andrew davis

Just FYI I changed: line 133 output.flush(); -> output.close(); The file was closing before it was done writing.

Thanks John! That helped. I had to run: jar cf Mauve-2.jar ext images org

Thanks John for the quick reponse. I tried doing a fresh build in a docker container, following the build instructions (http://darlinglab.org/mauve/developer-guide/building.html) ran into a Makefile error: Makefile:761: recipe for target 'Aligner.lo' failed make[1]: [Aligner.lo] Error 1 make[1]: Leaving directory '/root/build/libMems/libMems' Makefile:546: recipe for target 'install-recursive' failed make: [install-recursive] Error 1 compiled SnpExporter.java into org/gel/mauve/analysis/ and re-created...

Snp file from a command line