Open conJUSTover opened 4 years ago
Compile.log My apologies, here is the correct DEBUG log file
Hello,
Thank you for your patience! It looks like this might not be a bug in the compile
routine, but an error in our test data! We recently made some modifications to the routine such that the compile
routine expects a substitutions file that has four columns:
Additionally, you might have a slightly old version of BAD_Mutations - if you run git pull
then git checkout dev
from inside of the directory where you cloned it, you should get the latest routines. I will update the test dataset and let you know when it is correct, though! Thank you!
Perfect, thanks so much!
Hello,
Thank you for your patience! I updated the test data in the package with some snippets of a recently processed barley data set. The changes are in the dev
branch, and they should include the necessary input files to start a BAD_Mutations
run and some sample files that should work with the compile
command.
Hello Justin,
When I execute the compile command, I got the same log file (compile.txt), and there is no result output. This is the command I am using:
./BAD_Mutations.py -v DEBUG compile -S Test_Data/XXXX.subs -P Predictions_Dir 2> Compile.log
And I've attached the resulting DEBUG report.
What changes did you make at that time to get the correct result file.
I hope you can give me your advice. Thank you very much.
Hello, thanks for writing this great program! I have downloaded the newest code and working through the test data provided. Everything has worked well, until I got to the compile function. This is the command I am using:
./BAD_Mutations.py -v DEBUG compile -P Predictions_Dir -S Test_Data/CBF3.subs 2> Compile.log
And I've attached the resulting DEBUG report. Compile.txt
I'm not sure what the source of this error is, but is -S command is not described in the manual, so I'm not sure if I'm using this correctly. The help page says it should be in the same format as the -s substitutions file, so I just used that file.
Thanks for looking into this! Hopefully it's a quick, easy fix.