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Update wrapper_submit.sh

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Godwin Ani 2025-03-17 18:33:48 -04:00 committed by GitHub
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PTL1/Transcriptomes/Scripts/wrapper_submit.sh
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@ -11,5 +11,17 @@
## Example commands ## Example commands
# A simple run that goes from script 1 to script 7 (the last script) using the Universal genetic code # A simple run that goes from script 1 to script 7 (the last script) using the Universal genetic code
python3 Scripts/wrapper.py --first_script 1 --last_script 7 --assembled_transcripts AssembledTranscripts --genetic_code Gcode.txt --databases Databases > log.out
parent='/EukPhylo/PTL1/Transcriptomes/'
out_dir='/Output_data'
in_dir='/Input_data'
## EXAMPLE RUN COMMANDS BELOW
# A simple run of part 2, starting from ReadyToGo files and running through tree building
python3 ${parent}/Scripts/wrapper.py \
--first_script 1 \
--last_script 7 \
--assembled_transcripts ${in_dir} \
--databases ${parent}Databases \
--output ${out_dir} > Output.out