update

lgnakano · Feb 15, 2020 · 373fbc1 · 373fbc1
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Showing 17 changed files with 3 additions and 5 deletions.
diff --git a/Hubei_stepR0_p.png b/Hubei_stepR0_p.png
diff --git a/Hubei_step_forecast.png b/Hubei_step_forecast.png
diff --git a/Hubei_step_forecast2.png b/Hubei_step_forecast2.png
diff --git a/Hubei_step_summary.csv b/Hubei_step_summary.csv
@@ -1,2 +1,2 @@
 "","thetaS_p_mean","thetaI_p_mean","thetaR_p_mean","thetaS_p_ci_low","thetaS_p_ci_med","thetaS_p_ci_up","thetaI_p_ci_low","thetaI_p_ci_med","thetaI_p_ci_up","thetaR_p_ci_low","thetaR_p_ci_med","thetaR_p_ci_up","R0_p_mean","R0_p_ci_low","R0_p_ci_med","R0_p_ci_up","gamma_p_mean","gamma_p_ci_low","gamma_p_ci_med","gamma_p_ci_up","beta_p_mean","beta_p_ci_low","beta_p_ci_med","beta_p_ci_up"
-"1",0.999441611200987,0.000472540957966342,8.5847841046695e-05,0.999320548369469,0.999443453697179,0.999554259786825,0.00036623081325875,0.000470970361233154,0.000582857064951426,4.53638290298096e-05,8.29937570360714e-05,0.000141692447257562,4.60630136616897,2.5631717876835,4.47886530425856,7.13261277276928,0.0501202730748215,0.024383627803656,0.0492430688205827,0.0805776606112627,0.226700634174201,0.0933715539257896,0.223533617312876,0.37535044003511
+"1",0.999430737953203,0.000481664173570253,8.75978732270882e-05,0.99930974912136,0.999432859702995,0.999547246617987,0.000379321084906919,0.000480634268228554,0.000588384992994626,4.56041509821656e-05,8.55178657398271e-05,0.000142334083632579,4.75292858293483,2.5989244982607,4.66016517519351,7.49843191818149,0.0495368768469826,0.0255428740059617,0.0483343089524931,0.0794816293276103,0.231314581754955,0.092906132393196,0.227593106657011,0.382916333701975
diff --git a/Hubei_stepbeta_p.png b/Hubei_stepbeta_p.png
diff --git a/Hubei_stepderiv.png b/Hubei_stepderiv.png
diff --git a/Hubei_stepgamma_p.png b/Hubei_stepgamma_p.png
diff --git a/Hubei_stepk_p.png b/Hubei_stepk_p.png
diff --git a/Hubei_steplambdaR_p.png b/Hubei_steplambdaR_p.png
diff --git a/Hubei_steplambdaY_p.png b/Hubei_steplambdaY_p.png
diff --git a/Hubei_steptheta_p.png b/Hubei_steptheta_p.png
diff --git a/README.Rmd b/README.Rmd
@@ -101,7 +101,7 @@ $$
   set.seed(20192020)
   change_time <- c("01/23/2020","02/04/2020","02/08/2020")
   phi <- c(0.1,0.4,0.4)
-  res.q <- q.SIR (Y,R,begin_str="01/13/2020",T_fin=200,phi=phi,change_time=change_time,casename="Hubei_q",save_files = T)
+  res.q <- q.SIR (Y,R,begin_str="01/13/2020",T_fin=200,phi=phi,change_time=change_time,casename="Hubei_q")
   res.q$forecast_infection
   
   # The following codes provide identical result as the one fron res.nopi in pi.SIR

diff --git a/README.md b/README.md
@@ -133,7 +133,7 @@ $$
   set.seed(20192020)
   change_time <- c("01/23/2020","02/04/2020","02/08/2020")
   phi <- c(0.1,0.4,0.4)
-  res.q <- q.SIR (Y,R,begin_str="01/13/2020",T_fin=200,phi=phi,change_time=change_time,casename="Hubei_q",save_files = T)
+  res.q <- q.SIR (Y,R,begin_str="01/13/2020",T_fin=200,phi=phi,change_time=change_time,casename="Hubei_q")
 #> The follow-up is from 01/13/20 to 07/30/20 and the last observed date is 02/11/20.
 #> Running for q.SIR
 #> Compiling model graph
@@ -145,8 +145,6 @@ $$
 #>    Total graph size: 2676
 #> 
 #> Initializing model
-#> Saving 12 x 8 in image
-#> Saving 12 x 8 in image
   res.q$forecast_infection
 ```
 

diff --git a/man/figures/README-model1-1.png b/man/figures/README-model1-1.png
diff --git a/man/figures/README-model1-2.png b/man/figures/README-model1-2.png
diff --git a/man/figures/README-model1-3.png b/man/figures/README-model1-3.png
diff --git a/man/figures/README-model2-1.png b/man/figures/README-model2-1.png