in SRSWWW. This can be customized in the ".i" files using attribute .guiInfo of $field and $srsfield and $guiInfo. 2) Added a new function 'PageFlatInfo' to wgetz so that all information about all databank served by SRSWWW can be obtained via a WWW call. This is the foundation for building the 'database of databanks' which will appear once a 'critical mass' of SRS5 servers has been installed. 3) The 'Save' works finally from a single entry, entry list and query manager. 4) All buttons and hypertext links in SRSWWW should now be fully functional. 5) Many little problems have been fixed in the ".i" and ".is" files and a few have been added (not problems but .i and .is files! ...maybe also problems). 6) The .i, .it, .is pages accessible through the 'databank information page' can now be seen in color which is done by 'SRSICA:colicarus.i' 7) The files 'SRSDB:srsdb.i' and 'SRSDB:srsgen.i' can be also accessed in the 'databank information page'. 8) All Icarus examples in the SRS documentation are also colorized. 9) Quite a few sections have been added to the chapter 'SRS Server Maintenance', however, they still need a bit of reviewing. 10) Subentries (features) from EMBLNEW, SWISSPROTNEW can now be safely displayed. 11) The sequence of protein databanks have now the correct size 12) The link to the status page has been replaced by a list of SRS5 servers which will be eventually have a link to the database of databanks. 13) All Icarus functions are now documented and listed within groups Known problems with this release -------------------------------- see also problems with 5.0.2 (srs.relnotes) - none of these have been fixed, instead there is now a new parsing error when doing 'srsinstall doc' ...don't worry about that! -- Thure Etzold, etzold@ebi.ac.uk Giorgio Verde, verde@ebi.ac.uk 5.May, 1997 From owner-srs@net.bio.net Sun May 11 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!news-peer.sprintlink.net!news.sprintlink.net!Sprint!EU.net!sun4nl!sci.kun.nl!not-for-mail From: Jack Leunissen Newsgroups: bionet.software.srs Subject: Unresolved problem in SRS5 Date: Mon, 12 May 1997 15:37:31 +0200 Organization: CAOS/CAMM Center Lines: 34 Message-ID: <33771D1A.41C6@caos.kun.nl> NNTP-Posting-Host: cammsg3.caos.kun.nl Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.0Gold (X11; I; IRIX 6.2 IP22) Dear chaps, I don't want to spoil the overall enthousiasm over the availability of SRS5, but it appears strange to me that nobody seems to care about the fact the SRS5 fails to handle (GCG-) split entries correctly!!! Just try the following on your server, if you use the EMBL and EMNEW database in GCG format: retrieve entry "CEY57G11" from EMNEW... This entry is split into 5 separate entries by GCG, and should be joined by SRS into one. This DOES happen indeed, but with an INCORRECT num- ber of base, due to the fact the overlap fragments are not removed! I tried a few sites, searching for ID=CEY57G11, the original length of which is 486290 bases. version - format - got ID -- with length EMBL: SRS5.04 -- EMBL -- CEY57g11 -- 486290 bases EBI: SRS5.05 -- GCG -- CEY57G11 -- 526290 bases UPPSALA: SRS5.03 -- GCG? -- CEZK1127 -- n.a. This was reported some time ago, but it hasn't been resolved even with the current release! one solution would be to store the database in original EMBL format, but this is hardly acceptable, given the size of the data. Cheers, Jack -- Jack A.M. Leunissen | Email: jackl@caos.kun.nl CAOS/CAMM Center | Tel. : +31 24 365 22 48 University of Nijmegen | Fax : +31 24 365 29 77 Nijmegen, The Netherlands | Www : http://www.caos.kun.nl From owner-srs@net.bio.net Sun May 18 23:00:00 1997 From: (DogZ Software Center) Newsgroups: bionet.software.srs Subject: Microsoft Office 97 costs US$45 ? Shopping Paradise Date: Tue, 20 May 1997 04:46:41 GMT Organization: Netvigator Lines: 60 Message-ID: <5lpi3u$g3s@imsp009a.netvigator.com> NNTP-Posting-Host: hhtam010039.netvigator.com X-Newsreader: Forte Agent .99b.112 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeed.nacamar.de!news-xfer.cybernet.dk!cam-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.gsl.net!news-hk.gsl.net!news.gsl.net!newsgate.cuhk.edu.hk!news2.hkt.net!news.hkt.net.!imsp009a.netvigator.com!locker Windows 95, Visual Foxpro, MS Office 7.0, Visual Basic, Visual C++, Borland C++, Lotus cc:Mail Release 6, Lotus SmartSuite 97, ...... only costs US$45 for all? CorelDraw 7.0! only costs US$45? Hong Kong is the paradise in shopping. You can buy anything you want by an reasonable price. Today, by this chance, we would like to introduce to those who are interest in computing. 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If you want some more details , you can go http://www.hkstar.com/~dogz now. ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ DogZ Software Center From owner-srs@net.bio.net Sun May 18 23:00:00 1997 Path: biosci!internet!biosci!not-for-mail From: biohelp (BIOSCI Administrator) Newsgroups: bionet.software.srs Subject: BIOSCI/bionet miniFAQ & Fundraiser Date: 19 May 1997 02:00:17 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 239 Sender: daemon@net.bio.net Distribution: world Message-ID: <199705190900.CAA18696@net.bio.net> NNTP-Posting-Host: net.bio.net (LAST REVISION: 30-JUL-95) This BIOSCI "miniFAQ" is designed to answer the questions that come up the *most frequently*. The main BIOSCI FAQ (Frequently Asked Questions) is accessible on the World Wide Web at URL http://www.bio.net/. If you can not find an answer to your question in this or other documentation, the BIOSCI technical support staff answers e-mail queries sent to biosci-help@net.bio.net We can only answer questions about the use of the newsgroups and mailing lists. We unfortunately do not have the staff to do Internet information searches or answer scientific questions. Please post those to the appropriate BIOSCI/bionet newsgroups. Contents: -------- 0) BIOSCI NEEDS YOUR SUPPORT!! 1) Using the WWW to access the BIOSCI/bionet newsgroups. 2) What to do about "spams," i.e., junk mail, ads, etc. 3) Examples of subscribing and unsubscribing to the mailing lists. 4) The BIOSCI user address and research interest directory. 0) BIOSCI NEEDS YOUR SUPPORT!! ------------------------------ BIOSCI's government funding has been expended, and we are now operating solely from advertising revenue that we have raised from our Web site at http://www.bio.net/. We need just a few minutes of your time to help us serve you. You can do two important things which will take very little time for you individually and will immensely help us continue to help you. First, please use our WWW system at http://www.bio.net/ to access the archives. You can post or reply to messages via your Web browser as described in item #1 below. Your usage helps attract sponsors. If you contact any of our sponsors, please be sure to thank them for supporting BIOSCI. It is critical for them to get this feedback if they are to continue their sponsorship for the long term. Second, if you work for a company or organization that provides products or services of interest to the biology community, please pass this message on to your marketing or marketing communications department or other appropriate group. Please ask them to help support BIOSCI by sponsoring our Web site and explain the uses and benefits of the system to the biology community. If they are interested, they can then contact us for further information at our tech support address, biosci-help@net.bio.net. 1) Using the WWW to access the BIOSCI/bionet newsgroups. -------------------------------------------------------- As of 10 December 1995, all BIOSCI/bionet full newsgroups are accessible through the World Wide Web (WWW) at URL http://www.bio.net. One can read and reply publicly or privately to both recent postings and archived messages through one's Web browser if it is configured properly to send e-mail. Each newsgroup is equipped with its own WAIS index. The main BIOSCI home page also has access to the BIO-JOURNALS Table of Contents database WAIS index and the BIOSCI user address database described in another item further below. 2) What to do about "spams," i.e., junk mail, ads, etc. ------------------------------------------------------- BIOSCI is a set of parallel USENET newsgroups (the "bionet" groups), mailing lists, and a hypermail archive at URL http://www.bio.net/. The same postings are distributed on all media (except for a small number of mailing-list-only groups at net.bio.net). Unfortunately it is becoming a despicable practice on the Internet (by a few people out to make a fast buck) to do automated mass postings to thousands of newsgroups and mailing lists. These attempts to grab free advertising are refered to as "spams" in the usual, somewhat boneheaded, net terminology. USENET is more susceptible to this practice, and many spams originate on the USENET groups and then are passed on to the mailing lists. However, spammers also get lists of mailing addresses and hit these too, so neither medium is immune. What should you do personally if you get junk mail? --------------------------------------------------- Just delete it and move on without reading it further. Filing a protest is becoming increasingly useless because spammers are often disguising the addresses where the messages are sent from. Unless you really understand Internet mail systems, your attempt at protest by sending replies to the message will often end up being sent to the address of an innocent person that the spammer is victimizing. What can BIOSCI/bionet do to protect its newsgroups? ---------------------------------------------------- The only solution currently available is to moderate the newsgroup. If this newsgroup is already moderated, then you are in good shape. Moderation protects the USENET distribution from about 95% of the spams that are being sent to date and protects the mailing lists completely. Moderation means, however, that someone has to take the time to review each message before it goes out. We have set up software here that simply allows the moderator to forward to an address at net.bio.net messages that (s)he wishes to have distributed. This takes no more time than that needed to read the message and pass it on, say about 1 min. per message. Most newsgroups currently have a discussion leader who is responsible for their newsgroup. The discussions leaders and their e-mail addresses are listed in the BIOSCI Information Sheet which is available on the Web at http://www.bio.net/. If a newsgroup is being hit with too many junk postings, please contact the discussion leader for that group and see if there is interest in moderating the group. Please do not assume that by simply posting a complaint to the newsgroup itself, anyone on the BIOSCI staff will act on your complaint. With close to 100 newsgroups to run, the BIOSCI staff has to rely on the discussion leaders of each newsgroup to report problems directly to us at biosci-help@net.bio.net. We will moderate any of our newsgroups if the discussion leader tells us that the readership of the group wishes to do so and if a moderator is willing to do the work. For most BIOSCI/bionet groups, this entails only a few minutes of work each day. Moderating a newsgroup will resolve probably 95% of the junk postings on the USENET distribution. Unfortunately there are easy ways for determined spammers to override the moderation mechanism on USENET, but we can protect our e-mail subscribers from unwanted postings if the newsgroup is moderated. You can also access our newsgroups over the WWW at URL http://www.bio.net. While this Web interface will not stop spammers from trying to post to the groups, this will give you yet another way, besides using USENET news, to keep the junk out of your personal mail files. For those of you with local USENET news systems, the Web interface will also give you faster access to new newsgroups and recent postings. 3) Examples of subscribing and unsubscribing to the mailing lists. ------------------------------------------------------------------ PLEASE NOTE: The BIOSCI management does NOT act on subscription/unsubscription requests that are posted improperly to the newsgroups and mailing lists. People who do this only bother everyone on the lists to no avail. Please be sure to follow the proper procedures below. Gory details are in the BIOSCI Information sheets on the Web at http://www.bio.net. Below we give an example utilizing the METHODS-AND-REAGENTS list at both of our two BIOSCI sites: Users in the Americas and Pacific Rim countries who use the BIOSCI ------------------------------------------------------------------ node at computer net.bio.net: ---------------------------- A) Determine the "listname" which is the <=8 character mail address ^^^^^^^^^^^^^ for the group. These can be found in the BIOSCI Info. Sheet. For the METHODS-AND-REAGENTS group the mailing address is methods@net.bio.net. The listname is the portion of the address to the left of the @ sign, i.e., "methods". The listname is used with the "subscribe" and "unsubscribe" commands illustrated below. B) Mail all commands in the body of a mail message addressed to biosci-server@net.bio.net. Do NOT send commands to the newsgroup posting addresses! Leave the Subject: line blank, any text on it will be ignored. C) In the body of your message put one or more of the following commands with an "end" command on the last line, e.g., subscribe methods unsubscribe methods end Do NOT put your e-mail address or other text on these lines. The server only allows you to cancel your subscription if the address on your mail header matches the address on our mailing list. Please ask for help at biosci-help@net.bio.net if your address has changed, e.g., if you know you are on the list but the server tells you that you are not a member. Users in Europe, Africa, and Central Asia who use the BIOSCI node at -------------------------------------------------------------------- computer daresbury.ac.uk (also known as dl.ac.uk): ------------------------------------------------- To subscribe and unsubscribe to/from the BIOSCI lists, you need to specify the full USENET newsgroup name with "bionet-news." prepended. The USENET newsgroup names are listed in the BIOSCI Information sheet on the Web at http://www.bio.net/. For the METHODS-AND-REAGENTS list the USENET newsgroup name is bionet.molbio.methds-reagnts, thus the appropriate commands are sub bionet-news.bionet.molbio.methds-reagnts unsub bionet-news.bionet.molbio.methds-reagnts These commands are included in a message addressed to mxt@dl.ac.uk, NOT to the newsgroup mailing addresses. As usual, include the text in the body of the message as text on the Subject: line is ignored. To unsubscribe from all the lists at the UK node, use unsub bionet-news Please note that if the address in the list is different than the one in your mail message header, you will not be able to unsubscribe by this method. If you have problems, please mail biosci@daresbury.ac.uk. 4) The BIOSCI user address and research interest directory. ----------------------------------------------------------- Please take this opportunity to add your name, address, and research interest information to the BIOSCI User Address Database if you have not already done so. You can fill out the address form directly through our Web page at URL http://www.bio.net/adrform.html. The address database is reindexed nightly for WWW access (the URL is http://www.bio.net/). If you are not directly on the Internet but can reach it by e-mail, please use our waismail server to access the user directory. waismail use is described above. You can also request a user address form by e-mail from biosci-help@net.bio.net. Please check your database entry from time-to-time to see if your address information is still up-to-date. Because of our limited personnel resources, we ask that you resubmit a *complete* form to revise your entry; we only replace complete entries and do not have resources to edit old forms. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net From owner-srs@net.bio.net Sun May 18 23:00:00 1997 From: (DogZ Software Center) Newsgroups: bionet.software.srs Subject: MS Office 97 only costs US$45?! Shopping Paradise Date: Tue, 20 May 1997 04:53:29 GMT Organization: Netvigator Lines: 60 Message-ID: <5lpigl$ekh@imsp009a.netvigator.com> NNTP-Posting-Host: hhtam010039.netvigator.com X-Newsreader: Forte Agent .99b.112 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.gsl.net!news-hk.gsl.net!news.gsl.net!newsgate.cuhk.edu.hk!news2.hkt.net!news.hkt.net.!imsp009a.netvigator.com!locker Windows 95, Visual Foxpro, MS Office 7.0, Visual Basic, Visual C++, Borland C++, Lotus cc:Mail Release 6, Lotus SmartSuite 97, ...... only costs US$45 for all? MS Office 97 only costs US$45! Hong Kong is the paradise in shopping. You can buy anything you want by an reasonable price. Today, by this chance, we would like to introduce to those who are interest in computing. In Hong Kong, there are five famous spots inclues: Golden Center - Sham Shui Po ; Mongkok Computer Center - Mongkok ; Sino Center - Mongkok ; 298 Computer Center - Wan Chai and Tsuen Fung Center -Tsuen Wan . In which, you can always find the most update warez includes all PC Warez, PC games, CD-Title, Shareware, Video-CD and Playstation game, etc. For Example, Inside a Installer (one CD only, Product No.: IN96112) , it contains MS Visual Foxpro 5.0, MS Windows 95 OEM Service Release, MS Money97, Lotus SmartSuite 97, Lotus cc:Mail Release 6, Symantec Cafe 1.5, Norton Your Eyes Only, Norton Smart Doctor 1.0, Quartdeck SpeedyROM 1.1, KPT BrayceAlpha 2.0, Visual dBASE Professional 4.4a, MacroMedia Animator Designer, Solitaire Antics, Almost Reality, CakeWalk Express 3.01, ClockMan95, Demo-It!2.0, MicroLogic EMAGIC, EXTRA! Version 6.2, MacroMedia Icon Designer, Infinite Disk, InfoSpy Pro, Fractal Deign Ray Dream Studio 4.1, Janna Conract Manager, Kurzweil Voice release 2.0, PC Maclan verion 6.0, NetWizard Plus Version 3.1, Organic Art, Microsoft Edition, PhotoWorks, RandoMedia, Real Oschestra, Reflection 4, RichWin, SoundForge 4.0, SignLab Pro+, Spectrum Pro CD Player, Starfish Internet Sidekick, TeleMagic, TurboCAD 3.0, MS-Visual SourceSafe 5.0, WinBye 32, Xing 3.02 Release, Zydeco Management Desktop. Good news to you today, that is, we would like to introduce all wares in VERY attractive price to you. Not only to provide over 50 warez for you to choose, but also to introduce the most suitable warez to you. We would provide a very attractive price not more than US$50. The more you buy, the more money you can save. Right? Hurry up! Don't miss this chance! Just ask what you want to know OR just decide and place your order to us. If you want some more details , you can go http://www.hkstar.com/~dogz now. ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ DogZ Software Center From owner-srs@net.bio.net Sun May 18 23:00:00 1997 From: (DogZ Software Center) Newsgroups: bionet.software.srs Subject: MS Office 97 only costs US$45?! Shopping Paradise Date: Tue, 20 May 1997 04:59:51 GMT Organization: Netvigator Lines: 60 Message-ID: <5lpisk$l80@imsp009a.netvigator.com> NNTP-Posting-Host: hhtam010039.netvigator.com X-Newsreader: Forte Agent .99b.112 Path: biosci!daresbury!uninett.no!nntp.uio.no!newsfeeds.sol.net!europa.clark.net!news-peer.gsl.net!news-hk.gsl.net!news.gsl.net!newsgate.cuhk.edu.hk!news2.hkt.net!news.hkt.net.!imsp009a.netvigator.com!locker Windows 95, Visual Foxpro, MS Office 7.0, Visual Basic, Visual C++, Borland C++, Lotus cc:Mail Release 6, Lotus SmartSuite 97, ...... only costs US$45 for all? MS Office 97 only costs US$45! Hong Kong is the paradise in shopping. You can buy anything you want by an reasonable price. Today, by this chance, we would like to introduce to those who are interest in computing. In Hong Kong, there are five famous spots inclues: Golden Center - Sham Shui Po ; Mongkok Computer Center - Mongkok ; Sino Center - Mongkok ; 298 Computer Center - Wan Chai and Tsuen Fung Center -Tsuen Wan . In which, you can always find the most update warez includes all PC Warez, PC games, CD-Title, Shareware, Video-CD and Playstation game, etc. For Example, Inside a Installer (one CD only, Product No.: IN96112) , it contains MS Visual Foxpro 5.0, MS Windows 95 OEM Service Release, MS Money97, Lotus SmartSuite 97, Lotus cc:Mail Release 6, Symantec Cafe 1.5, Norton Your Eyes Only, Norton Smart Doctor 1.0, Quartdeck SpeedyROM 1.1, KPT BrayceAlpha 2.0, Visual dBASE Professional 4.4a, MacroMedia Animator Designer, Solitaire Antics, Almost Reality, CakeWalk Express 3.01, ClockMan95, Demo-It!2.0, MicroLogic EMAGIC, EXTRA! Version 6.2, MacroMedia Icon Designer, Infinite Disk, InfoSpy Pro, Fractal Deign Ray Dream Studio 4.1, Janna Conract Manager, Kurzweil Voice release 2.0, PC Maclan verion 6.0, NetWizard Plus Version 3.1, Organic Art, Microsoft Edition, PhotoWorks, RandoMedia, Real Oschestra, Reflection 4, RichWin, SoundForge 4.0, SignLab Pro+, Spectrum Pro CD Player, Starfish Internet Sidekick, TeleMagic, TurboCAD 3.0, MS-Visual SourceSafe 5.0, WinBye 32, Xing 3.02 Release, Zydeco Management Desktop. Good news to you today, that is, we would like to introduce all wares in VERY attractive price to you. Not only to provide over 50 warez for you to choose, but also to introduce the most suitable warez to you. We would provide a very attractive price not more than US$50. The more you buy, the more money you can save. Right? Hurry up! Don't miss this chance! Just ask what you want to know OR just decide and place your order to us. If you want some more details , you can go http://www.hkstar.com/~dogz now. ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ DogZ Software Center From owner-srs@net.bio.net Tue May 20 23:00:00 1997 Path: biosci!britbio.co.uk!dudgeon From: dudgeon@britbio.co.uk (Tim Dudgeon) Newsgroups: bionet.software.srs Subject: SRS5 Under Linux Date: 21 May 1997 09:32:49 -0700 Organization: British Biotech Lines: 20 Sender: daemon@net.bio.net Distribution: world Message-ID: <338315B2.15FB@britbio.co.uk> NNTP-Posting-Host: net.bio.net Has anyone successfully built SRS5.05 under Linux. For me srssection is failing silently because % nodd -s $SRSICA/srs.ic $SRSICA/srs.i (what is run in the srssection script) falls over (segmentation fault). nodd built OK as % nodd -help works fine. SRS5.05 builds no problem for me on SGI and Digital Unix. If anyone has seen and solved this their suggestions would be welcome, otherwise I'll have to get my hands dirty. Many thaks Tim -- Dr. Tim Dudgeon Phone: 01865 748747 British Biotech Pharmaceuticals Ltd. FAX: 01865 717598 Watlington Road, Oxford, OX4 5LY, UK email: dudgeon@britbio.co.uk From owner-srs@net.bio.net Wed May 21 23:00:00 1997 Path: biosci!internet!biosci!not-for-mail From: kristoff (David Kristofferson) Newsgroups: bionet.software.srs Subject: IMPORTANT - BIOSCI moving to Stanford! Date: 21 May 1997 21:09:03 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 55 Sender: daemon@net.bio.net Distribution: world Message-ID: <199705220406.VAA04609@net.bio.net> NNTP-Posting-Host: net.bio.net After more than a decade of serving the biology community on the BIOSCI project, I have decided that it is time for me to pass the torch. The demands of my career and family are making it increasingly difficult for me to run BIOSCI adequately on a part-time basis, and I've decided that I would do the project more harm than good by clinging to it. Therefore I have concluded an agreement with the Stanford University Libraries to take over the management of the BIOSCI project effective 6 June 1997. Many of you know the work of the Stanford Libraries through HighWire Press which has done an excellent job bringing the Journal of Biological Chemistry, Science Magazine, and other prestigious journals to the WWW (see http://highwire.stanford.edu/). I have every confidence that Stanford will provide an environment where the BIOSCI project can flourish. The BIOSCI team at Daresbury will continue to support the project in Europe, and Dave Mack and Julie Lawrence on the current BIOSCI staff will continue to assist the new team at Stanford. The project will be managed by Serge Taylor of the Stanford Libraries who is responsible for developing Web-based "knowledge environments" for scientists. I will still participate with the project in an advisory capacity but have to phase myself out of day-to-day operations. Many of you who read bionet.announce, bionet.biology.computational, and bionet.jobs.offered (the groups that I moderate) have been aware of the recent posting delays that my busy schedule has inflicted on those newsgroups. I am pleased to announce that Todd McGee, Scientific Advisor of the HighWire Press, will be taking over moderation of those groups from me this week. ** NOTE ** - The BIOSCI hardware will be down for backups on 6 June and will be moved over the weekend of June 7 and 8. We will be changing the IP number of the machine, but the host name and all mailing addresses will remain unchanged. There may be a few days of service disruption during this time due to the move unfortunately, just as we experienced in BIOSCI's previous move. We hope to keep this to a minimum. We will post status reports on the move to bionet.announce before and after it happens. Please watch that newsgroup for details. It has been a pleasure serving all of you since the "early days" of biology on the Internet. I've had the pleasure of not only "knowing" many of you over the Internet, but have also met literally thousands of biologists around the U.S. and elsewhere during the many Internet training seminars that I gave over the last decade. I've been truly fortunate to have been given the chance to play a role in the growth of biology on the Internet. This is something I will always treasure. Sincerely, Dave Kristofferson BIOSCI/bionet Manager biosci-help@net.bio.net From owner-srs@net.bio.net Thu May 22 23:00:00 1997 Path: biosci!bcm.tmc.edu!cs.utexas.edu!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!rill.news.pipex.net!pipex!netcom.net.uk!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!news From: etzold Newsgroups: bionet.software.srs Subject: Re: SRS5 Under Linux Date: Fri, 23 May 1997 15:18:35 +0100 Organization: EMBL-EBI Lines: 26 Message-ID: <3385A73B.CE01E42F@ebi.ac.uk> References: <338315B2.15FB@britbio.co.uk> NNTP-Posting-Host: idefix.ebi.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.0b4 [en] (Win95; I) X-Priority: 3 (Normal) Tim Dudgeon wrote: > > Has anyone successfully built SRS5.05 under Linux. For me srssection is > failing silently because > % nodd -s $SRSICA/srs.ic $SRSICA/srs.i > (what is run in the srssection script) falls over (segmentation fault). > there is a bug in srs5.0.5 that shows only when running nodd under linux. to fix it edit SRSSOU/futil.c, go to function FileDelete, delete the lines if (file->ln) free (file->ln); ...and recompile srsmake nodd or srsmake regards thure From owner-srs@net.bio.net Thu May 22 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!agate!nntpfeed.doc.ic.ac.uk!sunsite.doc.ic.ac.uk!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!news From: etzold Newsgroups: bionet.software.srs Subject: bug fixes in .i, .is files Date: Fri, 23 May 1997 15:15:19 +0100 Organization: EMBL-EBI Lines: 50 Message-ID: <3385A677.4AA72565@ebi.ac.uk> NNTP-Posting-Host: idefix.ebi.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 4.0b4 [en] (Win95; I) X-Priority: 3 (Normal) dear all, some people noticed that the "Keywords" field in SWISS-PROT was not indexed and also, even worse, a certain Mr E. Presley could not be found in the "Authors" index. You can fix both by applying the following changes to the swissprot.i and .is files: swissprot.i: ----------- insert a new $field in the $libformat definition in swissprot.i: $field:[@DF_Keywords code:key index:str indexToken:keywords] change the .ignore attribute of $syntax from " \t" to " \t\n" SWISSPROT_SYNTAX:$syntax:[file:"SRSDB:swissprot.is" ignore:" \t\n"] swissprot.is: ------------- add the production keywords: ~ {$In:[clFields c:key] $Out} (/[^;.]+/ {$Wrt:[s:$Trim:$Ct]} | /./)* ~ ...while you are fixing things...in SRS5.0.5 the view manager does not display any views. Edit the file SRSDB/views.i and DELETE the last view definition $View:[reptilia root:$Vlib:@?REPTILIA_DB rootFields:{ $Vfield:@?DF_Synonyms $Vfield:@?DF_Distribution } ] and do srssection regards thure From owner-srs@net.bio.net Mon May 26 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!feed1.news.erols.com!howland.erols.net!surfnet.nl!news-zh.switch.ch!swsbe6.switch.ch!news.vub.ac.be!ben!gbottu From: gbottu@ben.vub.ac.be (Guy Bottu) Newsgroups: bionet.software.srs Subject: SRS5 : has someone already... Date: 27 May 1997 10:02:44 GMT Organization: Belgian EMBnet Node Lines: 15 Message-ID: <5mebg4$pln@rc1.vub.ac.be> NNTP-Posting-Host: ben.vub.ac.be X-Newsreader: TIN [version 1.2 PL2] Dear colleagues, I am busy installing SRS 5 at our site. It is evident that there is still a lot to be added to the Icarus files. Therefore my question : has someone already written .i/.is/.it files for the following databanks : cpgisle ecdc rebase Also, it seems that the hyperlink jbcR to the on-line J.Biol.Chem. http://www-jbc.stanford.edu/jbc/scripts/abstract is not correct. Does someone know the right one ? Guy Bottu From owner-srs@net.bio.net Tue May 27 23:00:00 1997 Path: biosci!ihnp4.ucsd.edu!munnari.OZ.AU!news.unimelb.edu.au!wehi.edu.au!wehi!janice From: janice@wehi.edu.au (Janice Coventry, Walter and Eliza Hall Institute) Newsgroups: bionet.software.srs Subject: Fields in common in srs5.0.5 Date: 28 May 97 16:39:58 +1000 Organization: Walter & Eliza Hall Institute Lines: 10 Message-ID: <1997May28.163958@wehi> NNTP-Posting-Host: wehiu.wehi.edu.au Hi Can anyone tell me what the purpose of the tick box "Show only fields that selected databases have in common" for if you untick this box and therefore get all the common fields you cannot make selections in the 'uncommon' fields as you get the error "no query was specified". So besides showing you all the common fields I cannot see the use of this feature. Am I missing something? Thank you in anticipation, Janice Coventry From owner-srs@net.bio.net Wed May 28 23:00:00 1997 Path: biosci!bcm.tmc.edu!news.msfc.nasa.gov!europa.clark.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!howland.erols.net!surfnet.nl!news-zh.switch.ch!swsbe6.switch.ch!news.vub.ac.be!ben!gbottu From: gbottu@ben.vub.ac.be (Guy Bottu) Newsgroups: bionet.software.srs Subject: Citation or Reference ? Date: 29 May 1997 18:26:45 GMT Organization: Belgian EMBnet Node Lines: 10 Message-ID: <5mkhp5$lb3@rc1.vub.ac.be> NNTP-Posting-Host: ben.vub.ac.be X-Newsreader: TIN [version 1.2 PL2] I have noticed that in the Icarus files that accompany the SRS 5.05 distribution the name of a magazine is sometimes called Reference (e.g. embl, genbank, swissprot) and sometimes Citation (e.g. tffactor). Is there a reason for this difference ? If not, for the sake of remaining consistent, I feel that we should always use the same name. The only question is which to choose. Guy Bottu From owner-srs@net.bio.net Fri May 30 23:00:00 1997 Path: biosci!rutgers.rutgers.edu!gatech!csulb.edu!hammer.uoregon.edu!newsfeed.direct.ca!portc01.blue.aol.com!audrey02.news.aol.com!not-for-mail From: krishnas@aol.com (Krishnas) Newsgroups: bionet.software.srs Subject: FREE Report on YEAR 2000 Date: 31 May 1997 03:58:35 GMT Lines: 18 Message-ID: <19970531035800.XAA18887@ladder02.news.aol.com> NNTP-Posting-Host: ladder02.news.aol.com X-Admin: news@aol.com Organization: AOL http://www.aol.com Dear friends, We are preparing a comprehensive report on Year 2000 and in regards to that we are collecting information worldwide from everyone involved in these projects. If you are a Y2K solution provider or Working on Year 2000 projects or Contain a list of Y2K links or Interested in working on Y2K projects or Developed Y2K tools or Carrying any related information or Willing to share your experiences in handling the Y2K related problems for different industry sectors, please send us an e-mail to krishnas@aol.com We shall guarantee a copy of the complete report to everyone who provides us the feedback. Please share your valuable information and help us educate others on this issue. Krishna From owner-srs@net.bio.net Fri May 30 23:00:00 1997 Newsgroups: bionet.software.srs Path: biosci!agate!hammer.uoregon.edu!vixen.cso.uiuc.edu!news-peer.sprintlink.net!news.sprintlink.net!Sprint!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!rill.news.pipex.net!pipex!server1.netnews.ja.net!warwick!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!ebi.ac.uk!saturn.ebi.ac.uk!etzold From: Thure Subject: Re: Citation or Reference ? Sender: news@ebi.ac.uk (usenet news) Message-ID: In-Reply-To: <5mkhp5$lb3@rc1.vub.ac.be> Date: Fri, 30 May 1997 16:22:25 GMT To: Guy Bottu Content-Type: TEXT/PLAIN; charset=US-ASCII References: <5mkhp5$lb3@rc1.vub.ac.be> Mime-Version: 1.0 Organization: European Bioinformatics Institute Lines: 18 On 29 May 1997, Guy Bottu wrote: > I have noticed that in the Icarus files that accompany the SRS 5.05 > distribution the name of a magazine is sometimes called Reference > (e.g. embl, genbank, swissprot) and sometimes Citation (e.g. tffactor). > > Is there a reason for this difference ? If not, for the sake of > remaining consistent, I feel that we should always use the same name. > The only question is which to choose. there is no real reason for this. Often the name just came from the description of the data-fields from the databank distribution. You are right and in SRS they should be called the same - do you have any preference? I would prefer "Reference" regards Thure