Re: [mart-dev] Creating a single dataset for multiple species

[Syed Haider]

Hi Joachim,

please send the XMLs (SAVE ALL from MartEditor) to Junjun and me (not on 
the list) unless you have sent already.

thanks
Syed

Joachim Baran wrote:
Hello!

2009/8/13 Junjun Zhang <junjun.zh...@oicr.on.ca>:
Thanks Richard. Yes, please try this first. If leaving includeDatasets empty in 
the registry doesn't help, please send me the xml files.
The includeDatasets is empty, but perhaps the following output from
'perl bin/configure.pl ...' makes more sense to you:

...
[NEW CONFIGURATION] .... WITH MEMORY [default]
default ... My Mart 55 (unstable) ...  001/004 ... btaurus_my_ensembl
................ (RDBMS) 127.0.0.1:1187 ................  OK
default ... My Mart 55 (unstable) ...  002/004 ...
mmusculus_my_ensembl .............. (RDBMS) 127.0.0.1:1187
................  OK
default ... My Mart 55 (unstable) ...  003/004 ... celegans_my_ensembl
............... (RDBMS) 127.0.0.1:1187 ................  OK
default ... My Mart 55 (unstable) ...  004/004 ... hsapiens_my_ensembl
............... (RDBMS) 127.0.0.1:1187 ................  OK
default ... Vega Mart 54 (stable) .... 001/002 ... hsapiens_gene_vega
........................ (RDBMS) 127.0.0.1:1188 ................  OK
default ... Vega Mart 54 (stable) .... 002/002 ... mmusculus_gene_vega
....................... (RDBMS) 127.0.0.1:1188 ................  OK
...
Compiling templates for visible datasets
[1/3] Attribute Panel of Dataset.. :hsapiens_my_ensembl
[1/3] Filter Panel of Dataset..... :hsapiens_my_ensembl
[2/3] Attribute Panel of Dataset.. :hsapiens_gene_vega
[2/3] Filter Panel of Dataset..... :hsapiens_gene_vega
[3/3] Attribute Panel of Dataset.. :mmusculus_gene_vega
[3/3] Filter Panel of Dataset..... :mmusculus_gene_vega

I am puzzled that the script detects the datasets of the various
species above, but then compiles the templates only for humans.
Perhaps this is how it should be, but I am not sure.

Thanks,
Joachim