On 14 Feb 2007, at 17:53, seth redmond wrote:
That's solved my first problem, thanks Arek. Now I still have the
problem I started with.
I've got a schema which relies on a number of sub-classed main tables
which, although complex, looks to be just about consistent with mart
schema. But it won't build naively. The problem appears to be down to
multiple main tables since when I remove any of the others it builds.
However when I add any more than two the naive script hangs (and
according to mysql keeps cycling through each table calling "SHOW
COLUMNS ...").
I'd hazard a guess that MartEditor is following the keys through each
table to try and guess a schema and is getting stuck in a loop of the
three main tables. Is this something you've come across before? and is
there any way around it?
Hi Seth,
any chance of sending us the dump of the tables you created? ei just
the table definitions without any data.
We'll look at them closer to see what the problem could be.
cheers,
a.
-s
On 13 Feb 2007, at 18:18, seth redmond wrote:
Sorry if this is something obvious, but I keep running into a 'no
usable tables' error when I'm trying to do a naive build. I've pared
the database back to just two tables but still can't get a naive
build started.
Is there any way to, eg, get the DB calls back from marteditor so I
can see what's going on? Or is there a verbose mode I've missed?
-s
P.S. I've tried this with a number of tables, BTW but for an example
of one which doesn't work, the following are the ones I'm using now:
snr02[vbmart_01_3]> show create table vb__reporter__main\G show
create table vb__reporter_meta__dm \G
*************************** 1. row ***************************
Table: vb__reporter__main
Create Table: CREATE TABLE `vb__reporter__main` (
`reporter_id_key` varchar(40) NOT NULL,
`reporter_type_list` varchar(50) default NULL,
PRIMARY KEY (`reporter_id_key`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1
1 row in set (0.00 sec)
*************************** 1. row ***************************
Table: vb__reporter_meta__dm
Create Table: CREATE TABLE `vb__reporter_meta__dm` (
`reporter_id_key` varchar(40) NOT NULL,
`mapping_bool` tinyint(1) default '0',
`transcript_bool` tinyint(1) default '0',
`unique_transcript_bool` tinyint(1) default '0',
`experiment_bool` tinyint(1) default '0',
KEY `reporter_id_key` (`reporter_id_key`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1
1 row in set (0.00 sec)
Hi Seth,
this is because you need to have at least one record in your main
table.
Try something like this for example:
mysql> insert into vb__reporter__main values ('blue', 'blue');
It should work now. I agree that the error message there is not very
informative
a.
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Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
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--
Seth Redmond
Scientific Programmer, VectorBase
Kafatos / Christophides Groups
Div. Cell and Molecular Biology
Imperial College, London
[EMAIL PROTECTED]
--
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Arek Kasprzyk
EMBL-European Bioinformatics Institute.
Wellcome Trust Genome Campus, Hinxton,
Cambridge CB10 1SD, UK.
Tel: +44-(0)1223-494606
Fax: +44-(0)1223-494468
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