]> code.communitydata.science - ml_measurement_error_public.git/blob - simulations/Makefile
cleaning up + implementing robustness checks
[ml_measurement_error_public.git] / simulations / Makefile
1
2 SHELL=bash
3
4 Ns=[1000, 5000, 10000]
5 ms=[100, 200, 400]
6 seeds=[$(shell seq -s, 1 500)]
7 explained_variances=[0.1]
8
9 all:remembr.RDS remember_irr.RDS
10 supplement: remember_robustness_misspec.RDS
11
12 srun=sbatch --wait --verbose run_job.sbatch
13
14
15 joblists:example_1_jobs example_2_jobs example_3_jobs
16
17 # test_true_z_jobs: test_true_z.R simulation_base.R
18 #       sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript test_true_z.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["test_true_z.feather"], "y_explained_variancevari":${explained_variances}, "Bzx":${Bzx}}' --outfile test_true_z_jobsb
19
20 # test_true_z.feather: test_true_z_jobs 
21 #       rm -f test_true_z.feather
22 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 test_true_z_jobs
23 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 test_true_z_jobs
24
25
26 example_1_jobs: 01_two_covariates.R simulation_base.R grid_sweep.py pl_methods.R
27         sbatch --wait --verbose run_job.sbatch 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
28
29 example_1.feather: example_1_jobs 
30         rm -f example_1.feather
31         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_1_jobs
32         sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 0 example_1_jobs
33         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_1_jobs
34         sbatch --wait --verbose --array=3001-4000  run_simulation.sbatch 0 example_1_jobs
35         sbatch --wait --verbose --array=4001-$(shell cat example_1_jobs | wc -l)  run_simulation.sbatch 0 example_1_jobs
36
37 example_2_jobs: 02_indep_differential.R simulation_base.R grid_sweep.py pl_methods.R
38         sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 02_indep_differential.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2.feather"],"y_explained_variance":${explained_variances},  "Bzy":[-0.3],"Bxy":[0.3],"Bzx":[1], "outcome_formula":["y~x+z"], "proxy_formula":["w_pred~y*z*x"]}' --outfile example_2_jobs
39
40 example_2.feather: example_2_jobs 
41         rm -f example_2.feather
42         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_2_jobs
43         sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 0 example_2_jobs
44         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_2_jobs
45         sbatch --wait --verbose --array=3001-4000  run_simulation.sbatch 0 example_2_jobs
46         sbatch --wait --verbose --array=4001-$(shell cat example_2_jobs | wc -l)  run_simulation.sbatch 0 example_2_jobs
47
48
49 # example_2_B_jobs: example_2_B.R
50 #       sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript example_2_B.R" --arg_dict '{"N":${Ns},"m":${ms}, "seed":${seeds}, "outfile":["example_2_B.feather"]}' --outfile example_2_B_jobs
51
52 # example_2_B.feather: example_2_B_jobs
53 #       rm -f example_2_B.feather
54 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_jobs
55
56 example_3_jobs: 03_depvar.R simulation_base.R grid_sweep.py pl_methods.R
57         sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 03_depvar.R" --arg_dict '{"N":${Ns},"m":${ms}, "Bxy":[0.7],"Bzy":[-0.7],"seed":${seeds}, "outfile":["example_3.feather"], "y_explained_variance":${explained_variances}}' --outfile example_3_jobs
58
59 example_3.feather: example_3_jobs
60         rm -f example_3.feather 
61         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_3_jobs
62         sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 0 example_3_jobs
63         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_3_jobs
64         sbatch --wait --verbose --array=3001-4000  run_simulation.sbatch 0 example_3_jobs
65         sbatch --wait --verbose --array=4001-$(shell cat example_3_jobs | wc -l)  run_simulation.sbatch 0 example_3_jobs
66
67 example_4_jobs: 04_depvar_differential.R simulation_base.R grid_sweep.py pl_methods.R
68         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":${seeds}, "outfile":["example_4.feather"], "z_bias":[0.5]}' --outfile example_4_jobs
69
70 example_4.feather: example_4_jobs
71         rm -f example_4.feather 
72         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_4_jobs
73         sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 0 example_4_jobs
74         sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 0 example_4_jobs
75         sbatch --wait --verbose --array=3001-4000  run_simulation.sbatch 0 example_4_jobs
76         sbatch --wait --verbose --array=4001-$(shell cat example_4_jobs | wc -l)  run_simulation.sbatch 0 example_4_jobs
77
78
79
80 remembr.RDS:example_1.feather example_2.feather example_3.feather example_4.feather plot_example.R plot_dv_example.R summarize_estimator.R
81         rm -f remembr.RDS
82         ${srun} Rscript plot_example.R --infile example_1.feather --name "plot.df.example.1"
83         ${srun} Rscript plot_example.R --infile example_2.feather --name "plot.df.example.2"
84         ${srun} Rscript plot_dv_example.R --infile example_3.feather --name "plot.df.example.3"
85         ${srun} Rscript plot_dv_example.R --infile example_4.feather --name "plot.df.example.4"
86
87
88 irr_Ns = [1000]
89 irr_ms = [150,300,600]
90 irr_seeds=${seeds}
91 irr_explained_variances=${explained_variances}
92 irr_coder_accuracy=[0.80]
93
94 example_5_jobs: 05_irr_indep.R irr_simulation_base.R grid_sweep.py pl_methods.R measerr_methods.R
95         sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 05_irr_indep.R" --arg_dict '{"N":${irr_Ns},"m":${irr_ms}, "seed":${irr_seeds}, "outfile":["example_5.feather"], "y_explained_variance":${irr_explained_variances}, "coder_accuracy":${irr_coder_accuracy}}' --outfile example_5_jobs
96
97 example_5.feather:example_5_jobs
98         rm -f example_5.feather
99         sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_5_jobs
100         sbatch --wait --verbose --array=1001-$(shell cat example_5_jobs | wc -l)  run_simulation.sbatch 1000 example_5_jobs
101         # sbatch --wait --verbose --array=2001-3000  run_simulation.sbatch 2000 example_5_jobs
102         # sbatch --wait --verbose --array=3001-4000  run_simulation.sbatch 3000 example_5_jobs
103         # sbatch --wait --verbose --array=2001-$(shell cat example_5_jobs | wc -l)  run_simulation.sbatch 4000 example_5_jobs
104
105
106
107 # example_6_jobs: 06_irr_dv.R irr_dv_simulation_base.R grid_sweep.py pl_methods.R
108 #       sbatch --wait --verbose run_job.sbatch grid_sweep.py --command "Rscript 06_irr_dv.R" --arg_dict '{"N":${irr_Ns},"m":${irr_ms}, "seed":${irr_seeds}, "outfile":["example_6.feather"], "y_explained_variance":${irr_explained_variances},"coder_accuracy":${irr_coder_accuracy}}' --outfile example_6_jobs
109
110 # example_6.feather:example_6_jobs
111 #       rm -f example_6.feather
112 #       sbatch --wait --verbose --array=1-1000  run_simulation.sbatch 0 example_6_jobs
113 #       sbatch --wait --verbose --array=1001-2000  run_simulation.sbatch 1000 example_6_jobs
114 #       sbatch --wait --verbose --array=2001-$(shell cat example_6_jobs | wc -l)  run_simulation.sbatch 2000 example_6_jobs
115
116
117 remember_irr.RDS: example_5.feather plot_irr_example.R plot_irr_dv_example.R summarize_estimator.R
118         rm -f remember_irr.RDS
119         sbatch --wait --verbose run_job.sbatch Rscript plot_irr_example.R --infile example_5.feather --name "plot.df.example.5"
120 #       sbatch --wait --verbose run_job.sbatch Rscript plot_irr_dv_example.R --infile example_6.feather --name "plot.df.example.6"
121
122
123 robustness_1_jobs: 02_indep_differential.R simulation_base.R grid_sweep.py
124         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
125
126
127 robustness_1.feather: robustness_1_jobs
128         rm -f robustness_1.feather
129         sbatch --wait --verbose --array=1-$(shell cat robustness_1_jobs | wc -l)  run_simulation.sbatch 0 robustness_1_jobs
130
131 robustness_1_dv_jobs: simulation_base.R 04_depvar_differential.R grid_sweep.py
132         ${srun} bash -c "source ~/.bashrc && grid_sweep.py --command 'Rscript 04_depvar_differential.R' --arg_dict \"{'N':${Ns},'m':${ms}, 'seed':${seeds}, 'outfile':['robustness_1_dv.feather'], 'y_explained_variance':${explained_variances}, 'proxy_formula':['w_pred~y']}\" --outfile robustness_1_dv_jobs"
133
134
135 robustness_1_dv.feather: robustness_1_dv_jobs
136         rm -f robustness_1_dv.feather
137         sbatch --wait --verbose --array=1-$(shell cat example_3_jobs | wc -l)  run_simulation.sbatch 0 robustness_1_dv_jobs
138
139
140 remember_robustness_misspec.RDS: robustness_1.feather robustness_1_dv.feather
141         rm -f remember_robustness_misspec.RDS
142         sbatch --wait --verbose run_job.sbatch Rscript plot_example.R --infile robustness_1.feather --name "plot.df.robustness.1" --remember-file "remember_robustness_misspec.RDS"
143         sbatch --wait --verbose run_job.sbatch Rscript plot_dv_example.R --infile robustness_1_dv.feather --name "plot.df.robustness.1.dv" --remember-file "remember_robustness_mispec.RDS"
144
145
146 clean:
147         rm *.feather
148         rm -f remembr.RDS
149         rm -f example_*_jobs
150 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_jobs
151
152 # example_2_B_mecor_jobs:
153 #       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
154
155 # example_2_B_mecor.feather:example_2_B_mecor.R example_2_B_mecor_jobs
156 #       rm -f example_2_B_mecor.feather
157 #       sbatch --wait --verbose --array=1-3000 run_simulation.sbatch 0 example_2_B_mecor_jobs
158 #       sbatch --wait --verbose --array=3001-6001 run_simulation.sbatch 0 example_2_B_mecor_jobs
159
160
161
162 .PHONY: supplement

Community Data Science Collective || Want to submit a patch?