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Article #95Re: ?Gene is reserved?
From: Nicolas Thierry-Mieg
Date: Thu, 01 Apr 2004 08:07
Date: Thu, 01 Apr 2004 08:07
66 lines
3888 bytes
3888 bytes
Ed Griffiths wrote: > Nicolas, > >> just curious about this: it appears that you cannot define your own >> class named ?Gene with acedb 4.9t >> this worked with an old 4.9g though >> >> example: >> models.wrm contains only: >> ?Gene proteins Text >> >> and bad.ace contains: >> Gene : "YWHAG" >> proteins "P35214" >> >> parsing the ace file with 4.9t gives error: "missing model of class Gene" >> 4.9g eats it up fine, and replacing Gene with Gene1 in models and ace >> file works also with 4.9t > > > With the current development code this works and it should do, as far as > I know there is no list of reserved class names and if there is "Gene" > should not be on it. > > Something to watch out for (because I tripped over it ;-) is that I have > a subclass "Gene" defined in my test database which I didn't know about. > You should make sure you don't have one. > > Its likely that behaviour of the code has changed because Simn tinkered > around in the subclass code when he was adding Composite classes: > > http://www.acedb.org/winfo/Newsletters/Year2003/October.html#superclass > > cheers Ed hi Ed, thanks for your quick answer but, err, no that's not the source of the problem, my subclasses.wrm is empty. In fact, if I 'grep Gene *' in wspec, all I get is a few hits in help.wrm, the models.wrm line, and one line in options.wrm (_VGene -V -D TREE -T Title)... In fact this is a tiny and simple database, it's actually an assignment I gave my students, so potential sources of errors are few. But anyways, I just downloaded today's 4.9z build and it works fine where 4.9t fails. So apparently this is a bug in the "stable" 4.9t that has been corrected since then.... a bientot nicolas -- ------------------------------------------------------------ Nicolas Thierry-Mieg Laboratoire LSR-IMAG, BP 53, 38041 Grenoble Cedex 9, France tel : (33/0)4-76-63-55-79, fax : (33/0)4-76-63-55-50 ------------------------------------------------------------
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X-Google-Language: ENGLISH,ASCII-7-bit X-Google-Thread: f6d40,5fb995d3bd863c47 X-Google-Attributes: gidf6d40,public X-Google-ArrivalTime: 2004-04-01 00:07:09 PST Path: arc1-ca.pugleaf.net!archiver1.google.com!news2.google.com!news.maxwell.syr.edu!newsfeed.icl.net!newsfeed.fjserv.net!newsfeed.icl.net!proxad.net!fr.ip.ndsoftware.net!dedekind.zen.co.uk!demorgan.zen.co.uk!zen.net.uk!hamilton.zen.co.uk!193.60.199.26.MISMATCH!feed4.jnfs.ja.net!feed2.jnfs.ja.net!jnfs.ja.net!rfcgr.mrc.ac.uk!hgmp.mrc.ac.uk!net.bio.net From: Nicolas Thierry-Mieg <Nicolas.Thierry-Mieg@imag.fr> Newsgroups: bionet.software.acedb Subject: Re: ?Gene is reserved? Date: 1 Apr 2004 09:07:06 +0100 Organization: BIOSCI/MRC Rosalind Franklin Centre for Genomics Research Lines: 67 Sender: mod-ace@rfcgr.mrc.ac.uk Approved: BIOSCI Approval Key <biosci-approval-key@net.bio.net> Message-ID: <406AE8B0.30206@imag.fr> References: <406949C1.1020505@imag.fr> <c4e271$iov$1@helium.hgmp.mrc.ac.uk> NNTP-Posting-Host: mercury.hgmp.mrc.ac.uk Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii; format=flowed Content-Transfer-Encoding: 7bit X-Trace: helium.hgmp.mrc.ac.uk 1080806827 16010 193.62.192.80 (1 Apr 2004 08:07:07 GMT) X-Complaints-To: news@net.bio.net NNTP-Posting-Date: Thu, 1 Apr 2004 08:07:07 +0000 (UTC) X-Original-To: bionet-software-acedb@net.bio.net User-Agent: Mozilla/5.0 (X11; U; Linux i686; en-US; rv:1.6) Gecko/20040116 X-Accept-Language: en-us, en X-IMAG-MailScanner: Found to be clean X-IMAG-MailScanner-Information: Please contact the ISP for more information X-Auth: PGPMoose V1.1 PGP bionet.software.acedb iQCVAwUAQGvNqqCIqsWvyF5FAQEVBwQAuHOpUlL5sG1U6EncauMYCqQMYlknOkyt EpjTnfXcCqdiDtciaDFpQkHV75J7rF3oKNmtHAbXVsHR+u11aIGhGxcMEd2zQRxb 9kvj2AAh3nv+wMFvJtopiuQIs/f0fwSTmpw6/76xBafb+ZtrXIujklP1YjCWYs+/ 7WTH9p+Wibo= =POCA