From owner-bio-srs@hgmp.mrc.ac.uk Wed Mar 15 09:45:18 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 584F717AEC; Wed, 15 Mar 2000 09:45:18 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id B8DD117A5F; Wed, 15 Mar 2000 09:45:15 +0000 (GMT) Received: from rutgers.rutgers.edu (RUTGERS.EDU [165.230.4.76]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id SAA23576 for ; Mon, 13 Mar 2000 18:00:29 GMT Received: from resu1.ulb.ac.be (resu1.ulb.ac.be [164.15.59.200]) by rutgers.rutgers.edu (8.8.8/8.8.8) with ESMTP id NAA25262 for ; Mon, 13 Mar 2000 13:00:28 -0500 (EST) Received: from mach.vub.ac.be (mach.ulb.ac.be [164.15.128.3]) by resu1.ulb.ac.be (8.8.8/3.17.0.ap (resu)) id TAA07072; Mon, 13 Mar 2000 19:01:42 +0100 (MET) for Received: (news@localhost) by mach.vub.ac.be (8.9.3/%I%.1.ap (mach.test)) id SAA25424; Mon, 13 Mar 2000 18:59:56 +0100 (MET) for To: bionet-software-srs@moderators.isc.org From: gbottu@bigben.vub.ac.be (Guy Bottu) Newsgroups: bionet.software.srs Subject: why no parallel indexing of GCG databanks under SRS6 ? Organization: Brussels Free Universities VUB/ULB Message-ID: <8ajaas$cn7$1@mach.vub.ac.be> X-Newsreader: TIN [version 1.2 PL2] Date: Wed, 15 Mar 2000 09:45:15 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Hello, I noticed that with SRS 6 it is now possible to index chunks of the databank in parallel. However, it does not work with GCG format databanks and this is mentioned in the *.i files distributed by Lion. Could someone tell me if there is a fundamental reason why this is so (maybe something to do with GCG using two files ?) or the necessary lines of code in the Icarus files have just not been written yet ? Guy Bottu, Belgian EMBnet Node From owner-bio-srs@hgmp.mrc.ac.uk Wed Mar 15 09:45:20 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 2F60917AEE; Wed, 15 Mar 2000 09:45:19 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id JAA15162 for ; Wed, 15 Mar 2000 09:45:16 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id JAA08459 for bio-srs-list@hgmp.mrc.ac.uk; Wed, 15 Mar 2000 09:45:15 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: gbottu@bigben.vub.ac.be (Guy Bottu) X-Newsgroups: bionet.software.srs Subject: why no parallel indexing of GCG databanks under SRS6 ? Date: 15 Mar 2000 09:45:14 -0000 Organization: Brussels Free Universities VUB/ULB Lines: 12 Message-ID: <8ajaas$cn7$1@mach.vub.ac.be> X-Trace: niobium.hgmp.mrc.ac.uk 953113514 8457 193.62.192.80 (15 Mar 2000 09:45:14 GMT) X-Complaints-To: news@net.bio.net X-Newsreader: TIN [version 1.2 PL2] X-Auth: PGPMoose V1.1 PGP bionet.software.srs iQCVAwUAOM9bqKCIqsWvyF5FAQEPgQP/cfUo57kZaDTWPnO0f4jPVd59gZng5eod FabEVy6/GGDdjWbb0MRZdiS7pWjmr1jWb6+KXc6207OicvjLtusnN11kJ63E8Sjw yisx0Ka9Cgs4M0sTo0k/xNJ1YzzCYR1Ec0R+3WmeweFrHCrxY8aQEoRQL9dKDIMN mSgmoTiK7Hs= =KTnb To: bio-srs@hgmp.mrc.ac.uk Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Hello, I noticed that with SRS 6 it is now possible to index chunks of the databank in parallel. However, it does not work with GCG format databanks and this is mentioned in the *.i files distributed by Lion. Could someone tell me if there is a fundamental reason why this is so (maybe something to do with GCG using two files ?) or the necessary lines of code in the Icarus files have just not been written yet ? Guy Bottu, Belgian EMBnet Node From owner-bio-srs@hgmp.mrc.ac.uk Mon Mar 20 16:23:40 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 48A4117AB9; Mon, 20 Mar 2000 16:23:39 +0000 (GMT) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id QAA09306 for ; Mon, 20 Mar 2000 16:23:31 GMT Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id QAA23346 for bio-srs-list@hgmp.mrc.ac.uk; Mon, 20 Mar 2000 16:23:30 GMT X-Authentication-Warning: niobium.hgmp.mrc.ac.uk: news set sender to using -f From: katherine.wolstencroft@man.ac.uk (Katy Wolstencroft) X-Newsgroups: bionet.software.srs Subject: Owl indexing problems Date: 20 Mar 2000 16:23:29 -0000 Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Lines: 13 Message-ID: <38D64226.DBE5E303@man.ac.uk> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: niobium.hgmp.mrc.ac.uk 953569409 23344 193.62.192.80 (20 Mar 2000 16:23:29 GMT) X-Complaints-To: news@net.bio.net X-Received: from gannet.scg.man.ac.uk (gannet.scg.man.ac.uk [130.88.94.110]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id PAA00406 for ; Mon, 20 Mar 2000 15:18:50 GMT X-Received: from pc101.sbc.man.ac.uk ([130.88.235.1] helo=man.ac.uk) by gannet.scg.man.ac.uk with esmtp (Exim 1.92 #3) for bio-srs@net.bio.net id 12X3xC-000C1y-00; Mon, 20 Mar 2000 15:18:50 +0000 X-To: bio-srs@hgmp.mrc.ac.uk X-Auth: PGPMoose V1.1 PGP bionet.software.srs iQCVAwUAONZQgKCIqsWvyF5FAQEGTQP7Bx3zEzVovQB0LW7oUNTSwAQ+MigSqVAA 9iqdLdr+pOiY6P2gCDl4DAbCO/4S5XMIETHbHSvPWY5zBqV45VtuBZTLiuRJqftk gGjyrJalGXzGfpp3QgYAmjoPbSbZ4C/KgTIs0ye3yYbxzxwxJcT/jLUE6nVYM3U8 L1r7LTiaclk= =P+sg To: bio-srs@hgmp.mrc.ac.uk Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Hi I have recently upgraded to srs6 and I am having problems converting my icarus files for the Owl database. Does anyone have Owl running successfully on srs6? If you do, or if you know a site that does, please let me know. Maybe then I can figure out where I am going wrong! Thanks Katy Wolstencroft Email katherine.wolstencroft@man.ac.uk --- From owner-bio-srs@hgmp.mrc.ac.uk Mon Mar 20 16:23:40 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id C37ED17AB1; Mon, 20 Mar 2000 16:23:39 +0000 (GMT) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6015) id 4F52817AB1; Mon, 20 Mar 2000 16:23:30 +0000 (GMT) Received: (from daemon@localhost) by hgmp.mrc.ac.uk (8.9.3/8.9.3) id PAA00413 for bionet-software-srs@net.bio.net; Mon, 20 Mar 2000 15:18:54 GMT To: bionet-software-srs@hgmp.mrc.ac.uk From: katherine.wolstencroft@man.ac.uk (Katy Wolstencroft) Newsgroups: bionet.software.srs Subject: Owl indexing problems Organization: BIOSCI/MRC Human Genome Mapping Project Resource Centre Message-ID: <38D64226.DBE5E303@man.ac.uk> MIME-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Received: from gannet.scg.man.ac.uk (gannet.scg.man.ac.uk [130.88.94.110]) by hgmp.mrc.ac.uk (8.9.3/8.9.3) with ESMTP id PAA00406 for ; Mon, 20 Mar 2000 15:18:50 GMT X-Received: from pc101.sbc.man.ac.uk ([130.88.235.1] helo=man.ac.uk) by gannet.scg.man.ac.uk with esmtp (Exim 1.92 #3) for bio-srs@net.bio.net id 12X3xC-000C1y-00; Mon, 20 Mar 2000 15:18:50 +0000 X-Mailer: Mozilla 4.05 [en] (WinNT; I) X-To: bio-srs@hgmp.mrc.ac.uk Date: Mon, 20 Mar 2000 16:23:30 +0000 (GMT) Sender: owner-bio-srs@hgmp.mrc.ac.uk Precedence: bulk Hi I have recently upgraded to srs6 and I am having problems converting my icarus files for the Owl database. Does anyone have Owl running successfully on srs6? If you do, or if you know a site that does, please let me know. Maybe then I can figure out where I am going wrong! Thanks Katy Wolstencroft Email katherine.wolstencroft@man.ac.uk ---