Hi Evan... On Wed, 2009-09-23 at 21:35 -0400, Snitkin, Evan (NIH/NHGRI) [F] wrote: > Hello, > > I am trying to use the contig mover from the command line, but come across > the problem that it tries to call progressiveMauve with a path relative to > where I am running the program from. > > In other words it calls: > > <CURRENT DIRECTORY>/Mauve.app/Contents/MacOS/progressiveMauve > > Is there a way around this problem, or is it hard coded into the software?
This behavior was hard-coded for Mac OS X. On Linux, the command-line reorder tool will check all directories listed in the PATH environment variable, usually /bin, /usr/bin, and a few others. I have just committed a change to Mauve that will allow OS X to also search PATH for progressiveMauve if it fails to find the program in ./Mauve.app/Contents/MacOS That change will appear in tomorrow's aligner snapshot, available from: http://gel.ahabs.wisc.edu/mauve/snapshots/ Using the new OS X snapshot it should be possible to have the reorder tool run progressiveMauve from /usr/bin or any other directory in the PATH environment variable. Note that you'll need to copy the binary to such a directory, or add the Mauve.app/Contents/MacOS directory to your PATH. > Thanks for the help and a fantastic piece of software! > You're welcome! -Aaron ------------------------------------------------------------------------------ Come build with us! The BlackBerry® Developer Conference in SF, CA is the only developer event you need to attend this year. Jumpstart your developing skills, take BlackBerry mobile applications to market and stay ahead of the curve. Join us from November 9-12, 2009. Register now! http://p.sf.net/sfu/devconf _______________________________________________ Mauve-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/mauve-users
