From owner-bio-srs@hgmp.mrc.ac.uk Tue Feb 6 09:42:48 2001 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 01D0C17B40; Tue, 6 Feb 2001 09:42:47 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id 24E2517B3A; Tue, 6 Feb 2001 09:42:40 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id E6F7717B3A; Tue, 6 Feb 2001 05:25:45 +0000 (GMT) To: bionet-software-srs@net.bio.net From: gordonr@Ms.UManitoba.CA (Richard Gordon) Newsgroups: bionet.software.srs Subject: Finding Reprint Authors' E-Mail Addresses Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Message-ID: Mime-Version: 1.0 Content-Type: text/plain; charset="us-ascii" ; format="flowed" X-Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 056B817B38; Tue, 6 Feb 2001 05:25:41 +0000 (GMT) X-Received: from naos.cc.umanitoba.ca (naos.cc.umanitoba.ca [130.179.16.122]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 255DE415F7 for ; Tue, 6 Feb 2001 05:25:28 +0000 (GMT) X-Received: from [24.108.134.118] (cd936584-b.burows1.mb.wave.home.com [24.108.134.118]) by naos.cc.umanitoba.ca (8.9.0/8.9.0) with ESMTP id XAA24744 for ; Mon, 5 Feb 2001 23:25:26 -0600 (CST) X-Sender: gordonr@mail.ms.umanitoba.ca X-To: bio-srs@net.bio.net Date: Tue, 6 Feb 2001 09:42:40 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Eric Cowdrey and I have put together a web page that makes it relatively easy to find the e-mail addresses of academic colleagues, for the purpose of requesting reprints: Finding Reprint Authors' E-Mail Addresses http://www.umanitoba.ca/faculties/medicine/radiology/search/searchindex.html There are no a d v e r t i s e m e n t s or costs. If you use it, please let us know of omissions, corrections, or improvements you'd like, and forward it to your colleagues. -- Dr. Richard Gordon, Radiology, University of Manitoba, HSC Rm. GA216, 820 Sherbrook St. Winnipeg R3A 1R9 Canada Adjunct: Electrical & Computer Engineering, Exec Member: CSTB, CARRF, IEEE-EMBS phone:(204)789-3828, fax:(204)787-2080, e-mail: GordonR@ms.umanitoba.ca New book: The Hierarchical Genome & Differentiation Waves: Novel Unification of Development, Genetics & Evolution: http://www.wspc.com.sg/books/lifesci/2755.html Finding Reprint Authors' E-Mail Addresses: http://www.umanitoba.ca/faculties/medicine/radiology/search/searchindex.html --- From owner-bio-srs@hgmp.mrc.ac.uk Tue Feb 6 09:43:28 2001 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 3021F17B41; Tue, 6 Feb 2001 09:43:27 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id 91FCD17B3E; Tue, 6 Feb 2001 09:43:22 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 35DBD17A70; Tue, 6 Feb 2001 09:18:01 +0000 (GMT) Received: from moderated.news.pipex.net (moderated.news.pipex.net [158.43.192.79]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id B91CE415CF for ; Tue, 6 Feb 2001 09:17:54 +0000 (GMT) Received: (qmail 934 invoked by alias); 6 Feb 2001 09:17:54 -0000 Received: (qmail 930 invoked from network); 6 Feb 2001 09:17:52 -0000 Received: from poleo.sdi.uam.es (150.244.9.14) by moderated.news.pipex.net with SMTP; 6 Feb 2001 09:17:52 -0000 Received: from olivo.sdi.uam.es (olivo.sdi.uam.es [150.244.9.45]) by poleo.sdi.uam.es (8.9.3/8.9.3/UAM) with ESMTP id KAA08425 for ; Tue, 6 Feb 2001 10:17:47 +0100 (MET) Received: from acebo.sdi.uam.es (acebo.sdi.uam.es [150.244.9.3]) by olivo.sdi.uam.es (8.9.3+Sun/8.9.3) with ESMTP id KAA03086 for ; Tue, 6 Feb 2001 10:17:47 +0100 (MET) Received: (from news@localhost) by acebo.sdi.uam.es (8.9.3+Sun/8.9.3) id KAA13222 for bionet-software-srs@moderators.isc.org; Tue, 6 Feb 2001 10:17:32 +0100 (MET) To: bionet-software-srs@moderators.isc.org From: txomsy@cnb.uam.es (José R. Valverde) Newsgroups: bionet.software.srs Subject: II National Meeting on Bioinformatics Organization: EMBnet/CNB Message-ID: <95offb$cnp$5@acebo.sdi.uam.es> Mime-Version: 1.0 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: 8bit X-Trace: acebo.sdi.uam.es 981451051 13049 150.244.12.7 (6 Feb 2001 09:17:31 GMT) X-Complaints-To: abuse@uam.es NNTP-Posting-Date: Tue, 6 Feb 2001 09:17:31 +0000 (UTC) X-Newsreader: knews 0.9.8 Date: Tue, 6 Feb 2001 09:43:22 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk I'm forwarding this on behalf of the organisers. This is a call for submissions to the II Spanish National Meeting in Bioinformatics. The meeting is addressed mainly to Spanish Bioinformaticians, both resident in Spain and abroad, and is being organised by the Spanish National Tematic Network on Bioinformatics. -------------------------------------------------- II Spain National Bioinformatics Meeting (JBI2001) ************************************************** May 30,31, June 1, 2001 Malaga, Spain Organised by Departamento de Arquitectura de Computadores Departamento de Genetica, U.Malaga Unidad de Biocomputacion, CNB Red Nacional de Bioinformatica ================================================ http://www.ac.uma.es/~jbi2001 ================================================ There is more information in the above web page. Submissions: Deadline: Wednesday, 28 February 2001 Electronic submission: jbi2001@ac.uma.es Mail address: Oswaldo Trelles Arquitectura de Computadores Universidad de Malaga Campues de Teatinos 29071 Malaga, Spain WWW: http://www.ac.uma.es/~jbi2001 Questions: Oswaldo Trelles Tel: +34 952 13 2823 Fax: +34 952 13 2790 email: jbi2001@ac.uma.es / ots@ac.uma.es -- Jose R. Valverde EMBnet/CNB From owner-bio-srs@hgmp.mrc.ac.uk Wed Feb 7 13:18:02 2001 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 5400117BDB; Wed, 7 Feb 2001 13:18:02 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id 4161B17BD8; Wed, 7 Feb 2001 13:17:58 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 60001) id 3ABA117BC7; Wed, 7 Feb 2001 12:51:54 +0000 (GMT) To: bionet-software-srs@net.bio.net From: tmargus@ebc.ee (=?iso-8859-1?Q?T=F5nu?= margus) Newsgroups: bionet.software.srs Subject: Installing SRS5.1.0. under linux Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Message-ID: <3A8144FF.25A86FED@ebc.ee> X-Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 37BAE17A66; Wed, 7 Feb 2001 12:51:52 +0000 (GMT) X-Received: from madli.ut.ee (madli.ut.ee [193.40.5.124]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id A3FF64162E for ; Wed, 7 Feb 2001 12:51:41 +0000 (GMT) X-Received: from ebc.ee (ebc15.ebc.ee [193.40.23.15]) by madli.ut.ee (8.10.1/8.10.1/madli-1.12) with ESMTP id f17Cpd811050 for ; Wed, 7 Feb 2001 14:51:39 +0200 (EET) X-Mailer: Mozilla 4.72 [en] (WinNT; I) X-Accept-Language: en X-To: bio-srs@net.bio.net Date: Wed, 7 Feb 2001 13:17:58 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Hi, I have problem to install SRS5.1.0 on Linux (Slackware Linux v 2.2.18) In IRIX 6.4 it compile without problems. gcc -I/export2/tmargus/tri/srs/bin/linux -o /export2/tmargus/tri/srs/bin/linux /nodd /export2/tmargus/tri/srs/bin/linux/nodd.o /export2/tmargus/tri/srs/bin/lin ux/local.o /export2/tmargus/tri/srs/bin/linux/libsrs.a /export2/tmargus/tri/srs/bin/linux/libsrs.a(icadebug.o): In function `DbgIopStat ement': icadebug.o(.text+0xa2): undefined reference to `TermNewLineEditor' icadebug.o(.text+0x111): undefined reference to `TermLineEdit' collect2: ld returned 1 exit status make: *** [/export2/tmargus/tri/srs/bin/linux/nodd] Error 1 srsmake: Stopping due to Error 2 srsinstall: Stopping due to Error 1 I checked what peoples have write about this problem. Tim Cutt suggest http://bionet.hgmp.mrc.ac.uk/hypermail/bio-srs/bio-srs.199906/0008.html 2) The problem is in a #include statement somewhere (I can't remember where). I think you need to change a #include to #include or vice versa The change needs to be made either in icadebug.c itself, or in one of the include files it uses. I replaced termio.h in icadebug.c with termios.h ( only termio.c and termio.h contained a string termio.h. I didnt make replacement in these files.) This cause an other error cc -I/usr/local/bin1/srs/bin/linux -O2 -D__ODD -DSRSINCLUDE=\"srs5.h\" -c -o /usr/local/bin1/srs/bin/l ux/user.o user.c; ar r /usr/local/bin1/srs/bin/linux/libsrs.a /usr/local/bin1/srs/bin/linux/user.o; /bin m -f /usr/local/bin1/srs/bin/linux/user.o ranlib /usr/local/bin1/srs/bin/linux/libsrs.a cc -I/usr/local/bin1/srs/bin/linux -o /usr/local/bin1/srs/bin/linux/nodd /usr/local/bin1/srs/bin/linux odd.o /usr/local/bin1/srs/bin/linux/local.o /usr/local/bin1/srs/bin/linux/libsrs.a /usr/local/bin1/srs/bin/linux/libsrs.a(icabnf.o): In function `IopNodeProg_': icabnf.o(.text+0x1253): undefined reference to `DbgGetStatement' icabnf.o(.text+0x1268): undefined reference to `DbgGetStatement' /usr/local/bin1/srs/bin/linux/libsrs.a(icaop.o): In function `IopContinue': icaop.o(.text+0x556c): undefined reference to `DbgSetContinue' /usr/local/bin1/srs/bin/linux/libsrs.a(icaop.o): In function `IopNext': icaop.o(.text+0x5578): undefined reference to `DbgSetNext' collect2: ld returned 1 exit status make: *** [/usr/local/bin1/srs/bin/linux/nodd] Error 1 srsmake: Stopping due to Error 2 srsinstall: Stopping due to Error 1 Have any idea how to overcome ? Thanks in advance Tõnu Margus E-mail tmargus@ebc.ee Tartu University Riia 23 Tartu 51010 Estonia --- From owner-bio-srs@hgmp.mrc.ac.uk Fri Feb 9 11:43:14 2001 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 0EB4417B44; Fri, 9 Feb 2001 11:43:12 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id 2ADC217B44; Fri, 9 Feb 2001 11:43:07 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6018) id B479F17BB0; Thu, 8 Feb 2001 11:04:33 +0000 (GMT) To: bionet-software-srs@net.bio.net From: Paolo Romano Subject: Call for Papers: NETTAB Workshop Organization: Biotechnology Dept. IST Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Accept-Language: en,it,fr Newsgroups: bionet.software.srs Message-Id: <20010209114307.2ADC217B44@mercury.hgmp.mrc.ac.uk> Date: Fri, 9 Feb 2001 11:43:07 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Dear bionetters, A call for contribution is now open for the NETTAB Workshop on: CORBA and XML: Towards a bioinformatics integrated network environment May 17th-18th, 2001 Advanced Biotechnology Center, Genova, Italy http://www.cba.unige.it/Events/NETTAB/ This workshop will try to introduce the evolving standardization activities for bioinformatics, mainly represented by CORBA and XML based efforts, and outline, through the final round table, the most probable scenarios of coming years. TOPICS * Emerging network standards and their application in the integration of distributed environments. Related facilities and services. Role of ontologies in biology standardization. * New standards, servers, clients and applications in the field of molecular biology and biotechnology, with emphasis on bioinformatics. * Use of programming languages for the exploitation of the integration of distributed databases and software: Perl, Java, Python, PHP, other "open source" languages. Libraries for bioinformatics applications. * Integrated systems and software, SRS implementations. The following lectures have already been defined. * Interoperability of data banks and software systems in the (post) Internet era, Luca Toldo, Merck KGaA, Germany * Standardization and ontologies in biology, Steffen Schulze-Kremer, RZPD, Germany * MGED and MAML: a joint effort for Microarray and Gene Expression standardization, Alvis Brazma, European Bioinformatics Institute, United Kingdom * Current CORBA development activities at the European Bioinformatics Institute, Philip Ljinzaad, European Bioinformatics Institute, United Kingdom * Current efforts and perspectives in the use of XML for biology and the XEWA initiative, Terence Critchlow, Lawrence Livermore National Laboratory, USA * The BioCorba specification and its implementation in java, perl and python, Matthew Pocock, The Sanger Centre, United Kingdom * Integration of SRS with the Object Management Architecture and biology oriented extensible markup languages, Thure Etzold, Lion Biosciences Ltd, United Kingdom * AppLab and the development of network applications in biology, Martin Senger, European Bioinformatics Institute, United Kingdom * The TAMBIS project and its integration in the bioinformatics network environment, Carole Goble, University of Manchester, United Kingdom * The electronical infrastructure for the analysis of metabolic networks, Ralf Hofestaedt, University of Magdeburg, Germany * XML, XSLT and XMAS - application and limitations of XML in handling protein structure data, Andrew C.R. Martin, University of Reading, United Kingdom All workshop's topics are addressed. For submitting a contribution, an extended abstract (max 2 A4 pages, PDF format) will have to be submitted via a Submission Form at: http://www.cba.unige.it/Events/NETTAB/rform.html The deadline is March 1st, 2001. Notifications of acceptance will be sent within April 1st, 2001. Accepted communications and posters will have to submit a short paper (3 to 5 A4 pages) for the Conference Proceedings within May 1st, 2001. The following contributions are sought: * Communications and posters A limited number of oral communications will be selected and admitted to the Oral Communications Session on Friday 18th. The poster session will be in the afternoon of the 17th . * Demo of clients/servers applications A demo session will be held on the 18th. A computer room will be available for demonstrating bioinformatics related network applications based on CORBA and XML clients and servers. Researchers wishing to demonstrate their softwares are invited to submit a poster as well. * Communications (companies' session) A session will be devoted to the presentation of softwares developed by companies. Interested companies should get in touch with the Workshop Secretariat. NETTAB Workshop, Servizio Biotecnologie, Istituto Nazionale per la Ricerca sul Cancro, c/o Centro Biotecnologie Avanzate, Largo Rosanna Benzi 10, I-16132 Genova, Italy Fax: +39-010-5737295 Email: nettab@ist.unige.it Web site: http://www.cba.unige.it/Events/NETTAB/ REGISTRATION FEE Before May 1st, 2001: Academic: 150 Euro Non-academic: 300 Euro After May 1st, 2001: Academic: 200 Euro Non-academic: 400 Euro Fees include coffee breaks, lunches, social dinner, abstracts' book. Looking forward to seeing you in Genoa. Best regards. Paolo Romano (Workshop Chairman) -- Paolo Romano (paolo@ist.unige.it) Biotechnology Department, Natl Inst. for Cancer Research c/o Advanced Biotechnology Centre Largo Rosanna Benzi, 10, I-16132, Genova, Italy Tel: +39-010-5737-288 - Fax: +39-010-5737-295