Re: [Treebase-devel] A columnless matrix

[William P. <wil...@ya...>]

It's not impossible that there are matrices that will break or malfunction in the importation. But in this case, since the tb_matrixid is blank, I don't know what it is. I'm guessing this is junk that you can delete.

bp


On Mar 3, 2010, at 5:20 PM, Vladimir Gapeyev wrote:

> Mark's data import instructions have a fix-up step, to be run after the matrices upload.  As I understand it recomputes character counts for matrices, which are computed incorrectly during the upload.  The step is performed by org.cipres.treebase.util.SetMatrixNChar. 
> 
> This step broke during the migration, even though it was fine on my testing data.   Investigating the problem suggests it may be due to a matrix that has no columns (= no associated records in the matrixcolumn table). 
> 
>  matrix_id | tb_matrixid |    nexusfilename     |           title           | study_id | taxonlabelset_id 
> -----------+-------------+----------------------+---------------------------+----------+------------------
>       3463 |             | undone-non-stepm.nex | Untitled Character Matrix |          |             3596
> 
> The file is "undone-non-step.nex" is not in the DB.  
> 
> This matrix  comes from the pre-migration instance.  
> 
> I presume it is junk that I can safely delete, which I'll do before re-trying SetMatrixNChar. 

William H. Piel
Associate Director for Evolutionary Informatics
Peabody 401, Yale University
170 Whitney Ave.
New Haven CT 06511
(203) 436-4957
wil...@ya...