Working directory

A working subdirectory (folder) to hold all input and output files is a convenient way to organize your work. We suggest using a different subdirectory (folder) for each data set. In the UNIX world, you can simply change into the working directory and run the programs. In the Macintosh and MS-Windows environs, you need to run the programs from where they reside and specify where the working directory is. Use the -W command line option to specify a working directory, or set it in the interactive menu. Be sure to follow the conventions of the particular operating system that you are working on. For UNIX, you might specify it as

 -W /home/myaccount/qtlcart/workdir

While for MS-Windows it might look like

 -W C:\qtlcart\workdir

And on a Macintosh, assuming that your Hard drive is called ``MacintoshHD'',

 -W MacintoshHD:qtlcart:workdir

The programs will automatically add a file separator to the end of the path if you don't put it in. Thus

 -W MacintoshHD:qtlcart:workdir:

is equivalent to the first incarnation of the Macintosh work directory. The Macintosh file separator ``:'' is equivalent to the DOS ``$\backslash$'' and the UNIX ``/''.

Table 1.4: Command Line Options for all programs

Option	Default	Explanation
-e	qtlcart.log	Error and Log File
-s	795793333	Random Number Seed
-h	(off)	Show help and exit
-R	qtlcart.rc	Resource File
-W	(none)	Working Directory
-A	(off)	Automatic mode
-X	qtlcart	Filename Stem
-V	(on)	Verbosity

You may also use relative pathnames for the working subdirectory. In the UNIX and Windows environments, a single period (.) means from here and a pair of periods (..) indicates one higher directory level. Thus,

 -W ..\workdir

would indicate go up one level from the binary subdirectory, where you will find a workdir subdirectory. In UNIX it might look like

 -W ../workdir

For the Macintosh you use extra colons: If the binaries are in the bin.ppc folder inside the qtlcart folder, then

 -W ::workdir:

would indicate that there is a folder called workdir in the qtlcart, whereas

 -W :workdir:

would indicate that the workdir folder is inside the bin.ppc folder.