a b/TcellAnalysis/DEscripts/submit_DE.sh 

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#! /usr/bin/bash





  
  

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## submit the DE testing to the cluster





  
  

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## Run mylo on a subset of the data





  
  

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BASE_DIR="/hps/research/sds/sds-marioni-cov/DifferentialExpression"





  
  

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SRC=$(echo $BASE_DIR"/src")





  
  

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OUTLOG=$(eval 'echo "$BASE_DIR"/logs/Tcell_DE_testing.out')





  
  

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ERROR=$(eval 'echo "$BASE_DIR"/logs/Tcell_DE_testing.err')





  
  

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module load singularity/3.5.0;





  
  

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cd $SRC





  
  

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JOB="bsub -q research-rh74 -M 160000 -R "rusage[mem=40000]" -J Tcell_DE_testing -n 1 -T 1500 -o $OUTLOG -e $ERROR singularity exec  -B /hps/research/sds/sds-marioni-cov /hps/research/sds/sds-marioni-cov/singularity/CovidPBMC.sif Rscript $SRC/Compute_CellType_DE_Trend.R"





  
  

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echo $JOB





  
  

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eval $JOB





  
  

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