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the wavetrain output files directory, and gives details of the data files that will be
present in the various output subdirectories after runs of wavetrain commands. The information on output files applies to cases in which runs have been successful and periodic
travelling waves have been detected: for instance, if a run of ptw does not find a periodic
travelling wave, then clearly the data files associated with periodic travelling wave form
will not be present.
4.4.1
The Directory Structure of WAVETRAIN Output
Output data falls into two basic categories: (i) data that is associated with control
parameter–wave speed planes; (ii) data this is not associated with control parameter–
wave speed planes. Output in category (i) is all associated with a particular pcode value
(101–999), and it is stored in the directory output files/pcode<code number>. Within
such a directory, there are a small number of data files, which are copies of the input files
as they were when the directory was created. The remainder of the data is stored in a
series of subdirectories:
output files/pcode<code number>/ccode<code number>
contains data on calculations of the contour of constant wave period with the specified code number.
output files/pcode<code number>/fcode<code number>
contains data on calculations of the fold locus associated with the specified code
number.
output files/pcode<code number>/hcode<code number>
contains data on calculations of the Hopf bifurcation locus associated with the specified code number.
output files/pcode<code number>/rcode<code number>
contains data on calculations of periodic travelling wave existence, form and possibly
stability. Note that rcode numbers are four digits (1001-9999) while all other code
numbers in wavetrain are three digits.
output files/pcode<code number>/scode<code number>
contains data on calculations of the stability boundary with the specified code number.
Details of the files in these various subdirectories are given in the following subsections.
Data in category (ii) is all stored in the directory output files/pcode100. Note
that 100 is not a valid pcode value for a parameter plane run (which must have a pcode
between 101 and 999); the directory name pcode100 is simply chosen for compatibility.
There are no files directly in the pcode100 directory: all files are in subdirectories, which
are of three possible types:
output files/pcode100/bcode<code number>
contains data on calculations associated with bifurcation diagrams with the specified
code number.
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