I’m using the following command to generate a comparison file from two RMA6 MEGAN files (I’m using the MEGAN 6 Ultimate Edition’s command-line in a mac):
$ /Applications/MEGAN_Ultimate-Edition/MEGAN.app/Contents/MacOS/JavaApplicationStub -g -E < CompareSamples.txt
where CompareSamples.txt contains the following commands:
compare mode=RELATIVE meganfile=’/path/to/file1.rma6’ ‘/path/to/file2.rma6’;
Now, my question is whether there’s a more elegant/optimum way to specify a large number of file names in the “compare” command, specifically in the “meganfile=…” parameter. I have 115 samples that I would like to compare. I could add all 115 sample names individually to my CompareSamples.txt file but I’m wondering if there’s a more optimum way to pass all sample names to my command file? Perhaps something like reading a list from a file or opening all RMA6 files in a specific directory. Not sure if MEGAN command line supports this kind of interactions?
Any thoughts or suggestions would be much appreciated!
Thank you very much