Nathan TeBlunthuis
b8d2048cc5
Also fix a possible bug in the MI logic and simplify the error correction formula in example 2.
364 lines
24 KiB
Makefile
364 lines
24 KiB
Makefile
.ONESHELL:
|
|
SHELL=bash
|
|
|
|
Ns=[1000, 5000, 10000]
|
|
ms=[100, 200, 400]
|
|
seeds=[$(shell seq -s, 1 500)]
|
|
explained_variances=[0.1]
|
|
|
|
all:main supplement
|
|
main:remembr.RDS
|
|
supplement:robustness_1.RDS robustness_1_dv.RDS robustness_2.RDS robustness_2_dv.RDS robustness_3.RDS robustness_3_dv.RDS robustness_4.RDS robustness_4_dv.RDS
|
|
|
|
srun=sbatch --wait --verbose run_job.sbatch
|
|
|
|
|
|
joblists:example_1_jobs example_2_jobs example_3_jobs
|
|
|
|
# test_true_z_jobs: test_true_z.R simulation_base.R
|
|
# sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript test_true_z.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["test_true_z.feather"], "y_explained_variancevari":${explained_variances}, "Bzx":${Bzx}}' --outfile test_true_z_jobsb
|
|
|
|
# test_true_z.feather: test_true_z_jobs
|
|
# rm -f test_true_z.feather
|
|
# sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 test_true_z_jobs
|
|
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 test_true_z_jobs
|
|
|
|
|
|
example_1_jobs: 01_two_covariates.R simulation_base.R grid_sweep.py pl_methods.R
|
|
${srun} grid_sweep.py --command "Rscript 01_two_covariates.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_1.feather"], "y_explained_variance":${explained_variances}, "Bzx":[1]}' --outfile example_1_jobs
|
|
|
|
example_1.feather: example_1_jobs
|
|
rm -f example_1.feather
|
|
sbatch --wait --verbose --array=1-1000 run_simulation.sbatch 0 example_1_jobs
|
|
sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_1_jobs
|
|
sbatch --wait --verbose --array=2001-3000 run_simulation.sbatch 0 example_1_jobs
|
|
sbatch --wait --verbose --array=3001-4000 run_simulation.sbatch 0 example_1_jobs
|
|
sbatch --wait --verbose --array=4001-$(shell cat example_1_jobs | wc -l) run_simulation.sbatch 0 example_1_jobs
|
|
|
|
example_2_jobs: 02_indep_differential.R simulation_base.R grid_sweep.py pl_methods.R
|
|
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
|
|
|
|
example_2.feather: example_2_jobs
|
|
rm -f example_2.feather
|
|
sbatch --wait --verbose --array=1-1000 run_simulation.sbatch 0 example_2_jobs
|
|
sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_2_jobs
|
|
sbatch --wait --verbose --array=2001-3000 run_simulation.sbatch 0 example_2_jobs
|
|
sbatch --wait --verbose --array=3001-4000 run_simulation.sbatch 0 example_2_jobs
|
|
sbatch --wait --verbose --array=4001-$(shell cat example_2_jobs | wc -l) run_simulation.sbatch 0 example_2_jobs
|
|
|
|
|
|
# example_2_B_jobs: example_2_B.R
|
|
# sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript example_2_B.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B.feather"]}' --outfile example_2_B_jobs
|
|
|
|
# example_2_B.feather: example_2_B_jobs
|
|
# rm -f example_2_B.feather
|
|
# sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_jobs
|
|
|
|
example_3_jobs: 03_depvar.R simulation_base.R grid_sweep.py pl_methods.R
|
|
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],"seed":${seeds}, "outfile":["example_3.feather"], "y_explained_variance":${explained_variances}}' --outfile example_3_jobs
|
|
|
|
example_3.feather: example_3_jobs
|
|
rm -f example_3.feather
|
|
sbatch --wait --verbose --array=1-1000 run_simulation.sbatch 0 example_3_jobs
|
|
sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_3_jobs
|
|
sbatch --wait --verbose --array=2001-3000 run_simulation.sbatch 0 example_3_jobs
|
|
sbatch --wait --verbose --array=3001-4000 run_simulation.sbatch 0 example_3_jobs
|
|
sbatch --wait --verbose --array=4001-$(shell cat example_3_jobs | wc -l) run_simulation.sbatch 0 example_3_jobs
|
|
|
|
example_4_jobs: 04_depvar_differential.R simulation_base.R grid_sweep.py pl_methods.R
|
|
sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 04_depvar_differential.R" --arg_dict '{"N":${Ns},"Bxy":[0.7],"Bzy":[-0.7],"m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "z_bias":[0.3], "prediction_accuracy":[0.73]}' --outfile example_4_jobs
|
|
|
|
example_4.feather: example_4_jobs
|
|
rm -f example_4.feather
|
|
sbatch --wait --verbose --array=1-1000 run_simulation.sbatch 0 example_4_jobs
|
|
sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 example_4_jobs
|
|
sbatch --wait --verbose --array=2001-3000 run_simulation.sbatch 0 example_4_jobs
|
|
sbatch --wait --verbose --array=3001-4000 run_simulation.sbatch 0 example_4_jobs
|
|
sbatch --wait --verbose --array=4001-$(shell cat example_4_jobs | wc -l) run_simulation.sbatch 0 example_4_jobs
|
|
|
|
|
|
|
|
remembr.RDS:example_1.feather example_2.feather example_3.feather example_4.feather plot_example.R plot_dv_example.R summarize_estimator.R
|
|
rm -f remembr.RDS
|
|
${srun} Rscript plot_example.R --infile example_1.feather --name "plot.df.example.1"
|
|
${srun} Rscript plot_example.R --infile example_2.feather --name "plot.df.example.2"
|
|
${srun} Rscript plot_dv_example.R --infile example_3.feather --name "plot.df.example.3"
|
|
${srun} Rscript plot_dv_example.R --infile example_4.feather --name "plot.df.example.4"
|
|
|
|
|
|
robustness_1_jobs: 02_indep_differential.R simulation_base.R grid_sweep.py
|
|
sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_1.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+x"], "truth_formula":["x~1"]}' --outfile robustness_1_jobs
|
|
|
|
|
|
|
|
START=0
|
|
STEP=1000
|
|
ONE=1
|
|
|
|
robustness_1.feather: robustness_1_jobs
|
|
$(eval END_1!=cat robustness_1_jobs | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
rm -f robustness_1.feather
|
|
sbatch --wait --verbose --array=1-1000 run_simulation.sbatch 0 robustness_1_jobs
|
|
sbatch --wait --verbose --array=1001-2000 run_simulation.sbatch 0 robustness_1_jobs
|
|
sbatch --wait --verbose --array=2001-3000 run_simulation.sbatch 0 robustness_1_jobs
|
|
sbatch --wait --verbose --array=3001-4000 run_simulation.sbatch 0 robustness_1_jobs
|
|
sbatch --wait --verbose --array=4001-$(shell cat robustness_1_jobs | wc -l) run_simulation.sbatch 0 robustness_1_jobs
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_jobs;)
|
|
|
|
robustness_1.RDS: robustness_1.feather
|
|
rm -f robustness_1.RDS
|
|
${srun} Rscript plot_example.R --infile $< --name "robustness_1" --remember-file $@
|
|
|
|
robustness_1_dv_jobs: simulation_base.R 04_depvar_differential.R grid_sweep.py
|
|
${srun} grid_sweep.py --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":${Ns},"Bxy":[0.7],"Bzy":[-0.7],"m":${ms}, "seed":${seeds}, "outfile":["robustness_1_dv.feather"], "proxy_formula":["w_pred~y"],"z_bias":[0.5]}' --outfile robustness_1_dv_jobs
|
|
|
|
robustness_1_dv.feather: robustness_1_dv_jobs
|
|
rm -f robustness_1_dv.feather
|
|
$(eval END_1!=cat robustness_1_dv_jobs | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_1_dv_jobs;)
|
|
|
|
|
|
robustness_1_dv.RDS: robustness_1_dv.feather
|
|
rm -f $@
|
|
${srun} Rscript plot_dv_example.R --infile $< --name "robustness_1_dv" --remember-file $@
|
|
|
|
|
|
robustness_2_jobs_p1: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.60,0.65]}' --outfile $@
|
|
|
|
robustness_2_jobs_p2: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.70,0.75]}' --outfile $@
|
|
|
|
robustness_2_jobs_p3: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.80,0.85]}' --outfile $@
|
|
|
|
robustness_2_jobs_p4: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.90,0.95]}' --outfile $@
|
|
|
|
robustness_2.feather: robustness_2_jobs_p1 robustness_2_jobs_p2 robustness_2_jobs_p3 robustness_2_jobs_p4
|
|
$(eval END_1!=cat robustness_2_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_2_jobs_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_2_jobs_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
$(eval END_4!=cat robustness_2_jobs_p4 | wc -l)
|
|
$(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p3;)
|
|
$(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_jobs_p4;)
|
|
|
|
robustness_2.RDS: plot_example.R robustness_2.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_2" --remember-file $@
|
|
|
|
robustness_2_dv_jobs_p1: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.60,0.65]}' --outfile $@
|
|
|
|
robustness_2_dv_jobs_p2: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.70,0.75]}' --outfile $@
|
|
|
|
robustness_2_dv_jobs_p3: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.80,0.85]}' --outfile $@
|
|
|
|
robustness_2_dv_jobs_p4: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_2_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.90,0.95]}' --outfile $@
|
|
|
|
robustness_2_dv.feather: robustness_2_dv_jobs_p1 robustness_2_dv_jobs_p2 robustness_2_dv_jobs_p3 robustness_2_dv_jobs_p4
|
|
$(eval END_1!=cat robustness_2_dv_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_2_dv_jobs_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_2_dv_jobs_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
$(eval END_4!=cat robustness_2_dv_jobs_p4 | wc -l)
|
|
$(eval ITEMS_4!=seq $(START) $(STEP) $(END_4))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p3;)
|
|
$(foreach item,$(ITEMS_4),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_2_dv_jobs_p4;)
|
|
|
|
robustness_2_dv.RDS: plot_example.R robustness_2_dv.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_2_dv" --remember-file $@
|
|
|
|
|
|
robustness_3_jobs_p1: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3],"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 $@
|
|
|
|
robustness_3_jobs_p2: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3],"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 $@
|
|
|
|
robustness_3_jobs_p3: grid_sweep.py 01_two_covariates.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 01_two_covariates.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3],"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 $@
|
|
|
|
robustness_3.feather: robustness_3_jobs_p1 robustness_3_jobs_p2 robustness_3_jobs_p3
|
|
$(eval END_1!=cat robustness_3_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_3_jobs_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_3_jobs_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_jobs_p3;)
|
|
|
|
robustness_3.RDS: plot_example.R robustness_3.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3" --remember-file $@
|
|
|
|
robustness_3_dv_jobs_p1: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3],"B0":[0.5,0.6], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
|
|
|
|
|
|
|
|
robustness_3_dv_jobs_p2: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3],"B0":[0.7,0.8], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
|
|
|
|
|
|
robustness_3_dv_jobs_p3: grid_sweep.py 03_depvar.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 03_depvar.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_3_dv.feather"],"y_explained_variance":${explained_variances}, "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[0.3], "B0":[0.9,0.95], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85]}' --outfile $@
|
|
|
|
robustness_3_dv.feather: robustness_3_dv_jobs_p1 robustness_3_dv_jobs_p2 robustness_3_dv_jobs_p3
|
|
$(eval END_1!=cat robustness_3_dv_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_3_dv_jobs_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_3_dv_jobs_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_3_dv_jobs_p3;)
|
|
|
|
|
|
robustness_3_dv.RDS: plot_dv_example.R robustness_3_dv.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_3_dv" --remember-file $@
|
|
|
|
|
|
robustness_4_jobs_p1: grid_sweep.py 02_indep_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4.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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85],"y_bias":[-1,-0.85]}' --outfile $@
|
|
|
|
robustness_4_jobs_p2: grid_sweep.py 02_indep_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4.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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85], "y_bias":[-0.70,-0.55]}' --outfile $@
|
|
|
|
robustness_4_jobs_p3: grid_sweep.py 02_indep_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4.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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85],"y_bias":[-0.4,-0.25]}' --outfile $@
|
|
|
|
robustness_4_jobs_p4: grid_sweep.py 02_indep_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 02_indep_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4.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+x"], "truth_formula":["x~z"], "prediction_accuracy":[0.85],"y_bias":[-0.1,0]}' --outfile $@
|
|
|
|
robustness_4.feather: robustness_4_jobs_p1 robustness_4_jobs_p2 robustness_4_jobs_p3
|
|
$(eval END_1!=cat robustness_4_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_4_jobs_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_4_jobs_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_jobs_p3;)
|
|
|
|
robustness_4.RDS: plot_example.R robustness_4.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_4" --remember-file $@
|
|
|
|
|
|
# '{"N":${Ns},"Bxy":[0.7],"Bzy":[-0.7],"m":${ms}, "seed":${seeds}, "outfile":["example_4.feather"], "z_bias":[0.5]}' --outfile example_4_jobs
|
|
|
|
robustness_4_dv_jobs_p1: grid_sweep.py 04_depvar_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85],"z_bias":[0,0.1]}' --outfile $@
|
|
|
|
robustness_4_dv_jobs_p2: grid_sweep.py 04_depvar_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85],"z_bias":[0.25,0.4]}' --outfile $@
|
|
|
|
robustness_4_dv_jobs_p3: grid_sweep.py 04_depvar_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"], "Bzy":[-0.7],"Bxy":[0.7],"outcome_formula":["y~x+z"], "prediction_accuracy":[0.85],"z_bias":[0.55,0.7]}' --outfile $@
|
|
|
|
robustness_4_dv_jobs_p4: grid_sweep.py 04_depvar_differential.R simulation_base.R grid_sweep.py
|
|
rm -f $@
|
|
${srun} $< --command 'Rscript 04_depvar_differential.R' --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["robustness_4_dv.feather"],"Bzy":[-0.7],"Bxy":[0.7], "outcome_formula":["y~x+z"], "prediction_accuracy":[0.85],"z_bias":[0.85,1]}' --outfile $@
|
|
|
|
robustness_4_dv.feather: robustness_4_dv_jobs_p1 robustness_4_dv_jobs_p2 robustness_4_dv_jobs_p3
|
|
$(eval END_1!=cat robustness_4_dv_jobs_p1 | wc -l)
|
|
$(eval ITEMS_1!=seq $(START) $(STEP) $(END_1))
|
|
$(eval END_2!=cat robustness_4_dv_p2 | wc -l)
|
|
$(eval ITEMS_2!=seq $(START) $(STEP) $(END_2))
|
|
$(eval END_3!=cat robustness_4_dv_p3 | wc -l)
|
|
$(eval ITEMS_3!=seq $(START) $(STEP) $(END_3))
|
|
|
|
$(foreach item,$(ITEMS_1),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p1;)
|
|
$(foreach item,$(ITEMS_2),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p2;)
|
|
$(foreach item,$(ITEMS_3),sbatch --wait --verbose --array=$(shell expr $(item) + $(ONE))-$(shell expr $(item) + $(STEP)) run_simulation.sbatch 0 robustness_4_dv_jobs_p3;)
|
|
|
|
|
|
robustness_4_dv.RDS: plot_dv_example.R robustness_4_dv.feather
|
|
rm -f $@
|
|
${srun} Rscript $< --infile $(word 2, $^) --name "robustness_4" --remember-file $@
|
|
|
|
|
|
|
|
clean_main:
|
|
rm -f remembr.RDS
|
|
rm -f example_1_jobs
|
|
rm -f example_2_jobs
|
|
rm -f example_3_jobs
|
|
rm -f example_4_jobs
|
|
rm -f example_1.feather
|
|
rm -f example_2.feather
|
|
rm -f example_3.feather
|
|
rm -f example_4.feather
|
|
|
|
|
|
#
|
|
clean_all:
|
|
rm *.feather
|
|
rm -f remembr.RDS
|
|
rm -f remembr*.RDS
|
|
rm -f robustness*.RDS
|
|
rm -f example_*_jobs
|
|
rm -f robustness_*_jobs_*
|
|
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_jobs
|
|
|
|
# example_2_B_mecor_jobs:
|
|
# sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript example_2_B_mecor.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B_mecor.feather"]}' --outfile example_2_B_mecor_jobs
|
|
|
|
# example_2_B_mecor.feather:example_2_B_mecor.R example_2_B_mecor_jobs
|
|
# rm -f example_2_B_mecor.feather
|
|
# sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_mecor_jobs
|
|
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_mecor_jobs
|
|
|
|
|
|
|
|
.PHONY: supplement
|