From owner-embl-db@hgmp.mrc.ac.uk Thu Jul 6 14:49:26 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id F37A917A90; Thu, 6 Jul 2000 14:49:25 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id 7C1BC17AD0; Thu, 6 Jul 2000 14:49:24 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id EFC2117A9C; Tue, 4 Jul 2000 17:32:27 +0100 (BST) Received: from moderated.news.pipex.net (moderated.news.pipex.net [158.43.192.79]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 62BE8415D4 for ; Tue, 4 Jul 2000 17:32:22 +0100 (BST) Received: (qmail 29663 invoked by alias); 4 Jul 2000 16:32:21 -0000 Received: (qmail 29659 invoked from network); 4 Jul 2000 16:32:20 -0000 Received: from mailer3.bham.ac.uk (147.188.128.54) by moderated.news.pipex.net with SMTP; 4 Jul 2000 16:32:20 -0000 Received: from bham.ac.uk ([147.188.128.127]) by mailer3.bham.ac.uk with esmtp (Exim 3.02 #16) id 139VcR-0000cb-00 for bionet-molbio-embldatabank@moderators.isc.org; Tue, 04 Jul 2000 17:32:19 +0100 Received: from usenet.bham.ac.uk ([147.188.128.47]) by bham.ac.uk with esmtp (Exim 3.10 #1) id 139VcR-0007Te-00 for bionet-molbio-embldatabank@moderators.isc.org; Tue, 04 Jul 2000 17:32:19 +0100 Received: from news by usenet.bham.ac.uk with local (Exim 3.03 #1) id 139VeD-0002if-00 for bionet-molbio-embldatabank@moderators.isc.org; Tue, 04 Jul 2000 17:34:09 +0100 To: bionet-molbio-embldatabank@moderators.isc.org From: Miklos Cserzo Newsgroups: embnet.general,bionet.molbio.embldatabank Subject: Re: EMBL 63 available Organization: The University of Birmingham news server Message-ID: References: <395B6EF1.C08A3C0C@ebi.ac.uk> Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Trace: usenet.bham.ac.uk 962728449 10442 147.188.9.20 (4 Jul 2000 16:34:09 GMT) X-Complaints-To: usenet@usenet.bham.ac.uk NNTP-Posting-Date: 4 Jul 2000 16:34:09 GMT To: Peter Stoehr Date: Thu, 6 Jul 2000 14:49:24 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk On 29 Jun 2000, Peter Stoehr wrote: Hi Folks, > Release 63 of the EMBL Nucleotide Sequence Database is available from: > the EBI ftp server and other mirror sites below: > > ftp://ftp.ebi.ac.uk/pub/databases/embl/release (UK) > ftp://ftp.dk.embnet.org/pub/databases/embl (Denmark) > ftp://ftp.es.embnet.org/pub/databases/embl/release (Spain) > how long does it normally take to download the full release? (This is the fifth day for me between Hinxton and B'ham. :((() miklos Miklos Cserzo University of Birmingham c/o School of Biosciences MRC - Bioinformatics Project Tel: +44-121-414-3037 Schools of Biosciences and Medicine Fax: +44-121-414-3982 Edgbaston, Birmingham B15 2TT E-mail: miklos@bip.bham.ac.uk United Kingdom From owner-embl-db@hgmp.mrc.ac.uk Fri Jul 7 10:40:00 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id DD13D17B19; Fri, 7 Jul 2000 10:39:59 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id E14A117B13; Fri, 7 Jul 2000 10:39:57 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 36F6217B90; Thu, 6 Jul 2000 16:32:17 +0100 (BST) Received: from briar.org (backdraft.briar.org [192.207.123.123]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 6FF31415DC for ; Thu, 6 Jul 2000 16:32:15 +0100 (BST) Received: (from smap@localhost) by briar.org (8.9.1b+Sun/8.6.12) id LAA16354 for ; Thu, 6 Jul 2000 11:32:13 -0400 (EDT) X-Authentication-Warning: backdraft.briar.org: smap set sender to using -f Received: from pat.ccc.nottingham.ac.uk(128.243.40.194) by backdraft via smap (V2.1) id xma016351; Thu, 6 Jul 00 11:32:07 -0400 Received: from oyez.ccc.nottingham.ac.uk ([128.243.241.164] helo=news.nottingham.ac.uk) by nottingham.ac.uk with esmtp (Exim 3.13 #2) id 13ADbm-00071S-00 for bionet-molbio-embldatabank@moderators.isc.org; Thu, 06 Jul 2000 16:30:34 +0100 Received: from news by news.nottingham.ac.uk with local (Exim 1.92 #1) for bionet-molbio-embldatabank@moderators.isc.org id 13ADdD-0004k4-00; Thu, 6 Jul 2000 16:32:03 +0100 To: bionet-molbio-embldatabank@moderators.isc.org From: Keith Bradnam Newsgroups: embnet.general,bionet.molbio.embldatabank Subject: Re: EMBL 63 available Organization: ACS, The University of Nottingham Message-ID: References: <395B6EF1.C08A3C0C@ebi.ac.uk> Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Trace: oyez.ccc.nottingham.ac.uk 962897523 18230 128.243.116.150 (6 Jul 2000 15:32:03 GMT) X-Complaints-To: usenet@news.nottingham.ac.uk NNTP-Posting-Date: 6 Jul 2000 15:32:03 GMT To: Miklos Cserzo X-Sender: keith@thale Date: Fri, 7 Jul 2000 10:39:57 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk On 6 Jul 2000, Miklos Cserzo wrote: > > > On 29 Jun 2000, Peter Stoehr wrote: > > Hi Folks, > > > Release 63 of the EMBL Nucleotide Sequence Database is available from: > > the EBI ftp server and other mirror sites below: > > > > ftp://ftp.ebi.ac.uk/pub/databases/embl/release (UK) > > ftp://ftp.dk.embnet.org/pub/databases/embl (Denmark) > > ftp://ftp.es.embnet.org/pub/databases/embl/release (Spain) > > > > how long does it normally take to download the full release? (This is the > fifth day for me between Hinxton and B'ham. :((() >From personal experience of downloading EMBL (or more specifically just downloading the plant sequences in EMBL) I would say that it will take a *long* time if you try and download it during the day, during the week. If you can schedule to try and download it at the weekend, it can make a big difference and you *should* be able to download the entire database. I think that database growth is still exceeding developments in bandwidth though so this might get worse before it gets better. Keith ~ Keith Bradnam - Developer, Arabidopsis Genome Resource (AGR) ~ Nottingham Arabidopsis Stock Centre - http://nasc.nott.ac.uk/ ~ University Park, University of Nottingham, NG7 2RD, UK ~ Tel: (0115) 951 3091 From owner-embl-db@hgmp.mrc.ac.uk Fri Jul 7 10:40:07 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 2770617B16; Fri, 7 Jul 2000 10:40:07 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id 3C5F217B13; Fri, 7 Jul 2000 10:40:04 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 9279F17A60; Thu, 6 Jul 2000 14:56:12 +0100 (BST) Received: from rutgers.rutgers.edu (bsd.rutgers.edu [165.230.4.71]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 9E9BF415D4 for ; Thu, 6 Jul 2000 14:56:10 +0100 (BST) Received: from cliff.niehs.nih.gov (root@cliff.niehs.nih.gov [157.98.8.7]) by rutgers.rutgers.edu (8.8.8/8.8.8) with ESMTP id JAA18868 for ; Thu, 6 Jul 2000 09:56:08 -0400 (EDT) Received: from cliff.niehs.nih.gov (IDENT:root@localhost [127.0.0.1]) by cliff.niehs.nih.gov (8.9.3/8.9.3/NIEHS-POST-1.3) with ESMTP id JAA08438 for ; Thu, 6 Jul 2000 09:56:07 -0400 Received: from trollope.niehs.nih.gov (trollope.niehs.nih.gov [157.98.13.26]) by cliff.niehs.nih.gov (8.9.3/8.9.3/NIEHS-PRE-1.3) with ESMTP id JAA08411; Thu, 6 Jul 2000 09:56:05 -0400 Received: by trollope.niehs.nih.gov with Internet Mail Service (5.5.2650.21) id <3FANWSYX>; Thu, 6 Jul 2000 09:56:20 -0400 Message-ID: <4D693F933DD8D311A18C00E018B00576021FBC8C@trollope.niehs.nih.gov> From: "Staffa.Nick" To: "'Miklos Cserzo '" , "'bionet-molbio-embldatabank@moderators.isc.org '" , "'Peter Stoehr '" Subject: RE: EMBL 63 available MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2650.21) Content-Type: text/plain Newsgroups: bionet.molbio.embldatabank Date: Fri, 7 Jul 2000 10:40:04 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk 'Twas a real pain for me here. Genbank completed overnight, but between my mistakes, embl going down, and general slowness of downloads, it was more than 3 days. Nick Staffa National Institute of Environmental Health Sciences ITSS contract computer support NIH RTP, NC USA >From the Birthplace of the Star Spangled Banner, Baltimore Maryland -----Original Message----- From: Miklos Cserzo To: bionet-molbio-embldatabank@moderators.isc.org; Peter Stoehr Sent: 7/6/00 9:49 AM Subject: Re: EMBL 63 available On 29 Jun 2000, Peter Stoehr wrote: Hi Folks, > Release 63 of the EMBL Nucleotide Sequence Database is available from: > the EBI ftp server and other mirror sites below: > > ftp://ftp.ebi.ac.uk/pub/databases/embl/release (UK) > ftp://ftp.dk.embnet.org/pub/databases/embl (Denmark) > ftp://ftp.es.embnet.org/pub/databases/embl/release (Spain) > how long does it normally take to download the full release? (This is the fifth day for me between Hinxton and B'ham. :((() miklos Miklos Cserzo University of Birmingham c/o School of Biosciences MRC - Bioinformatics Project Tel: +44-121-414-3037 Schools of Biosciences and Medicine Fax: +44-121-414-3982 Edgbaston, Birmingham B15 2TT E-mail: miklos@bip.bham.ac.uk United Kingdom From owner-embl-db@hgmp.mrc.ac.uk Sat Jul 8 19:30:19 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id B193117B44; Sat, 8 Jul 2000 19:30:18 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id 5164B17A80; Sat, 8 Jul 2000 19:30:17 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 6901917B21; Fri, 7 Jul 2000 17:26:40 +0100 (BST) Received: from moderated.news.pipex.net (moderated.news.pipex.net [158.43.192.79]) by mercury.hgmp.mrc.ac.uk (Postfix) with SMTP id 3EA70415D5 for ; Fri, 7 Jul 2000 17:26:39 +0100 (BST) Received: (qmail 29430 invoked by alias); 7 Jul 2000 16:26:38 -0000 Received: (qmail 29426 invoked from network); 7 Jul 2000 16:26:38 -0000 Received: from pat.ccc.nottingham.ac.uk (HELO nottingham.ac.uk) (128.243.40.194) by moderated.news.pipex.net with SMTP; 7 Jul 2000 16:26:38 -0000 Received: from oyez.ccc.nottingham.ac.uk ([128.243.241.164] helo=news.nottingham.ac.uk) by nottingham.ac.uk with esmtp (Exim 3.13 #2) id 13Aaw4-0003ne-00 for bionet-molbio-embldatabank@moderators.isc.org; Fri, 07 Jul 2000 17:25:05 +0100 Received: from news by news.nottingham.ac.uk with local (Exim 1.92 #1) for bionet-molbio-embldatabank@moderators.isc.org id 13AaxW-0001mW-00; Fri, 7 Jul 2000 17:26:34 +0100 To: bionet-molbio-embldatabank@moderators.isc.org From: Keith Bradnam Newsgroups: bionet.molbio.embldatabank Subject: RE: EMBL 63 available Organization: ACS, The University of Nottingham Message-ID: References: <4D693F933DD8D311A18C00E018B00576021FBC8C@trollope.niehs.nih.gov> Reply-To: Keith Bradnam Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Trace: oyez.ccc.nottingham.ac.uk 962987194 6850 128.243.116.150 (7 Jul 2000 16:26:34 GMT) X-Complaints-To: usenet@news.nottingham.ac.uk NNTP-Posting-Date: 7 Jul 2000 16:26:34 GMT X-Sender: keith@thale Date: Sat, 8 Jul 2000 19:30:17 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk On 7 Jul 2000, Staffa.Nick wrote: > 'Twas a real pain for me here. > Genbank completed overnight, but between my mistakes, embl going down, and > general slowness of downloads, it was more than 3 days. It's easy to imagine that in the (near) future we'll all be using Gigabit (or higher) ethernet/internet connections and will laugh at the day we were restricted to 100 Mbits per sec...but I'm not sure how much more (seemingly exponential) sequence database growth will occur before any major improvements in bandwidth occur. I was processing EMBL 63 updates today for my Arabidopsis database and found that there were 50,000 new Arabidopsis EST sequences in one day's update! This one update represents a third of all the sequences we currently have and a major jump in database size (especially when you add on associated information such as blast homologies). Therefore... Does anybody know if anyone has looked at developing better compression tools purposely for EMBL/GenBank records? I know that GenBank has only recently moved over to Gzip but I feel that there might be something better that could be developed. This is based on the observation that most new EMBL sequences appear to be very long and therefore the DNA part of the sequence entry constitutes the greatest fraction of the total file size (particularly for the HTG sequences where there is little annotation). As a test, I recently took a very long DNA sequence and tried different compression programs on it and found... Original sequence - 203,335 bases/bytes pack - 56,298 bytes compress - 57,711 winzip (maximum compression setting) - 60,427 gzip (maximum compression setting) - 60,457 gzip (default) - 61,996 winzip (default) - 63,072 So in this case, an older UNIX compression tool ('pack') beats the rest by a small margin. However, I wrote a dead simple script to further knock the sequence down to 50,834 bytes, i.e. 75% compression which is easily possibly if you encode 4 DNA characters as 1 bit of an 8-bit byte. Of course this doesn't work for protein sequences, or where there are N's in the DNA sequence, or for all the ancillarly information in an EMBL record, and it's only a small saving. But apply that saving in compression to an entire database and you might save a few hours downloading time. Does anybody know of any research being done on this? I know somebody at Nottingham University who is kind of interested, but wants to know if there would be interest in such a compression program...and for that to happen I guess it would have to be accepted as a standard by all major databases and made very easy to get hold of. I can't help feel that extra compression could be gained by further considering some of the more frequent hexanucleotides that occur in DNA sequences. Anyone have any info/thoughts/views??? Keith P.S. I accept that in some ways this is arguing about something that might be blown out of the water by any new developments in bandwidth...but maybe there is some mileage in this. ~ Keith Bradnam - Developer, Arabidopsis Genome Resource (AGR) ~ Nottingham Arabidopsis Stock Centre - http://nasc.nott.ac.uk/ ~ University Park, University of Nottingham, NG7 2RD, UK ~ Tel: (0115) 951 3091 From owner-embl-db@hgmp.mrc.ac.uk Sat Jul 8 19:30:27 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id 5858417B43; Sat, 8 Jul 2000 19:30:27 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id 2227317AB2; Sat, 8 Jul 2000 19:30:26 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id B30C617A71; Sat, 8 Jul 2000 00:22:43 +0100 (BST) Received: from mailbox1.ucsd.edu (mailbox1.ucsd.edu [132.239.1.53]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 3FA64415D4 for ; Sat, 8 Jul 2000 00:22:42 +0100 (BST) Received: from Astrovan.cstone.net (astrovan.cstone.net [209.145.64.80]) by mailbox1.ucsd.edu (8.9.3/8.9.3) with ESMTP id QAA15355 for ; Fri, 7 Jul 2000 16:22:39 -0700 (PDT) Received: from box6.cho.cstone.net ([209.145.64.50]) by Astrovan.cstone.net (Post.Office MTA v3.5.3 release 223 ID# 0-59789U13500L1350S0V35) with ESMTP id net for ; Fri, 7 Jul 2000 19:15:29 -0400 Received: (from news@localhost) by box6.cho.cstone.net (8.9.3/8.9.3) id TAA74215 for bionet-molbio-embldatabank@moderators.isc.org; Fri, 7 Jul 2000 19:18:22 -0400 (EDT) (envelope-from news@mail.cstone.net) To: bionet-molbio-embldatabank@moderators.isc.org From: Michael Black Newsgroups: embnet.general,bionet.molbio.embldatabank Subject: Re: EMBL 63 available Organization: University of Virginia Message-ID: <396666CE.23ADCEDB@virginia.edu> References: <395B6EF1.C08A3C0C@ebi.ac.uk> Mime-Version: 1.0 Content-Type: multipart/mixed; boundary="------------8B869823E0EBBAB7A21E9560" X-Trace: box6.cho.cstone.net 963011902 74211 209.145.71.5 (7 Jul 2000 23:18:22 GMT) X-Complaints-To: abuse@cstone.net NNTP-Posting-Date: 7 Jul 2000 23:18:22 GMT X-Mailer: Mozilla 4.73 [en] (X11; I; Linux 2.2.15-4mdk i686) X-Accept-Language: en Date: Sat, 8 Jul 2000 19:30:26 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk This is a multi-part message in MIME format. --------------8B869823E0EBBAB7A21E9560 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit When I first tried downloading from the ebi site, I was only seeing 2-4K/sec, and after two days I killed the download. The next day I switched to the Danish site and got transfers of 230-300K/sec and got the entire release in one working day (last Wednesday, during normal business hours). Try the mirrors and see if your speed inproves. Keith Bradnam wrote: > On 6 Jul 2000, Miklos Cserzo wrote: > > > > > > > On 29 Jun 2000, Peter Stoehr wrote: > > > > Hi Folks, > > > > > Release 63 of the EMBL Nucleotide Sequence Database is available from: > > > the EBI ftp server and other mirror sites below: > > > > > > ftp://ftp.ebi.ac.uk/pub/databases/embl/release (UK) > > > ftp://ftp.dk.embnet.org/pub/databases/embl (Denmark) > > > ftp://ftp.es.embnet.org/pub/databases/embl/release (Spain) > > > > > > > how long does it normally take to download the full release? (This is the > > fifth day for me between Hinxton and B'ham. :((() > > >From personal experience of downloading EMBL (or more specifically just > downloading the plant sequences in EMBL) I would say that it will take a > *long* time if you try and download it during the day, during the week. > If you can schedule to try and download it at the weekend, it can make a > big difference and you *should* be able to download the entire database. > > I think that database growth is still exceeding developments in bandwidth > though so this might get worse before it gets better. > > Keith > > ~ Keith Bradnam - Developer, Arabidopsis Genome Resource (AGR) > ~ Nottingham Arabidopsis Stock Centre - http://nasc.nott.ac.uk/ > ~ University Park, University of Nottingham, NG7 2RD, UK > ~ Tel: (0115) 951 3091 -- Michael Black, Ph.D. Molecular Biology Computing Support University of Virginia, ITC-ACHS P.O. Box 800777 Charlottesville, VA 22908-0777 voice: (804)982-4039 fax: (804)982-4030 mblack@virginia.edu -- --------------8B869823E0EBBAB7A21E9560 Content-Type: text/x-vcard; charset=us-ascii; name="mbb8n.vcf" Content-Transfer-Encoding: 7bit Content-Description: Card for Michael Black Content-Disposition: attachment; filename="mbb8n.vcf" begin:vcard n:Black;Michael tel;fax:(894)982-4030 tel;work:(804)982-4039 x-mozilla-html:TRUE url:http://www.people.virginia.edu/~mbb8n/ org:University of Virginia;ITC-Academic Computing Health Sciences version:2.1 email;internet:mblack@virginia.edu title:Molecular Biology Computing Support adr;quoted-printable:;;University of Virginia=0D=0AITC-ACHS=0D=0AP.O. Box 800777;Charlottesville;VA;22908-0777;USA x-mozilla-cpt:;0 fn:Michael Black, Ph.D. end:vcard --------------8B869823E0EBBAB7A21E9560-- From owner-embl-db@hgmp.mrc.ac.uk Mon Jul 10 16:48:00 2000 Return-Path: Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 110) id BB6AE17B03; Mon, 10 Jul 2000 16:47:59 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6014) id 390D417A89; Mon, 10 Jul 2000 16:47:58 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6024) id 072F317AD2; Mon, 10 Jul 2000 12:59:28 +0100 (BST) Received: from niobium.hgmp.mrc.ac.uk (niobium [193.62.192.41]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 8221E415CF for ; Mon, 10 Jul 2000 12:59:28 +0100 (BST) Received: (from news@localhost) by niobium.hgmp.mrc.ac.uk (8.9.3+Sun/8.8.8) id MAA07006 for bionet-molbio-embldatabank@net.bio.net; Mon, 10 Jul 2000 12:59:28 +0100 (BST) To: bionet-molbio-embldatabank@net.bio.net From: Peter Stoehr Newsgroups: embnet.general,bionet.molbio.embldatabank Subject: Re: EMBL 63 available Organization: EMBL-EBI Message-ID: <3969BA9F.F27B16AD@ebi.ac.uk> References: <395B6EF1.C08A3C0C@ebi.ac.uk> <396666CE.23ADCEDB@virginia.edu> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Transfer-Encoding: 7bit X-Trace: niobium.hgmp.mrc.ac.uk 963230367 7004 193.62.196.237 (10 Jul 2000 11:59:27 GMT) X-Complaints-To: news@net.bio.net NNTP-Posting-Date: 10 Jul 2000 11:59:27 GMT X-Mailer: Mozilla 4.7 [en] (WinNT; I) X-Accept-Language: en Date: Mon, 10 Jul 2000 16:47:58 +0100 (BST) Sender: owner-embl-db@hgmp.mrc.ac.uk Precedence: bulk That's good news about the use of the Danish site, and we will put more effort into establishing more mirror sites at strategic network locations. We have had over 150 sites now downloading the full release from EBI alone, about 600GB to shift, and although we will soon improve our network connection further, it will be important to get several accurate copies of releases (and updates) out there to spread the load. Regards, Peter Stoehr EMBL-EBI Michael Black wrote: > > When I first tried downloading from the ebi site, I was only seeing 2-4K/sec, > and after two days I killed the download. The next day I switched to the > Danish site and got transfers of 230-300K/sec and got the entire release in > one working day (last Wednesday, during normal business hours). Try the > mirrors and see if your speed inproves. > > Keith Bradnam wrote: > > > On 6 Jul 2000, Miklos Cserzo wrote: > > > > > > > > > > > On 29 Jun 2000, Peter Stoehr wrote: > > > > > > Hi Folks, > > > > > > > Release 63 of the EMBL Nucleotide Sequence Database is available from: > > > > the EBI ftp server and other mirror sites below: > > > > > > > > ftp://ftp.ebi.ac.uk/pub/databases/embl/release (UK) > > > > ftp://ftp.dk.embnet.org/pub/databases/embl (Denmark) > > > > ftp://ftp.es.embnet.org/pub/databases/embl/release (Spain) > > > > > > > > > > how long does it normally take to download the full release? (This is the > > > fifth day for me between Hinxton and B'ham. :((() > > > > >From personal experience of downloading EMBL (or more specifically just > > downloading the plant sequences in EMBL) I would say that it will take a > > *long* time if you try and download it during the day, during the week. > > If you can schedule to try and download it at the weekend, it can make a > > big difference and you *should* be able to download the entire database. > > > > I think that database growth is still exceeding developments in bandwidth > > though so this might get worse before it gets better. > > > > Keith > > > > ~ Keith Bradnam - Developer, Arabidopsis Genome Resource (AGR) > > ~ Nottingham Arabidopsis Stock Centre - http://nasc.nott.ac.uk/ > > ~ University Park, University of Nottingham, NG7 2RD, UK > > ~ Tel: (0115) 951 3091 > > -- > Michael Black, Ph.D. > Molecular Biology Computing Support > University of Virginia, ITC-ACHS > P.O. Box 800777 > Charlottesville, VA > 22908-0777 > voice: (804)982-4039 > fax: (804)982-4030 > mblack@virginia.edu > --