<command interpreter="perl">rm_consecutive_sameScore.pl "$input1" "$output1"</command>

seems enough if you join the script .pl with your wrapper .xml

Gildas

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Gildas Le Corguillé - Bioinformatician/Bioanalyste
Plateforme ABiMS (Analyses and Bioinformatics for Marine Science)

Station Biologique de Roscoff - UPMC/CNRS - FR2424
Place Georges Teissier 29680 Roscoff FRANCE
tel: +33 2 98 29 23 81
http://abims.sb-roscoff.fr
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