Hi Alex,

Much thanks for your input.

On 07/13/2011 02:31 PM, Bossers, Alex wrote:
as far as the xml goes. Yes it usually is accompanied by a py perl or bash 
script. However you could extract at least the user configurable options to 
gather input/output and setting parameters from the definition in the xml.

Well, I'm just afraid that in too many occations, the input param flags and order for the accompanying (py/sh/perl) script might not be identical to the command line tool itself (or do the toolconfig generally avoid changing the flags and their order?).

// Samuel

System Expert / Bioinformatician
SNIC-UPPMAX / SciLifeLab Uppsala
Uppsala University, Sweden
E-mail: samuel.la...@scilifelab.uu.se
Phone: +46 (0)18 - 471 1060
WWW: http://www.uppmax.uu.se
Uppnex: https://www.uppnex.uu.se

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