Reha Yildirimman wrote:
> Hello,
>
> using Base2 we are trying to implement the Illumina Chip design. In
order
> to use the raw data files describing coordinates and intensities of
probes
> there is a need to define a new raw data type besides the given ones
> (affymetrix,agilent,spotfinder,...).
>
> Is this already implemented, is there a way around the "data type"
problem
> or am I looking at the wrong spot in base2 ?
Yes, you can add raw data types to Base2. You have to find and modify
the file 'raw-data-types.xml'. It should be located in the
<basedir>/www/WEB-INF/classes directory.
Add a tag <raw-data-type> for the Illumina Chip for example:
<raw-data-type
id="illumina"
channels="2"
name="Illumina"
table="RawDataIllumina"
>
Then add as many <property> tags as you need. The last step is to run
the <basedir>/bin/updatedb.sh script to create the new table.
/Nicklas
>
> Thanks in advance for your help.
>
> Reha
>
> System: Base 2.0rc2 / mysql-5.0.15 / jdk-1_5_0_04 / apache-tomcat-5.5.12
>
> -------------------------------------------
> Reha Yildirimman
> Max-Planck-Institute for Molecular Genetics
> Ihnestr. 73
> 14195 Berlin
>
> 0049-30-8413-1658
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