Hi Berenice
This comes from your BASEfile. The assay header in the spots section
should be tab separated. It looks like you are using a space instead.
/Johan
On 9 jan 2008, at 17.48, Bérénice WULBRECHT wrote:
Hi,
I installed BASE 2.5 and migrate data from my BASE 1. I have bug
when I
tophides Groups
Division of Cell and Molecular Biology | Imperial College London
Phone +442075941945 | Email [EMAIL PROTECTED]
-Original Message-
From: [EMAIL PROTECTED] on behalf of Johan Enell
Sent: Thu 2007-09-13 15:37
To: BASE ML
Subject: Re: [base] Base1PluginExecuter parameter xml
Hi Bob,
Just wanted to tell you that I've successfully executed the
clustering from Base1. As you mentioned the export wrote the external
id wrong. It should be reporterId. It has been fixed in the Base2.4
branch.
/Johan
12 sep 2007 kl. 13.36 skrev Bob MacCallum:
>
> [note: minor bug rep
[note: minor bug report buried deep in this email]
> Now I'm just having some problems with the BASE1/BASE2 column names.
>
> At last google and the mailing list help me out:
> http://www.mail-archive.com/basedb-users@lists.sourceforge.net/msg00725.html
>
> It looks like I just have to
Thanks Johan. I fully realise the lack of equivalents to clust_*.phtml in
BASE2 - we were hoping to use the PNGs for our own purposes.
I already tried to export the parameter config from BASE1 and get
tab-delimited text. I was just hoping I don't have to convert that to XML
manually...
Ah... n
a) I don't know how memory efficient MeV is but isn't memory always an
issue when clustering?
b) But imagine a future where MeV actually stores data back to BASE! I
think this may become doable as a part of the web services development
in BASE 2.5.
I would like to go even further where users c
I knew someone was going to ask that...
Because
a) I tried it and get out-of-memory errors on a 1GB Mac clustering a
relatively modest experiment (12 hybs x 20k spots). We will have users in
developing nations with much less computing power than that.
b) Anything done in MeV is not store
Why not use the clustering in the MeV plugin shipped with BASE?
Jari
Johan Enell wrote:
> Hj Bob,
>
> The clustering from Base1 will not work in Base2. Or more precisely,
> you will be able to run the plugin but you wont be able to se the
> result. The visualization page in Base1 was a spe
Hj Bob,
The clustering from Base1 will not work in Base2. Or more precisely,
you will be able to run the plugin but you wont be able to se the
result. The visualization page in Base1 was a specific php page for
that plugin and we didn't want a solution like that in Base2.
When you configur
Hi Johan,
> About the plugin executer:
>
> The plugin executer was created (as the name suggest) as a bridge for
> base1 plugins and not as a generic way of executing none java plugins.
> As for now we don't have the recourses to evolve it in that direction,
> the first priority is to get it t
About the plugin executer:
The plugin executer was created (as the name suggest) as a bridge for
base1 plugins and not as a generic way of executing none java plugins.
As for now we don't have the recourses to evolve it in that direction,
the first priority is to get it to work with existing pl
Johan Enell wrote:
> I think it's best to discuss this in a new thread.
>
> The easiest way to go around this bug is to define a directory for the
> Experiment. Edit Experiment and add a directory.
Ok, thanks. That got me a bit further...
>
> You will also need to change the field '_allIntensi
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