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ruggleslab / jukebox

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Conversion script #2

Closed rachelmugge closed 5 years ago

rachelmugge commented 5 years ago

Hello, I am trying to use the humann_2_wham_edit.py script to convert my gene table to the WHAM input format. I have used the humann_renorm_table script to convert from RPKs to CPM, and I have also removed the decimal values from the input table. The conversion script runs, but the output is simply the first row of my input file. I am not sure if this is an error on my end, or something in the conversion script. Thanks in advance!

RM_MG_renormed_table_cpm.txt wham_output.txt

rachelmugge commented 5 years ago

Nevermind! There was a syntax error in the input file. Conversion and upload to WHAM was successful!

kruggles7 commented 5 years ago

Great, glad you were able to resolve it!

AnnaFos commented 5 years ago

Hello! I am having exactly the same problem but I cannot figure out if I have a syntax error - how did you eventually solve it? Many thanks!