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PhyDyn Utilities
Igor Siveroni edited this page May 29, 2020
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pdutils is a set of utility programs designed to help users with the creation of PhyDyn population models and analyses. pdutils is provided as a jar file available from the /jars directory in the PhyDyn repository.
PhyDyn utilities can be accessed by running the jar file followed by a command name and suitable arguments:
> java -jar <pdutils-jar> <pdu-command> <pdu-arguments>
pdutils is work in progress. Available functionality is listed below.
phydynutils can be used to extract a PopModelODE object from a PhyDyn analysis file and generate the corresponding phydynR or Odin R model file.
The following commands are available:
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<pdu-command> ::= generate_phydynr
Generates a phydynR popmodel file from an xml containing the PhyDyn analysis.
Usage:
> java -jar <pdutils-jar> generate_phydynr <xml-file> <phydynr-file>
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<pdu-command> ::= generate_odin
Generates a odin R file from an xml containing the PhyDyn analysis.
Usage:
> java -jar generate_odin <xml-file> <odin-file>