simulations/Makefile

   1
   2 SHELL=bash
   3
   4 Ns=[1000, 2000, 4000, 8000]
   5 ms=[100, 200, 400, 800]
   6 seeds=[$(shell seq -s, 1 100)]
   7 explained_variances=[0.1]
   8
   9 all:remembr.RDS
  10
  11 srun=srun -A comdata -p compute-bigmem --time=6:00:00 --mem 4G -c 1
  12
  13
  14 joblists:example_1_jobs example_2_jobs example_3_jobs
  15
  16 # test_true_z_jobs: test_true_z.R simulation_base.R
  17 #       grid_sweep.py --command "Rscript test_true_z.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["test_true_z.feather"], "y_explained_variancevari":${explained_variances}, "Bzx":${Bzx}}' --outfile test_true_z_jobsb
  18
  19 # test_true_z.feather: test_true_z_jobs
  20 #       rm -f test_true_z.feather
  21 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 test_true_z_jobs
  22 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 test_true_z_jobs
  23
  24
  25 example_1_jobs: 01_two_covariates.R simulation_base.R
  26         grid_sweep.py --command "Rscript 01_two_covariates.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_1.feather"], "y_explained_variance":${explained_variances}, "Bzx":[0.1]}' --outfile example_1_jobs
  27
  28 example_1.feather: example_1_jobs
  29         rm -f example_1.feather
  30         sbatch --wait --verbose --array=1-$(shell cat example_1_jobs | wc -l) run_simulation.sbatch 0 example_1_jobs
  31 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_1_jobs
  32
  33 example_2_jobs: 02_indep_differential.R simulation_base.R
  34         grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y*z*x"], "truth_formula":["x~z"]}' --outfile example_2_jobs
  35
  36 example_2.feather: example_2_jobs
  37         rm -f example_2.feather
  38         sbatch --wait --verbose --array=1-$(shell cat example_2_jobs | wc -l) run_simulation.sbatch 0 example_2_jobs
  39 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_jobs
  40
  41 # example_2_B_jobs: example_2_B.R
  42 #       grid_sweep.py --command "Rscript example_2_B.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B.feather"]}' --outfile example_2_B_jobs
  43
  44 # example_2_B.feather: example_2_B_jobs
  45 #       rm -f example_2_B.feather
  46 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_jobs
  47
  48 example_3_jobs: 03_depvar.R simulation_base.R
  49         grid_sweep.py --command "Rscript 03_depvar.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_3.feather"], "y_explained_variance":${explained_variances}}' --outfile example_3_jobs
  50
  51 example_3.feather: example_3_jobs
  52         rm -f example_3.feather
  53         sbatch --wait --verbose --array=1-$(shell cat example_3_jobs | wc -l)  run_simulation.sbatch 0 example_3_jobs
  54
  55 example_4_jobs: 04_depvar_differential.R simulation_base.R
  56         grid_sweep.py --command "Rscript 04_depvar_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "y_explained_variance":${explained_variances}}' --outfile example_4_jobs
  57
  58 example_4.feather: example_4_jobs
  59         rm -f example_4.feather
  60         sbatch --wait --verbose --array=1-$(shell cat example_4_jobs | wc -l)  run_simulation.sbatch 0 example_4_jobs
  61
  62 remembr.RDS:example_1.feather example_2.feather example_3.feather example_4.feather plot_example.R plot_dv_example.R
  63         rm -f remembr.RDS
  64         ${srun} Rscript plot_example.R --infile example_1.feather --name "plot.df.example.1"
  65         ${srun} Rscript plot_example.R --infile example_2.feather --name "plot.df.example.2"
  66         ${srun} Rscript plot_dv_example.R --infile example_3.feather --name "plot.df.example.3"
  67         ${srun} Rscript plot_dv_example.R --infile example_4.feather --name "plot.df.example.4"
  68
  69 clean:
  70         rm *.feather
  71         rm -f remembr.RDS
  72         rm -f example_*_jobs
  73 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_jobs
  74
  75 # example_2_B_mecor_jobs:
  76 #       grid_sweep.py --command "Rscript example_2_B_mecor.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B_mecor.feather"]}' --outfile example_2_B_mecor_jobs
  77
  78 # example_2_B_mecor.feather:example_2_B_mecor.R example_2_B_mecor_jobs
  79 #       rm -f example_2_B_mecor.feather
  80 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_mecor_jobs
  81 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_mecor_jobs
  82
  83
  84