groceryheist/ml_measurement_error_public
1
0
Fork 0
Code Activity

update simulation code for examples 1-3

Browse Source
This commit is contained in:
Nathan TeBlunthuis
2022-07-15 13:58:18 -07:00
parent cb3f850c24
commit 46e2d1fe48
9 changed files with 956 additions and 683 deletions
Download Patch File Download Diff File Expand all files Collapse all files

57
simulations/Makefile
View File

@@ -1,28 +1,42 @@
SHELL=bash
Ns=[500,1000,10000]
ms=[50, 100, 250, 500]
Ns=[1000,3600,14400]
ms=[75,150,300]
seeds=[$(shell seq -s, 1 250)]
explained_variances=[0.1]
all:remembr.RDS
srun=srun -A comdata -p compute-bigmem --time=10:00:00 --mem 4G -c 1
srun=srun -A comdata -p compute-bigmem --time=6:00:00 --mem 4G -c 1
example_1_jobs: 01_two_covariates.R
grid_sweep.py --command "Rscript 01_two_covariates.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_1.feather"]}' --outfile example_1_jobs
example_1.feather: example_1_jobs
joblists:example_1_jobs example_2_jobs example_3_jobs
# test_true_z_jobs: test_true_z.R simulation_base.R
# 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":${Bzx}}' --outfile test_true_z_jobsb
# test_true_z.feather: test_true_z_jobs
# rm -f test_true_z.feather
# sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 test_true_z_jobs
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 test_true_z_jobs
example_1_jobs: 01_two_covariates.R simulation_base.R
grid_sweep.py --command "Rscript 01_two_covariates.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_1.feather"], "y_explained_variance":${explained_variances}, "Bzx":[0.1]}' --outfile example_1_jobs
example_1.feather: example_1_jobs
rm -f example_1.feather
sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_1_jobs
sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_1_jobs
sbatch --wait --verbose --array=1-$(shell cat example_1_jobs | wc -l) run_simulation.sbatch 0 example_1_jobs
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_1_jobs
example_2_jobs: example_2.R
grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2.feather"]}' --outfile example_2_jobs
example_2_jobs: 02_indep_differential.R simulation_base.R
grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2.feather"],"y_explained_variance":${explained_variances}, "accuracy_imbalance_difference":[0.3], "Bzy":[0.3]}' --outfile example_2_jobs
example_2.feather: example_2_jobs
example_2.feather: example_2_jobs
rm -f example_2.feather
sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_jobs
sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_jobs
sbatch --wait --verbose --array=1-$(shell cat example_2_jobs | wc -l) run_simulation.sbatch 0 example_2_jobs
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_jobs
# example_2_B_jobs: example_2_B.R
# grid_sweep.py --command "Rscript example_2_B.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B.feather"]}' --outfile example_2_B_jobs
@@ -31,23 +45,24 @@ example_2.feather: example_2_jobs
# rm -f example_2_B.feather
# sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_jobs
example_3_jobs: 03_depvar_differential.R
grid_sweep.py --command "Rscript 03_depvar_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_3.feather"]}' --outfile example_3_jobs
example_3_jobs: 03_depvar_differential.R simulation_base.R
grid_sweep.py --command "Rscript 03_depvar_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "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=1-3000 run_simulation.sbatch 0 example_3_jobs
sbatch --wait --verbose --array=3001-6000 run_simulation.sbatch 0 example_3_jobs
rm -f example_3.feather
sbatch --wait --verbose --array=1-$(shell cat example_3_jobs | wc -l) run_simulation.sbatch 0 example_3_jobs
remembr.RDS:example_1.feather example_2.feather example_3.feather
remembr.RDS:example_1.feather example_2.feather example_3.feather plot_example.R plot_dv_example.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"
clean:
rm *.feather
rm remembr.RDS
rm -f remembr.RDS
rm -f example_*_jobs
# sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_jobs
# example_2_B_mecor_jobs: