From owner-srs@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!rutgers!uwm.edu!vixen.cso.uiuc.edu!howland.erols.net!infeed1.internetmci.com!newsfeed.internetmci.com!192.220.251.22!netnews.nwnet.net!news-hub.interserv.net!news.interserv.com!discount-software1.com From: "DISCOUNTS !" software@discount-software1.com Newsgroups: bionet.software.srs Subject: S O F T W A R E ==>> 9 0 % O F F <<== Date: Tue, 02 Sep 1997 01:14:51 -0700 Organization: UVXY Lines: 5 Message-ID: <020997011451@discount-software1.com> NNTP-Posting-Host: hd68-011.hil.compuserve.com <<<<<<< COMPUTER SOFTWARE / HARDWARE >>>>>>> >>> UP TO 90 % OFF <<< http://www.quantcom.com/auctionfirst/ <<<=<<>=<=><><>>=<<> From owner-srs@net.bio.net Mon Sep 01 23:00:00 1997 Path: biosci!news.Stanford.EDU!su-news-hub1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.apfel.de!univ-lyon1.fr!jussieu.fr!uvsq.fr!not-for-mail From: risler@genetique.uvsq.fr (J-L. Risler) Newsgroups: bionet.software.srs Subject: problem in indexing emblnew Date: 2 Sep 1997 17:09:31 GMT Organization: C.N.R.S./U.V.S.Q Lines: 30 Message-ID: <5uhh8b$8se$1@soleil.uvsq.fr> NNTP-Posting-Host: jlr.genetique.uvsq.fr Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.7 Dear Gurus (and maybe Thure himself...) I'm still running SRS4_08 :-( on a Dec Alpha machine. I recently upgraded the OS from DU3.2C to DU4.0B. Then I wanted to index emblnew (cumulative entries since the last release). SRSBUILD won't index the libraries with a core dump and the messages: e_fileopenerr, file could not be opened SRSINX:emnew_id ...... same message for all the output files I have sufficient disk and swap space. I did not modify the config files (SRSSECTION works like a charm). The input files are in GCG format and I can fetch entries from within GCG. Curiously I could index without any problem the last PIR release. Would you have any hint? Thank you! Jean-Loup Jean-Loup RISLER risler@genetique.uvsq.fr Universite de Versailles 45 Avenue des Etats-Unis 78035 Versailles Cedex France From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!ai-lab!eecs-usenet-02.mit.edu!netnews.com!howland.erols.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!Cabal.CESspool!bofh.vszbr.cz!lyra.csx.cam.ac.uk!mole.bio.cam.ac.uk!tjrc1 From: tjrc1@mole.bio.cam.ac.uk (Tim Cutts) Newsgroups: bionet.software.srs Subject: Re: problem in indexing emblnew Date: 3 Sep 1997 08:28:46 GMT Organization: University of Cambridge Lines: 30 Message-ID: <5uj73u$ksd$1@lyra.csx.cam.ac.uk> References: <5uhh8b$8se$1@soleil.uvsq.fr> NNTP-Posting-Host: mole.bio.cam.ac.uk In article <5uhh8b$8se$1@soleil.uvsq.fr>, J-L. Risler wrote: >Dear Gurus (and maybe Thure himself...) > >I'm still running SRS4_08 :-( on a Dec Alpha machine. > >I recently upgraded the OS from DU3.2C to DU4.0B. Then I wanted to index >emblnew (cumulative entries since the last release). >SRSBUILD won't index the libraries with a core dump and the messages: > >e_fileopenerr, file could not be opened >SRSINX:emnew_id >...... >same message for all the output files > >I have sufficient disk and swap space. I did not modify the config files >(SRSSECTION works like a charm). >The input files are in GCG format and I can fetch entries from within GCG. > >Curiously I could index without any problem the last PIR release. > >Would you have any hint? Thank you! I have had similar problems to this under GCG 9 on our IRIX box. I found that somehow the files were already there, but no longer had write permission for the user running the srs index build. Consequently, SRS was refusing to over-write these files for this reason. Tim. From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!eru.mt.luth.se!feed1.news.erols.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!baron.netcom.net.uk!netcom.net.uk!server3.netnews.ja.net!news.ox.ac.uk!worf.molbiol.ox.ac.uk!hugh From: hugh@worf.molbiol.ox.ac.uk (Hugh Salter) Newsgroups: bionet.software.srs Subject: Re: problem in indexing emblnew Date: 3 Sep 1997 10:07:23 GMT Organization: Oxford University Molecular Biology Data Centre Lines: 22 Message-ID: <5ujcsr$2t2$1@news.ox.ac.uk> References: <5uhh8b$8se$1@soleil.uvsq.fr> NNTP-Posting-Host: worf.molbiol.ox.ac.uk In article <5uhh8b$8se$1@soleil.uvsq.fr>, J-L. Risler wrote: >Dear Gurus (and maybe Thure himself...) > >I'm still running SRS4_08 :-( on a Dec Alpha machine. > >I recently upgraded the OS from DU3.2C to DU4.0B. Then I wanted to index >emblnew (cumulative entries since the last release). >SRSBUILD won't index the libraries with a core dump and the messages: When we made this switch, we saw the same problem. It was fixed by recompiling under the later OS version - some mysterious back end change I guess. The GCG srsbuild binary was similarly affected. Hugh -- ----------------------------------------------------------------------------- Dr Hugh Salter Oxford University Molecular Biology Data Centre hugh@molbiol.ox.ac.uk Tel: (01865) 2-75507 or 0966-262447 "With sufficient thrust, pigs fly just fine" From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!newsxfer3.itd.umich.edu!oleane!jussieu.fr!uvsq.fr!not-for-mail From: risler@genetique.uvsq.fr (J-L. Risler) Newsgroups: bionet.software.srs Subject: Re: problem in indexing emblnew Date: 3 Sep 1997 13:08:26 GMT Organization: C.N.R.S./U.V.S.Q Lines: 27 Message-ID: <5ujnga$dp9$1@soleil.uvsq.fr> References: <5uhh8b$8se$1@soleil.uvsq.fr> <5ujcsr$2t2$1@news.ox.ac.uk> NNTP-Posting-Host: jlr.genetique.uvsq.fr Mime-Version: 1.0 Content-Type: Text/Plain; charset=US-ASCII X-Newsreader: WinVN 0.99.7 In article <5ujcsr$2t2$1@news.ox.ac.uk>, hugh@worf.molbiol.ox.ac.uk says... > >J-L. Risler wrote: > >>Dear Gurus (and maybe Thure himself...) >> >>I'm still running SRS4_08 :-( on a Dec Alpha machine. >> >>I recently upgraded the OS from DU3.2C to DU4.0B. Then I wanted to index >>emblnew (cumulative entries since the last release). >>SRSBUILD won't index the libraries with a core dump and the messages: > >When we made this switch, we saw the same problem. It was fixed by >recompiling under the later OS version - some mysterious back end >change I guess. The GCG srsbuild binary was similarly affected. > GREAT! I recompiled the stuff and now everything's OK. Thanks! Jean-Loup RISLER risler@genetique.uvsq.fr Universite de Versailles 45 Avenue des Etats-Unis 78035 Versailles Cedex France From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!agate!howland.erols.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!Cabal.CESspool!bofh.vszbr.cz!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!not-for-mail From: Thure Etzold Newsgroups: bionet.software.srs Subject: Re: Does getz have a memory leak Date: Wed, 03 Sep 1997 17:47:32 +0100 Organization: EMBL-EBI Lines: 22 Message-ID: <340D94A4.FF96ADD9@ebi.ac.uk> References: <5u3qee$fps$3@news.ox.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 4.01 [en] (Win95; I) To: johnp@molbiol.ox.ac.uk X-Priority: 3 (Normal) John Peden wrote: > > Hi, > > Problem on Digital UNIX 4.0 and SRS > > I have been having trouble with a memory leak in getz for several months, > the leak was present in SRS4 and is still > present in SRS5.05. took me a while to find it. I fixed it now for the next version 5.1. The changes are unfortunately not trivial so that I can't just put instructions of how to fix it in your installation. So you will have to wait until SRS 5.1 becomes available. along similar lines: we will reinstate the -d and -t flags for getz - yet another good reason for delaying the release;-) regards thure From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!agate!howland.erols.net!newsfeed1-hme1!newsfeed.internetmci.com!199.60.229.5!feta.direct.ca!newsfeed.direct.ca!Cabal.CESspool!bofh.vszbr.cz!lyra.csx.cam.ac.uk!hgmp.mrc.ac.uk!not-for-mail From: Thure Etzold Newsgroups: bionet.software.srs Subject: Re: DATABANKSin SRS5 Date: Wed, 03 Sep 1997 17:51:45 +0100 Organization: EMBL-EBI Lines: 16 Message-ID: <340D95A1.D2045A27@ebi.ac.uk> References: <340550A2.7834@infobiogen.fr> 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 4.01 [en] (Win95; I) To: Jean-Marc Plaza X-Priority: 3 (Normal) Jean-Marc Plaza wrote: > > Hi, > > concerning the icarus files databanks.i and > databanks.is, is there a script already done to generate > databank flat file ? David Kreil, a new phd student in the group, has just finished a perl script to retrieve the information from all public srs5 servers and an icarus script to compile the databank flat file. We have also written .i and .is files so it can be treated like a 'normal' databank in SRS. All this will be available with 5.1 regards thure From owner-srs@net.bio.net Tue Sep 02 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!newsfeed.nacamar.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Weare@EuropeMail.com (Johnathon Weare) Newsgroups: bionet.software.srs Subject: Re: problem in indexing emblnew Date: 03 Sep 1997 15:14:50 +0200 Organization: Biocomputing, EMBL Heidelberg, Germany Lines: 27 Sender: weare@fifi.embl-heidelberg.de Distribution: world Message-ID: References: <5uhh8b$8se$1@soleil.uvsq.fr> <5ujcsr$2t2$1@news.ox.ac.uk> NNTP-Posting-Host: fifi.embl-heidelberg.de Encryption-by: McWurst McWurst-Schluessel: O*Uef!$p&^afC1fe@0n--9`#gA||~[gf)*fcq26 X-Newsreader: Gnus v5.3/Emacs 19.34 >>>>> "H" == Hugh Salter writes: H> In article <5uhh8b$8se$1@soleil.uvsq.fr>, J-L. Risler H> wrote: >> Dear Gurus (and maybe Thure himself...) >> >> I'm still running SRS4_08 :-( on a Dec Alpha machine. >> >> I recently upgraded the OS from DU3.2C to DU4.0B. Then I wanted to >> index emblnew (cumulative entries since the last release). SRSBUILD >> won't index the libraries with a core dump and the messages: H> When we made this switch, we saw the same problem. It was fixed by H> recompiling under the later OS version - some mysterious back end H> change I guess. The GCG srsbuild binary was similarly affected. Exactly - binaries often need recompiling between DU 3.x and 4.x . Then the 4.x binaries almost certainly will not run on other 3.x machines. Johnny -- Johnathon Weare http://www.gpcr.org/johnny/ EMBL, Meyerhofstr 1, Heidelberg, Germany http://swift.embl-heidelberg.de/ Tel +49 (0)6221 387456, Fax +49 (0)6221 387517 Weare@EuropeMail.com From owner-srs@net.bio.net Sat Sep 06 23:00:00 1997 From: planning@cyberpromo.com Subject: Insurance Update Newsgroups: bionet.software.srs Organization: Advanced Planning Solutions NNTP-Posting-Host: 207.99.47.138 Message-ID: <3412d7bc.0@nntp1.nac.net> Date: 7 Sep 97 16:35:08 GMT Lines: 35 Path: biosci!fcs280s.ncifcrf.gov!cpk-news-feed4.bbnplanet.com!cpk-news-feed1.bbnplanet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news.maxwell.syr.edu!nac!nntp1.nac.net!207.99.47.138 The past year has seen a dramatic reduction in the cost of term life insurance from many quality companies. The San Fransisco Chronicle reported, "Price War Creates Consumer Bargains in Term Life Insurance," and the New York Times, "Premiums have fallen to record lows." 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For a free comparison please go to: http://www.2plan.com/quote.htm From owner-srs@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!newsfeed.nacamar.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Ramu Chenna Newsgroups: bionet.software.srs Subject: Re: Problems with large sequences and applications in srs5.0.5 Date: 10 Sep 1997 08:31:05 GMT Organization: EMBL, Heidelberg, Germany Lines: 17 Distribution: world Message-ID: <5v5ls9$r8f@lion.embl-heidelberg.de> References: <33E70DCF.34E8@faw.uni-ulm.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: chenna X-URL: news:33E70DCF.34E8@faw.uni-ulm.de Hello I integrated TSWP with SRS at EMBL which runs on bioccelerator. It might be that bioccelerator gets upset. You can run TSWP from http://shag.embl-heidelberg.de:8000/ If it gives problem here, please let me know. We may get a clue why it is not running under SRS for larger sequence. Ramu _______________________________________________________________ Chenna Ramu; EMBL; Postfach 10.2209; 69012 Heidelberg; Germany. Email: chenna@embl-heidelberg.de Url: http://www.embl-heidelberg.de/~chenna/ Tel: (49) 6221 387530 (Off) ; Fax: (49) 6221 387517 ______ From owner-srs@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!agate!newsfeed.kornet.nm.kr!news.maxwell.syr.edu!newsfeed.nacamar.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Ramu Chenna Newsgroups: bionet.software.srs Subject: Re: Problems with large sequences and applications in srs5.0.5 Date: 10 Sep 1997 08:31:21 GMT Organization: EMBL, Heidelberg, Germany Lines: 17 Distribution: world Message-ID: <5v5lsp$3mk@lion.embl-heidelberg.de> References: <33E70DCF.34E8@faw.uni-ulm.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: chenna X-URL: news:33E70DCF.34E8@faw.uni-ulm.de Hello I integrated TSWP with SRS at EMBL which runs on bioccelerator. It might be that bioccelerator gets upset. You can run TSWP from http://shag.embl-heidelberg.de:8000/ If it gives problem here, please let me know. We may get a clue why it is not running under SRS for larger sequence. Ramu _______________________________________________________________ Chenna Ramu; EMBL; Postfach 10.2209; 69012 Heidelberg; Germany. Email: chenna@embl-heidelberg.de Url: http://www.embl-heidelberg.de/~chenna/ Tel: (49) 6221 387530 (Off) ; Fax: (49) 6221 387517 ______ From owner-srs@net.bio.net Tue Sep 09 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!eru.mt.luth.se!news-ge.switch.ch!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Ramu Chenna Newsgroups: bionet.software.srs Subject: Re: Problems with large sequences and applications in srs5.0.5 Date: 10 Sep 1997 08:33:38 GMT Organization: EMBL, Heidelberg, Germany Lines: 17 Distribution: world Message-ID: <5v5m12$3mk@lion.embl-heidelberg.de> References: <33E70DCF.34E8@faw.uni-ulm.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: chenna X-URL: news:33E70DCF.34E8@faw.uni-ulm.de Hello I integrated TSWP with SRS at EMBL which runs on bioccelerator. It might be that bioccelerator gets upset. You can run TSWP from http://shag.embl-heidelberg.de:8000/ If it gives problem here, please let me know. We may get a clue why it is not running under SRS for larger sequence. Ramu _______________________________________________________________ Chenna Ramu; EMBL; Postfach 10.2209; 69012 Heidelberg; Germany. Email: chenna@embl-heidelberg.de Url: http://www.embl-heidelberg.de/~chenna/ Tel: (49) 6221 387530 (Off) ; Fax: (49) 6221 387517 ______ From owner-srs@net.bio.net Wed Sep 10 23:00:00 1997 Path: biosci!rutgers!nntp.upenn.edu!msunews!uwm.edu!vixen.cso.uiuc.edu!newsfeed.internetmci.com!newsfeed.internetmci.com!193.174.75.126!news-was.dfn.de!news-kar1.dfn.de!news.embl-heidelberg.de!usenet From: Ramu Chenna Newsgroups: bionet.software.srs Subject: Re: Problems with large sequences and applications in srs5.0.5 Date: 11 Sep 1997 08:27:41 GMT Organization: EMBL, Heidelberg, Germany Lines: 17 Distribution: world Message-ID: <5v8a1t$1u0@lion.embl-heidelberg.de> References: <33E70DCF.34E8@faw.uni-ulm.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: chenna X-URL: news:33E70DCF.34E8@faw.uni-ulm.de Hello I integrated TSWP with SRS at EMBL which runs on bioccelerator. It might be that bioccelerator gets upset. You can run TSWP from http://shag.embl-heidelberg.de:8000/ If it gives problem here, please let me know. We may get a clue why it is not running under SRS for larger sequence. Ramu _______________________________________________________________ Chenna Ramu; EMBL; Postfach 10.2209; 69012 Heidelberg; Germany. Email: chenna@embl-heidelberg.de Url: http://www.embl-heidelberg.de/~chenna/ Tel: (49) 6221 387530 (Off) ; Fax: (49) 6221 387517 ______ From owner-srs@net.bio.net Thu Sep 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 Sep 1997 02:00:07 -0700 Organization: BIOSCI International Newsgroups for Molecular Biology Lines: 233 Sender: daemon@net.bio.net Distribution: world Message-ID: <199709190900.CAA20921@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. 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From owner-srs@net.bio.net Thu Sep 18 23:00:00 1997 Path: biosci!agate!ihnp4.ucsd.edu!munnari.OZ.AU!news.ecn.uoknor.edu!feed1.news.erols.com!newsfeed.internetmci.com!192.48.96.123!in1.uu.net!208.198.64.1!netnews.sbphrd.com!not-for-mail From: Filip Fuma Newsgroups: bionet.software.srs Subject: Changing the SRS5 QueryResult page Date: Fri, 19 Sep 1997 18:18:48 -0400 Organization: SmithKline Beecham Pharmaceuticals Research & Development Lines: 18 Message-ID: <3422FA48.3077@phu815.um.us.sbphrd.com> NNTP-Posting-Host: phu823.sbphrd.com Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Mailer: Mozilla 3.01Gold (X11; I; SunOS 5.5.1 sun4u) CC: filip_fuma-1@sbphrd.com The SRS QueryResult page shows a list links of the form: : e.g.: ENZYME:2.7.1.10 We would like to add to each line some explanatory test, such as the description field. It could look something like this: ENZYME:2.7.1.10 -- PHOSPHOGLUCOKINASE Is there a way to accomplish this in SRS5? Thanks, --ff From owner-srs@net.bio.net Fri Sep 19 23:00:00 1997 Path: biosci!daresbury!uninett.no!Norway.EU.net!EU.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-pull.sprintlink.net!news-in-east.sprintlink.net!news.sprintlink.net!Sprint!131.103.1.114!iagnet.net!news.indiana.edu!not-for-mail From: gilbertd@bio.indiana.edu (Don Gilbert) Newsgroups: bionet.software.srs Subject: Re: Changing the SRS5 QueryResult page Date: 20 Sep 1997 14:05:23 GMT Organization: Biology, Indiana University - Bloomington Lines: 45 Message-ID: <600l73$oek$1@dismay.ucs.indiana.edu> References: <3422FA48.3077@phu815.um.us.sbphrd.com> NNTP-Posting-Host: chipmunk.bio.indiana.edu There is likely a simple way to do what you want w/ the current SRS software -- others may be able to answer that. I have a complex answer the the general task of listing item descriptions from SRS query results. I wont' go into details now, but the source code for a different SRS interface is available from me if anyone wants it. See for instance http://iubio.bio.indiana.edu/X~-lgenbanknew,genbank,gbest+-fall~/.bin/asksrs.html?esterase The 'asksrs' program used at IUBio relies on a file of Titles to items, associated with each database. The titles are generated at indexing time. At query time, the only files touched by a query result listing are the index files, including titles. That makes this quicker than standard SRS and independent of the original data files for the most common job of listing lots of matches to a query. Only when a user fetches an individual record does the original database get openned. In article <3422FA48.3077@phu815.um.us.sbphrd.com>, Filip Fuma wrote: >The SRS QueryResult page shows a list links of the form: > > : > >e.g.: > > ENZYME:2.7.1.10 > >We would like to add to each line some explanatory test, such as >the description field. It could look something like this: > > ENZYME:2.7.1.10 -- PHOSPHOGLUCOKINASE > >Is there a way to accomplish this in SRS5? > >Thanks, > >--ff -- -- d.gilbert--biocomputing--indiana u--bloomington--gilbertd@bio.indiana.edu From owner-srs@net.bio.net Wed Sep 24 23:00:00 1997 Path: biosci!bloom-beacon.mit.edu!thetimes.pixel.kodak.com!news.kodak.com!news-pen-16.sprintlink.net!newsfeed.nysernet.net!news.nysernet.net!207.41.200.4!news-pen-4.sprintlink.net!206.229.87.26!news-east.sprintlink.net!news-dc-26.sprintlink.net!news-peer.sprintlink.net!news.sprintlink.net!Sprint!newsfeed.internetmci.com!204.238.120.130!jump.net!grunt.dejanews.com!not-for-mail Date: Thu, 25 Sep 1997 04:11:39 -0600 From: shecter@lion-ag.de Subject: icarus file for fasta database? Newsgroups: bionet.software.srs Message-ID: <875178551.10341@dejanews.com> Organization: Deja News Posting Service To: shecter@lion-ag.de X-Article-Creation-Date: Thu Sep 25 09:09:12 1997 GMT X-Originating-IP-Addr: 195.110.4.98 () proxy [1.0 crunch1.lion-ag.de:8080 (Squid/1.1.16)] for client [195.110.5.14] X-Http-User-Agent: Mozilla/3.01SGoldC-SGI (X11; I; IRIX 6.3 IP32) X-Authenticated-Sender: shecter@lion-ag.de Lines: 12 Hi, Does anyone have an icarus configuration file to index the simple fasta database? (The FASTA configs that are included with srs5 are for the fasta -results-.) This would be highly appreciated! Thanks in advance, Robb -------------------==== Posted via Deja News ====----------------------- http://www.dejanews.com/ Search, Read, Post to Usenet From owner-srs@net.bio.net Wed Sep 24 23:00:00 1997 Path: biosci!agate!howland.erols.net!newsfeed.direct.ca!newshub1.home.com!news.home.com!news.rdc1.md.home.com!cc404921-a.twsn1.md.home.com!user From: Webmaster@scienceguide.com (Robert W. Georgantas III) Newsgroups: bionet.software.srs Subject: BioScience Information Date: 25 Sep 1997 07:58:18 GMT Organization: The Science Guide Lines: 65 Message-ID: Reply-To: news@scienceguide.com NNTP-Posting-Host: cc404921-a.twsn1.md.home.com Announcing the SCIENCE GUIDE. http://www.scienceguide.com A New Internet Directory and Information Service run by Scientists and Physicians for Scientists and Physicians. After visiting the Guide, If you have any suggestion for making the Guide better please let us know. 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From owner-srs@net.bio.net Sat Sep 27 23:00:00 1997 Path: biosci!daresbury!uninett.no!sn.no!Norway.EU.net!EU.net!news-peer.gsl.net!news.gsl.net!gip.net!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!News1.Ottawa.iSTAR.net!News1.Toronto.iSTAR.net!news.istar.net!tor-nx1.netcom.ca!news.securenet.net!not-for-mail From: hkcxcz@112233.com (fyzmcb) Newsgroups: bionet.software.srs,bionet.software.staden Subject: don't open till... - hoho.gif [1/1] Date: 28 Sep 1997 20:29:58 GMT Organization: Interyellow Lines: 209 Message-ID: <60meo6$t3k$312@news.securenet.net> NNTP-Posting-Host: client68.securenet.net Mime-Version: 1.0 Content-Type: multipart/mixed; Boundary="*- Boundary U)rJBMr?qC(sT_GcuUk" X-Newsreader: WinVN 0.99.9 (Released Version) (x86 32bit) Xref: biosci bionet.software.srs:788 bionet.software.staden:544 --*- Boundary U)rJBMr?qC(sT_GcuUk Content-Type: Text/Plain; charset=US-ASCII Have you been good this year? http://www.santas.com --*- Boundary U)rJBMr?qC(sT_GcuUk Content-Type: 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The datestamps on the embl files are old, but srscheck still want to reindex. Does anyone know what's going. The same doesn't happen with swissprot and swissnew. Many thanks 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 Tue Sep 30 23:00:00 1997 From: aflkjasdl@alfjasdfjs.com Subject: HP & IBM Toner Cartridges Blowout Newsgroups: bionet.software.srs NNTP-Posting-Host: ppp11030.la.inreach.net Message-ID: <3431c1b2.0@news.inreach.com> Date: 1 Oct 97 03:21:22 GMT Lines: 64 Path: biosci!bloom-beacon.mit.edu!c-1996!www.nntp.primenet.com!globalcenter1!news.primenet.com!nntp.primenet.com!cpk-news-hub1.bbnplanet.com!news.bbnplanet.com!news-peer.sprintlink.net!news-sea-19.sprintlink.net!news-in-west.sprintlink.net!news.sprintlink.net!Sprint!208.25.48.5!news.inreach.com!ppp11030.la.inreach.net Z-Bek has the following Toner Cartridges for Sale: HP 4 Remanufactured: 64.95 OEM: 88.95 Yield: 6.8 K HP 3si/4si Remanufactured: 69.95 OEM: 104.95 Yield: 10k HP 4V/4MV Remanufactured: 89.95 OEM: 134.95 HP 5l OEM Only: 64.95 HP 5P Remanufactured: 69.95 OEM: 79.95 HP 5si Remanufactured-109.95 OEM: 159.95 Yield: 15k IBM 4019 Marathon (High Yield) Remanufactured: 149.95 OEM: 194.95 Yield: 14k IBM 4039 Marathon (High Yield) Remanufactured:149.95 OEM: 204.95 Yield:14k IBM 4049 Marathon (High Yield) Remanufactured: 149.95 OEM: 204.95 Yield: 14k Z-Bek is your Source for all your Toner, Ribbons, and Media supplies. Z-Bek 310-419-1909 _____________________________________________________________________________ OEM - Original Manufactured Equipment Yield: Estimated Amount of Pages per Cartridge ( At 5% coverage ) Remufactured: Cartridges have all possible components replaced with new parts, including a New Long Life Drum. Warranty: Fully Satisfaction Guaranteed for 90 Days. From owner-srs@net.bio.net Tue Sep 30 23:00:00 1997 Path: biosci!britbio.co.uk!dudgeon From: dudgeon@britbio.co.uk (Tim Dudgeon) Newsgroups: bionet.software.srs Subject: srsbuild: 7864 Memory fault Date: 1 Oct 1997 04:39:39 -0700 Organization: British Biotech Lines: 19 Sender: daemon@net.bio.net Distribution: world Message-ID: <343236EB.41C6@britbio.co.uk> NNTP-Posting-Host: net.bio.net I've started getting core dumps during building indexes for emblnew: ...no. 323100, SAZ83159 ...no. 323400, SCL8083 ...no. 323700, SCYBR031W ...no. 324000, SCYDL065C ...no. 324300, SCYGL118C /usr/local/srs5_05/srs/etc/srsupdate: 7864 Memory fault - core dumped Has anyone seen this and know the answer? Cheers 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