simulations/Makefile

   1 .ONESHELL:
   2 SHELL=bash
   3
   4 Ns=[1000, 5000, 10000]
   5 ms=[100, 200, 400]
   6 seeds=[$(shell seq -s, 1 500)]
   7 explained_variances=[0.1]
   8
   9 all:main supplement
  10 main:remembr.RDS
  11 supplement:robustness_1.RDS robustness_1_dv.RDS robustness_2.RDS robustness_2_dv.RDS robustness_3.RDS robustness_3_dv.RDS robustness_3_proflik.RDS robustness_3_dv_proflik.RDS robustness_4.RDS robustness_4_dv.RDS robustness_5.RDS robustness_5_dv.RDS robustness_6.feather
  12
  13 srun=sbatch --wait --verbose run_job.sbatch
  14
  15
  16 joblists:example_1_jobs example_2_jobs example_3_jobs
  17
  18 # test_true_z_jobs: test_true_z.R simulation_base.R
  19 #       sbatch --wait --verbose run_job.sbatch  ./grid_sweep.py --command "Rscript test_true_z.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["test_true_z.feather"], "y_explained_variancevari":${explained_variances}, "Bzx":${Bzx}}' --outfile test_true_z_jobsb
  20
  21 # test_true_z.feather: test_true_z_jobs
  22 #       rm -f test_true_z.feather
  23 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 test_true_z_jobs
  24 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 test_true_z_jobs
  25
  26
  27 example_1_jobs: 01_two_covariates.R simulation_base.R grid_sweep.py pl_methods.R
  28         ${srun} ./grid_sweep.py --command "Rscript 01_two_covariates.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_1.feather"], "y_explained_variance":${explained_variances}, "Bzx":[1]}' --outfile example_1_jobs
  29
  30 example_1.feather: example_1_jobs
  31         rm -f example_1.feather
  32         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_1_jobs
  33         sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_1_jobs
  34         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_1_jobs
  35         sbatch --wait --verbose --array=3001-$(shell cat example_1_jobs | wc -l) run_simulation.sbatch 0 example_1_jobs
  36
  37 example_2_jobs: 02_indep_differential.R simulation_base.R grid_sweep.py pl_methods.R
  38         sbatch --wait --verbose run_job.sbatch ./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":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+z+x"]}' --outfile example_2_jobs
  39
  40 example_2.feather: example_2_jobs
  41         rm -f example_2.feather
  42         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_2_jobs
  43         sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_2_jobs
  44         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_2_jobs
  45         sbatch --wait --verbose --array=3001-$(shell cat example_2_jobs | wc -l) run_simulation.sbatch 0 example_2_jobs
  46
  47
  48
  49 # example_2_B_jobs: example_2_B.R
  50 #       sbatch --wait --verbose run_job.sbatch python3 ./grid_sweep.py --command "Rscript example_2_B.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B.feather"]}' --outfile example_2_B_jobs
  51
  52 # example_2_B.feather: example_2_B_jobs
  53 #       rm -f example_2_B.feather
  54 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_jobs
  55
  56 example_3_jobs: 03_depvar.R simulation_base.R grid_sweep.py pl_methods.R
  57         sbatch --wait --verbose run_job.sbatch ./grid_sweep.py --command "Rscript 03_depvar.R" --arg_dict '{"N":${Ns},"m":${ms}, "Bxy":[0.7],"Bzy":[-0.7],"Bzx":[1],"seed":${seeds}, "outfile":["example_3.feather"], "y_explained_variance":${explained_variances}}' --outfile example_3_jobs
  58
  59 example_3.feather: example_3_jobs
  60         rm -f example_3.feather
  61         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_3_jobs
  62         sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_3_jobs
  63          sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_3_jobs
  64         sbatch --wait --verbose --array=3001-$(shell cat example_3_jobs | wc -l) run_simulation.sbatch 0 example_3_jobs
  65
  66 example_4_jobs: 04_depvar_differential.R simulation_base.R grid_sweep.py pl_methods.R
  67         sbatch --wait --verbose run_job.sbatch ./grid_sweep.py --command "Rscript 04_depvar_differential.R" --arg_dict '{"N":${Ns},"Bxy":[0.7],"Bzy":[-0.7],"Bzx":[1], "m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "z_bias":[-0.5], "prediction_accuracy":[0.73]}' --outfile example_4_jobs
  68
  69 example_4.feather: example_4_jobs
  70         rm -f example_4.feather
  71         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_4_jobs
  72         sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 0 example_4_jobs
  73         sbatch --wait --verbose --array=2001-3001 run_simulation.sbatch 0 example_4_jobs
  74         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_4_jobs
  75         sbatch --wait --verbose --array=3001-$(shell cat example_4_jobs | wc -l)  run_simulation.sbatch 0 example_4_jobs
  76
  77
  78 remembr.RDS:example_1.feather example_2.feather example_3.feather example_4.feather plot_example.R plot_dv_example.R summarize_estimator.R
  79         rm -f remembr.RDS
  80         ${srun} Rscript plot_example.R --infile example_1.feather --name "plot.df.example.1"
  81         ${srun} Rscript plot_example.R --infile example_2.feather --name "plot.df.example.2"
  82         ${srun} Rscript plot_dv_example.R --infile example_3.feather --name "plot.df.example.3"
  83         ${srun} Rscript plot_dv_example.R --infile example_4.feather --name "plot.df.example.4"
  84
  85
  86 START=0
  87 STEP=1000
  88 ONE=1
  89
  90 robustness_Ns=[1000,5000]
  91 robustness_ms=[100,200]
  92
  93 #in robustness 1 / example 2 misclassification is correlated with Y.
  94 robustness_1_jobs_p1: 02_indep_differential.R simulation_base.R grid_sweep.py
  95         sbatch --wait --verbose run_job.sbatch ./grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":[1000],"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_1.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3,0],"Bxy":[0.3],"Bzx":[1,0], "outcome_formula":["y~x+z"], "z_bias":[0, 0.5], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~1"]}' --outfile robustness_1_jobs_p1
  96
  97 robustness_1_jobs_p2: 02_indep_differential.R simulation_base.R grid_sweep.py
  98         sbatch --wait --verbose run_job.sbatch ./grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":[5000],"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_1.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3,0],"Bxy":[0.3],"Bzx":[1,0], "outcome_formula":["y~x+z"], "z_bias":[0, 0.5], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~1"]}' --outfile robustness_1_jobs_p2
  99
 100 robustness_1.feather: robustness_1_jobs_p1 robustness_1_jobs_p2
 101         rm -f $@
 102         $(eval END_1!=cat robustness_1_jobs_p1 | wc -l)
 103         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 104         $(eval END_2!=cat robustness_1_jobs_p2 | wc -l)
 105         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 106         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_jobs_p1;)
 107         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_jobs_p2;)
 108
 109 robustness_1.RDS: robustness_1.feather summarize_estimator.R
 110         rm -f robustness_1.RDS
 111         ${srun} Rscript plot_example.R --infile $< --name "robustness_1" --remember-file $@
 112
 113 # when Bzy is 0 and zbias is not zero, we have the case where P(W|Y,X,Z) has an omitted variable that is conditionanlly independent from Y.  Note that X and Z are independent in this scenario.
 114 robustness_1_dv_jobs_p1: simulation_base.R 04_depvar_differential.R grid_sweep.py
 115         ${srun} ./grid_sweep.py --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":[1000],"Bzx":[1], "Bxy":[0.7,0],"Bzy":[-0.7,0],"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_1_dv.feather"], "proxy_formula":["w_pred~y"],"z_bias":[-0.5]}' --outfile robustness_1_dv_jobs_p1
 116
 117 robustness_1_dv_jobs_p2: simulation_base.R 04_depvar_differential.R grid_sweep.py
 118         ${srun} ./grid_sweep.py --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":[5000],"Bzx":[1], "Bxy":[0.7,0],"Bzy":[-0.7,0],"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_1_dv.feather"], "proxy_formula":["w_pred~y"],"z_bias":[-0.5]}' --outfile robustness_1_dv_jobs_p2
 119
 120 robustness_1_dv.feather: robustness_1_dv_jobs_p1 robustness_1_dv_jobs_p2
 121         rm -f $@
 122         $(eval END_1!=cat robustness_1_dv_jobs_p1 | wc -l)
 123         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 124         $(eval END_2!=cat robustness_1_dv_jobs_p2 | wc -l)
 125         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_1))
 126         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_dv_jobs_p1;)
 127         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_dv_jobs_p2;)
 128
 129 robustness_1_dv.RDS: robustness_1_dv.feather summarize_estimator.R
 130         rm -f $@
 131         ${srun} Rscript plot_dv_example.R --infile $< --name "robustness_1_dv" --remember-file $@
 132
 133
 134 robustness_2_jobs_p1: grid_sweep.py 01_two_covariates.R simulation_base.R
 135         rm -f $@
 136         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.60,0.65]}' --outfile $@
 137
 138 robustness_2_jobs_p2: grid_sweep.py 01_two_covariates.R simulation_base.R
 139         rm -f $@
 140         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.70,0.75]}' --outfile $@
 141
 142 robustness_2_jobs_p3: grid_sweep.py 01_two_covariates.R simulation_base.R
 143         rm -f $@
 144         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.80,0.85]}' --outfile $@
 145
 146 robustness_2_jobs_p4: grid_sweep.py 01_two_covariates.R simulation_base.R
 147         rm -f $@
 148         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.90,0.95]}' --outfile $@
 149
 150 robustness_2.feather: robustness_2_jobs_p1 robustness_2_jobs_p2 robustness_2_jobs_p3 robustness_2_jobs_p4
 151         rm $@
 152         $(eval END_1!=cat robustness_2_jobs_p1 | wc -l)
 153         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 154         $(eval END_2!=cat robustness_2_jobs_p2 | wc -l)
 155         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 156         $(eval END_3!=cat robustness_2_jobs_p3 | wc -l)
 157         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 158         $(eval END_4!=cat robustness_2_jobs_p4 | wc -l)
 159         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 160
 161         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p1;)
 162         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p2;)
 163         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p3;)
 164         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p4;)
 165
 166 robustness_2.RDS: plot_example.R robustness_2.feather summarize_estimator.R
 167         rm -f $@
 168         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_2" --remember-file $@
 169
 170 robustness_2_dv_jobs_p1: grid_sweep.py 03_depvar.R simulation_base.R
 171         rm -f $@
 172         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.60,0.65]}' --outfile $@
 173
 174 robustness_2_dv_jobs_p2: grid_sweep.py 03_depvar.R simulation_base.R
 175         rm -f $@
 176         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.70,0.75]}' --outfile $@
 177
 178 robustness_2_dv_jobs_p3: grid_sweep.py 03_depvar.R simulation_base.R
 179         rm -f $@
 180         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.80,0.85]}' --outfile $@
 181
 182 robustness_2_dv_jobs_p4: grid_sweep.py 03_depvar.R simulation_base.R
 183         rm -f $@
 184         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.90,0.95]}' --outfile $@
 185
 186 robustness_2_dv.feather: robustness_2_dv_jobs_p1 robustness_2_dv_jobs_p2 robustness_2_dv_jobs_p3 robustness_2_dv_jobs_p4
 187         rm -f $@
 188         $(eval END_1!=cat robustness_2_dv_jobs_p1 | wc -l)
 189         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 190         $(eval END_2!=cat robustness_2_dv_jobs_p2 | wc -l)
 191         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 192         $(eval END_3!=cat robustness_2_dv_jobs_p3 | wc -l)
 193         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 194         $(eval END_4!=cat robustness_2_dv_jobs_p4 | wc -l)
 195         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 196
 197         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p1;)
 198         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p2;)
 199         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p3;)
 200         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p4;)
 201
 202 robustness_2_dv.RDS: plot_dv_example.R robustness_2_dv.feather summarize_estimator.R
 203         rm -f $@
 204         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_2_dv" --remember-file $@
 205
 206
 207 robustness_3_proflik_jobs: grid_sweep.py 01_two_covariates.R simulation_base.R
 208         rm -f $@
 209         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":[1000],"m":[100], "seed":${seeds}, "outfile":["robustness_3_proflik.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"Px":[0.5,0.6,0.7,0.8,0.9,0.95], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85], "confint_method":['spline']}' --outfile $@
 210
 211 robustness_3_proflik.feather: robustness_3_proflik_jobs
 212         rm -f $@
 213         $(eval END_1!=cat robustness_3_proflik_jobs | wc -l)
 214         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 215         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_proflik_jobs;)
 216
 217 robustness_3_proflik.RDS: plot_example.R robustness_3_proflik.feather summarize_estimator.R
 218         rm -f $@
 219         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3_proflik" --remember-file $@
 220
 221
 222 robustness_3_jobs_p1: grid_sweep.py 01_two_covariates.R simulation_base.R
 223         rm -f $@
 224         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"Px":[0.5,0.6], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85]}' --outfile $@
 225
 226 robustness_3_jobs_p2: grid_sweep.py 01_two_covariates.R simulation_base.R
 227         rm -f $@
 228         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"Px":[0.7,0.8], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85]}' --outfile $@
 229
 230 robustness_3_jobs_p3: grid_sweep.py 01_two_covariates.R simulation_base.R
 231         rm -f $@
 232         ${srun} ./$< --command 'Rscript 01_two_covariates.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"Px":[0.9,0.95], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85]}' --outfile $@
 233
 234 robustness_3.feather: robustness_3_jobs_p1 robustness_3_jobs_p2 robustness_3_jobs_p3
 235         rm -f $@
 236         $(eval END_1!=cat robustness_3_jobs_p1 | wc -l)
 237         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 238         $(eval END_2!=cat robustness_3_jobs_p2 | wc -l)
 239         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 240         $(eval END_3!=cat robustness_3_jobs_p3 | wc -l)
 241         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 242
 243         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p1;)
 244         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p2;)
 245         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p3;)
 246
 247 robustness_3.RDS: plot_example.R robustness_3.feather summarize_estimator.R
 248         rm -f $@
 249         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3" --remember-file $@
 250
 251 robustness_3_dv_proflik_jobs: grid_sweep.py 03_depvar.R simulation_base.R
 252         rm -f $@
 253         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":[1000],"m":[100], "seed":${seeds}, "outfile":["robustness_3_dv_proflik.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"B0":[0,0.405,0.846,1.386,2.197,2.944], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85],"confint_method":['spline']}' --outfile $@
 254
 255 robustness_3_dv_proflik.feather: robustness_3_dv_proflik_jobs
 256         rm -f $@
 257         $(eval END_1!=cat robustness_3_dv_proflik_jobs | wc -l)
 258         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 259         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_proflik_jobs;)
 260
 261 robustness_3_dv_proflik.RDS: plot_dv_example.R robustness_3_dv_proflik.feather summarize_estimator.R
 262         rm -f $@
 263         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3_dv_proflik" --remember-file $@
 264
 265
 266  robustness_3_dv_jobs_p1: grid_sweep.py 03_depvar.R simulation_base.R
 267         rm -f $@
 268         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"B0":[0,0.405], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
 269
 270 robustness_3_dv_jobs_p2: grid_sweep.py 03_depvar.R simulation_base.R
 271         rm -f $@
 272         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1],"B0":[0.847,1.386], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
 273
 274
 275 robustness_3_dv_jobs_p3: grid_sweep.py 03_depvar.R simulation_base.R
 276         rm -f $@
 277         ${srun} ./$< --command 'Rscript 03_depvar.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "B0":[2.197,2.944], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
 278
 279 robustness_3_dv.feather: robustness_3_dv_jobs_p1 robustness_3_dv_jobs_p2 robustness_3_dv_jobs_p3
 280         rm -f $@
 281         $(eval END_1!=cat robustness_3_dv_jobs_p1 | wc -l)
 282         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 283         $(eval END_2!=cat robustness_3_dv_jobs_p2 | wc -l)
 284         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 285         $(eval END_3!=cat robustness_3_dv_jobs_p3 | wc -l)
 286         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 287
 288         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p1;)
 289         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p2;)
 290          $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p3;)
 291
 292
 293 robustness_3_dv.RDS: plot_dv_example.R robustness_3_dv.feather summarize_estimator.R
 294         rm -f $@
 295         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3_dv" --remember-file $@
 296
 297
 298
 299 robustness_4_jobs_p1: grid_sweep.py 02_indep_differential.R simulation_base.R
 300         rm -f $@
 301         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"], "y_bias":[-2.944,-2.197]}' --outfile $@
 302
 303 robustness_4_jobs_p2: grid_sweep.py 02_indep_differential.R simulation_base.R
 304         rm -f $@
 305         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"], "y_bias":[-1.386,-0.846]}' --outfile $@
 306
 307 robustness_4_jobs_p3: grid_sweep.py 02_indep_differential.R simulation_base.R
 308         rm -f ./$@
 309         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"], "y_bias":[-0.405,-0.25]}' --outfile $@
 310
 311 robustness_4_jobs_p4: grid_sweep.py 02_indep_differential.R simulation_base.R
 312         rm -f ./$@
 313         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"], "y_bias":[0,-0.1]}' --outfile $@
 314
 315
 316 robustness_4.feather: robustness_4_jobs_p1 robustness_4_jobs_p2 robustness_4_jobs_p3
 317         rm -f $@
 318         $(eval END_1!=cat robustness_4_jobs_p1 | wc -l)
 319         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 320         $(eval END_2!=cat robustness_4_jobs_p2 | wc -l)
 321         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 322         $(eval END_3!=cat robustness_4_jobs_p3 | wc -l)
 323         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 324         $(eval END_4!=cat robustness_4_jobs_p3 | wc -l)
 325         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_4))
 326
 327
 328         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p1;)
 329         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p2;)
 330         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p3;)
 331         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p3;)
 332
 333
 334 robustness_4.RDS: plot_example.R robustness_4.feather summarize_estimator.R
 335         rm -f $@
 336         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_4" --remember-file $@
 337
 338
 339 # '{"N":${robustness_Ns},"Bxy":[0.7],"Bzy":[-0.7],"m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "z_bias":[0.5]}' --example_4_jobs
 340
 341 robustness_4_dv_jobs_p1: grid_sweep.py 04_depvar_differential.R simulation_base.R
 342         rm -f $@
 343         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[1], "outcome_formula":["y~x+z"], "z_bias":[0,0.1]}' --outfile $@
 344
 345 robustness_4_dv_jobs_p2: grid_sweep.py 04_depvar_differential.R simulation_base.R
 346         rm -f $@
 347         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[1], "outcome_formula":["y~x+z"], "z_bias":[0.25,0.405]}' --outfile $@
 348
 349 robustness_4_dv_jobs_p3: grid_sweep.py 04_depvar_differential.R simulation_base.R
 350         rm -f $@
 351         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[1],"outcome_formula":["y~x+z"],"z_bias":[0.846,1.386]}' --outfile $@
 352
 353 robustness_4_dv_jobs_p4: grid_sweep.py 04_depvar_differential.R simulation_base.R
 354         rm -f $@
 355         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"],"Bzy":[-0.7],"Bxy":[0.7],"Bzx":[1], "outcome_formula":["y~x+z"], "z_bias":[2.197,2.944]}' --outfile $@
 356
 357 robustness_4_dv.feather: robustness_4_dv_jobs_p1 robustness_4_dv_jobs_p2 robustness_4_dv_jobs_p3 robustness_4_dv_jobs_p4
 358         rm -f $@
 359         $(eval END_1!=cat robustness_4_dv_jobs_p1 | wc -l)
 360         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 361         $(eval END_2!=cat robustness_4_dv_jobs_p2 | wc -l)
 362         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 363         $(eval END_3!=cat robustness_4_dv_jobs_p3 | wc -l)
 364         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 365         $(eval END_4!=cat robustness_4_dv_jobs_p4 | wc -l)
 366         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 367         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p1;)
 368         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p2;)
 369         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p3;)
 370         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p4;)
 371
 372
 373 robustness_4_dv.RDS: plot_dv_example.R robustness_4_dv.feather summarize_estimator.R
 374         rm -f $@
 375         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_4_dv" --remember-file $@
 376
 377
 378 robustness_5_jobs_p1: grid_sweep.py 02_indep_differential.R simulation_base.R
 379         rm -f $@
 380         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1.386,2.197], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"]}' --outfile $@
 381
 382 robustness_5_jobs_p2: grid_sweep.py 02_indep_differential.R simulation_base.R
 383         rm -f $@
 384         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.405,0.846], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"]}' --outfile $@
 385
 386 robustness_5_jobs_p3: grid_sweep.py 02_indep_differential.R simulation_base.R
 387         rm -f $@
 388         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0,0.25], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"]}' --outfile $@
 389
 390 robustness_5_jobs_p4: grid_sweep.py 02_indep_differential.R simulation_base.R
 391         rm -f $@
 392         ${srun} ./$< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[2.944], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"]}' --outfile $@
 393
 394
 395 robustness_5.feather: robustness_5_jobs_p1 robustness_5_jobs_p2 robustness_5_jobs_p3
 396         rm -f $@
 397         $(eval END_1!=cat robustness_5_jobs_p1 | wc -l)
 398         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 399         $(eval END_2!=cat robustness_5_jobs_p2 | wc -l)
 400         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 401         $(eval END_3!=cat robustness_5_jobs_p3 | wc -l)
 402         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 403         $(eval END_4!=cat robustness_5_jobs_p4 | wc -l)
 404         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 405
 406         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_jobs_p1;)
 407         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_jobs_p2;)
 408         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_jobs_p3;)
 409         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_jobs_p4;)
 410
 411 robustness_5.RDS: plot_example.R robustness_5.feather summarize_estimator.R
 412         rm -f $@
 413         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_5" --remember-file $@
 414
 415
 416 # '{"N":${robustness_Ns},"Bxy":[0.7],"Bzy":[-0.7],"m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "z_bias":[0.5]}' --example_4_jobs
 417
 418 robustness_5_dv_jobs_p1: grid_sweep.py 04_depvar_differential.R simulation_base.R
 419         rm -f $@
 420          ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[0,0.25], "outcome_formula":["y~x+z"], "z_bias":[-0.5]}' --outfile $@
 421
 422 robustness_5_dv_jobs_p2: grid_sweep.py 04_depvar_differential.R simulation_base.R
 423         rm -f $@
 424         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[0.405,0.846], "outcome_formula":["y~x+z"],  "z_bias":[-0.5]}' --outfile $@
 425
 426 robustness_5_dv_jobs_p3: grid_sweep.py 04_depvar_differential.R simulation_base.R
 427         rm -f $@
 428         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"Bzx":[1.386,2.197],"outcome_formula":["y~x+z"], "z_bias":[-0.5]}' --outfile $@
 429
 430 robustness_5_dv_jobs_p4: grid_sweep.py 04_depvar_differential.R simulation_base.R
 431         rm -f $@
 432         ${srun} ./$< --command 'Rscript 04_depvar_differential.R'  --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_5_dv.feather"],"Bzy":[-0.7],"Bxy":[0.7],"Bzx":[2.944], "outcome_formula":["y~x+z"], "z_bias":[-0.5]}' --outfile $@
 433
 434 robustness_5_dv.feather: robustness_5_dv_jobs_p1 robustness_5_dv_jobs_p2 robustness_5_dv_jobs_p3 robustness_5_dv_jobs_p4
 435         rm -f $@
 436         $(eval END_1!=cat robustness_5_dv_jobs_p1 | wc -l)
 437         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 438         $(eval END_2!=cat robustness_5_dv_jobs_p2 | wc -l)
 439         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 440         $(eval END_3!=cat robustness_5_dv_jobs_p3 | wc -l)
 441         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 442         $(eval END_4!=cat robustness_5_dv_jobs_p4 | wc -l)
 443         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 444
 445
 446         $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_dv_jobs_p1;)
 447         $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_dv_jobs_p2;)
 448         $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_dv_jobs_p3;)
 449         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_5_dv_jobs_p4;)
 450
 451
 452 robustness_5_dv.RDS: plot_dv_example.R robustness_5_dv.feather summarize_estimator.R
 453         rm -f $@
 454         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_5_dv" --remember-file $@
 455
 456
 457 clean_main:
 458         rm -f remembr.RDS
 459         rm -f example_1_jobs
 460         rm -f example_2_jobs
 461         rm -f example_3_jobs
 462         rm -f example_4_jobs
 463         rm -f example_1.feather
 464         rm -f example_2.feather
 465         rm -f example_3.feather
 466         rm -f example_4.feather
 467
 468
 469 #
 470 clean_all:
 471         rm *.feather
 472         rm -f remembr.RDS
 473         rm -f remembr*.RDS
 474         rm -f robustness*.RDS
 475         rm -f example_*_jobs
 476         rm -f robustness_*_jobs_*
 477 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_jobs
 478
 479 # example_2_B_mecor_jobs:
 480 #       sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript example_2_B_mecor.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B_mecor.feather"]}' --outfile example_2_B_mecor_jobs
 481
 482 # example_2_B_mecor.feather:example_2_B_mecor.R example_2_B_mecor_jobs
 483 #       rm -f example_2_B_mecor.feather
 484 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_mecor_jobs
 485 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_mecor_jobs
 486
 487 robustness_6_jobs_p1: grid_sweep.py 03_indep_differential_nonnorm.R simulation_base.R
 488         rm -f $@
 489         ${srun} ./$< --command 'Rscript 03_indep_differential_nonnorm.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_6.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"],"sd_y_mixin":[0,1,2.5]}' --outfile $@
 490
 491 robustness_6_jobs_p2: grid_sweep.py 03_indep_differential_nonnorm.R simulation_base.R
 492         rm -f $@
 493         ${srun} ./$< --command 'Rscript 03_indep_differential_nonnorm.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_6.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"],"sd_y_mixin":[5,10]}' --outfile $@
 494
 495 robustness_6_jobs_p3: grid_sweep.py 03_indep_differential_nonnorm.R simulation_base.R
 496         rm -f $@
 497         ${srun} ./$< --command 'Rscript 03_indep_differential_nonnorm.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_6.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"],"sd_y_mixin":[0,1,2.5],"y_bias":[0]}' --outfile $@
 498
 499 robustness_6_jobs_p4: grid_sweep.py 03_indep_differential_nonnorm.R simulation_base.R
 500         rm -f $@
 501         ${srun} ./$< --command 'Rscript 03_indep_differential_nonnorm.R' --arg_dict '{"N":${robustness_Ns},"m":${robustness_ms}, "seed":${seeds}, "outfile":["robustness_6.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y+x+z"], "truth_formula":["x~z"],"sd_y_mixin":[5,10],"y_bias":[0]}' --outfile $@
 502
 503
 504 robustness_6.feather: robustness_6_jobs_p1 robustness_6_jobs_p2 robustness_6_jobs_p3 robustness_6_jobs_p4
 505         rm -f $@
 506         $(eval END_1!=cat robustness_6_jobs_p1 | wc -l)
 507         $(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
 508         $(eval END_2!=cat robustness_6_jobs_p2 | wc -l)
 509         $(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
 510         $(eval END_3!=cat robustness_6_jobs_p3 | wc -l)
 511         $(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
 512         $(eval END_4!=cat robustness_6_jobs_p4 | wc -l)
 513         $(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
 514
 515
 516         # $(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_6_jobs_p1;)
 517         # $(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_6_jobs_p2;)
 518         # $(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_6_jobs_p3;)
 519         $(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_6_jobs_p4;)
 520
 521
 522 robustness_6.RDS: plot_example.R robustness_6.feather summarize_estimator.R
 523         rm -f $@
 524         ${srun} Rscript $< --infile $(word 2, $^) --name "robustness_6" --remember-file $@
 525
 526
 527 .PHONY: supplement