MEGAN - how the heck?

[kga1978]

Hey All,

For hours I have been trying to export the taxa chart from MEGAN (command line). Specifically, I wan't it to save this image:



But instead, every time I get the main window:



I have tried pretty much everything I terms of commands - including:

open file='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_new6.rma'; update; select nodes=leaves; update; show chart=taxa; update; exportimage file='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_7.png' replace=true format=png;

open file='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_new6.rma'; select nodes=leaves; update; show chart=taxa; update; exportimage file='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_7.png' replace=true format=png;

load gi2taxfile='/idi/sabetilab/kandersen/bin/megan/class/resources/files/gi_taxid_nucl.bin'; import blastfile='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193.blastn.txt' fastafile='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_contigs.fasta' meganfile='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_new6.rma' useseed=false usekegg=false; update; select nodes=leaves; show chart=taxa; update; exportimage file='/idi/sabetilab/kandersen/analysis/120104-meta_test/megan/G193_5.svg' replace=true format=svg;

However, nothing works! Every time the program prints the main window. I know you are supposed to be able to 'set context=', but this only appears to be working with SEED and KEEG. I have tried to throw in the 'update;' in various places, but that also doesn't appear to be doing anything. I love MEGAN, but boy, is the documentation sketchy at times!

Any thoughts on how I can get MEGAN to output my taxa charts?

Thanks so much

[colindaven]

If you only need 300dpi, then
-maximise
-take screenshot
-load in gimp
-trim
-stretch with interpolation (amazingly, this seems to work well)
-readjust print size
-save as tif etc