Hi Junjun,
It worked fine!
Thanks a lot,
Jorge
Junjun Zhang wrote:
Hi Jorge,
For the views (eg, Simple mutation, Copy number variation etc) where
there is a link to the sample report, such as the one you are having
problem, there is a pseudo attribute named ‘dataset’, it should be
under a hidden container named ‘helper_attributes’ (as shown in the
attached screenshot). After you localized it, select it, then
double-click ‘(p0c16)’ (close to the bottom of the screenshot). This
will bring up a window where you can put in the value of dataset.
First find the entry of your own dataset (snp_cnioCLL?), then in the
third column you can type in ‘cinoCLL’. This is assuming your datasets
are named as *_cnioCLL, for examples, snp_cnioCLL, sample_cnioCLL,
cnv_cnioCLL etc.
Let me know if this works.
Best,
Junjun
On 11-02-09 11:33 AM, "Jorge Zamora" <[email protected]> wrote:
Hi Junjun,
will you show us how to make that fix?
Thanks,
Jorge
Junjun Zhang wrote:
> Forwarding the reply to the biomart list, it may be helpful for
other users.
>
>
> ------ Forwarded Message
> From: jzhang <[email protected]>
> Date: Wed, 9 Feb 2011 09:14:21 -0500
> To: Syed Haider <[email protected]>
> Cc: <[email protected]>, Arek Kasprzyk <[email protected]>
> Subject: Re: [BioMart Users] fail to retrieve sample report ICGC mart
>
> This problem was the same as I was trying to explain yesterday.
Url to
> sample report needs a correct dataset name that is prepared in
other view,
> hence the sample dataset name is kept in other marts partition
table and it
> has to be matched properly.
>
> Short solution is to allow users edit this partition column. When
'master'
> partition table is in place this problem will be solved at
software level,
> no user needs to be involved.
>
> Junjun
>
> ----- Original Message -----
> From: Syed Haider
> Sent: Wednesday, February 09, 2011 09:08 AM
> To: Junjun Zhang
> Cc: '[email protected] <%[email protected]>' <[email protected]>
> Subject: Re: [BioMart Users] fail to retrieve sample report ICGC mart
>
> Jorge has already shared the logs with me locally
>
>
> On 09/02/2011 14:01, Junjun Zhang wrote:
>
>> Jorge, please remove password in the log before sending the log
>>
>> Junjun
>>
>> ----- Original Message -----
>> From: Syed Haider [mailto:[email protected]]
>> Sent: Wednesday, February 09, 2011 07:10 AM
>> To: Jorge Zamora<[email protected]>
>> Cc: [email protected]<users <[email protected]%3Cusers>@biomart.org>
>> Subject: Re: [BioMart Users] fail to retrieve sample report ICGC
mart
>>
>> Same for this one too, log file please.
>>
>> thanks
>> Syed
>>
>> On 09/02/2011 10:25, Jorge Zamora wrote:
>>
>>> Hello,
>>>
>>> I trying to get a sample report using my local mart under
biomart 0.8
>>> rc4 (ICGC), hoewer I never get to retrieve the report back.
This how
>>> my url look like:
>>>
>>>
>>>
>
http://localhost:9000/martreport/?report=sample_report&mart=sample_2&donor_id=3&;
<http://localhost:9000/martreport/?report=sample_report&mart=sample_2&donor_id=3&;>
> datasets=sample_no%20data
>
>>> any idea why I don't get the report back? (at least an empty one).
>>>
>>> Thanks,
>>> Jorge
>>>
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