There is one place that i found the linkage of the RawBioAssay to the
original file..
the job parameters.. when you import data into the RawBioAssay it
creates a job that
details the RawBioAssay and the file path.. however, users can delete
the jobs and thus
wipe out the connection.. ( which i have done as well )
however, we will soon be storing large files which will not be loaded
into the database per se,
but would like to retrieve them based on the meta data in BASE2.. thus
no jobs will be created, unless
i create a bogus plugin importer just to make a file to RawBioAssay
connection.
it seems less of a hack, but not much, to instead create an annotation
field named File that describes
the RawBioAssay and place the file path there.
-keith
Nicklas Nordborg wrote:
Charles Girardot wrote:
Hi Nicklas,
I might have missed something as I am not using BASE2 now and haven't
investigated in details. I have a comment on this thread :
Very often people come up with some logics in naming their files and,
in the context of re-exporting them (eg, submission), they like to
see file having original names. They might be various other situation
where having the same name is good. I think you should keep original
names somewhere like in BASE1, it makes things easier.
When you upload files the original filename is kept in the database.
There is however no information that links a rawbioassay to the file
that was used for importing the data. It has nothing to do with the file
names.
/Nicklas
Am I off track?
Cheers
Charles
On Dec 8, 2006, at 9:00 AM, Nicklas Nordborg wrote:
Keith Ching wrote:
Hi,
I am trying to write a plugin that will download the original source
files used to
populate the RawBioAssay objects. When you import data into a
RawBioAssay,
is the name of the original source file saved somewhere in the
database?
I am at the point where i can select the RawBioAssays that i want to
download. It's
just I can't find what file was originally used to create it.
That information is not saved.
/Nicklas
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Charles Girardot
European Molecular Biology Laboratory
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Keith Ching, Ph.D.
Bioinformatics, Laboratory of Gene Regulation
Ludwig Institute for Cancer Research
9500 Gilman Drive, #0653
CMM East, Room 3020
La Jolla, CA 92093-0653
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