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metageni / SUPER-FOCUS

A tool for agile functional analysis of shotgun metagenomic data
GNU General Public License v3.0
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Plotting code underscores #2

Closed zkstewart closed 5 years ago

zkstewart commented 7 years ago

Hi,

I ran into an issue when trying to run the R scripts. At the data processing stage, the script looks for files with a pattern that differs to the output SUPER-FOCUS provided me. On this line

list.files(opt$sf_dir, pattern="_____results__all_levels_and_function.xls")[[1]]

there appears to be too many underscores at the front, as the output files I obtained only have two underscores after the project name. From reading through the superfocus.py file, it looks like if you run a single reads file your output will have two underscores, but if you run a directory with multiple reads files then an extra 3 get added during the "for target in targets" loop.

Thanks, Zac.

metageni commented 5 years ago

Sorry. SUPER-FOCUS does not support the scripts for plotting anymore