Rel 0.1.0

goedman · goedman · commit 72f8e007ebb0 · 2020-06-29T12:52:40.000-06:00
diff --git a/docs/src/walkthrough.md b/docs/src/walkthrough.md
@@ -7,7 +7,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir)
 
-df = CSV.read(scm_path("..", "data", "marks.csv"));
+df = DataFrame!(CSV.File(scm_path("..", "data", "marks.csv")));
 ```
 
 # DAG - directed acyclic graphs
@@ -147,7 +147,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-df = CSV.read(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
 df = DataFrame(
   :s => df[:, :South],
   :a => df[:, :MedianAgeMarriage],
diff --git a/examples/SR/SR6.4.3/sr6.4.3.jl b/examples/SR/SR6.4.3/sr6.4.3.jl
@@ -5,7 +5,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-df = CSV.read(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(scm_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 df = DataFrame(
   :s => df[:, :South],
   :a => df[:, :MedianAgeMarriage],
diff --git a/examples/SR/milk/clip-38.jl b/examples/SR/milk/clip-38.jl
@@ -12,7 +12,7 @@ end
 # ### snippet 5.29
 
 println()
-df = CSV.read(rel_path("..", "data", "milk.csv"), delim=';');
+df = DataFrame!(CSV.File(rel_path("..", "data", "milk.csv"), delim=';'));
 df = filter(row -> !(row[:neocortex_perc] == "NA"), df);
 df[!, :neocortex_perc] = parse.(Float64, df[:, :neocortex_perc])
 df[!, :lmass] = log.(df[:, :mass])
diff --git a/examples/SR/milk/m5.5.jl b/examples/SR/milk/m5.5.jl
@@ -6,7 +6,7 @@ ProjDir = @__DIR__
 # ### snippet 5.29
 
 println()
-df = CSV.read(rel_path("..", "data", "milk.csv"), delim=';');
+df = DataFrame!(CSV.File(rel_path("..", "data", "milk.csv"), delim=';'));
 df = filter(row -> !(row[:neocortex_perc] == "NA"), df);
 df[!, :neocortex_perc] = parse.(Float64, df[:, :neocortex_perc])
 df[!, :lmass] = log.(df[:, :mass])
diff --git a/examples/SR/milk/m5.6.jl b/examples/SR/milk/m5.6.jl
@@ -8,7 +8,7 @@ ProjDir = @__DIR__
 # ### snippet 5.29
 
 println()
-df = CSV.read(rel_path("..", "data", "milk.csv"), delim=';');
+df = DataFrame!(CSV.File(rel_path("..", "data", "milk.csv"), delim=';'));
 df = filter(row -> !(row[:neocortex_perc] == "NA"), df);
 df[!, :neocortex_perc] = parse.(Float64, df[:, :neocortex_perc])
 df[!, :lmass] = log.(df[:, :mass])
diff --git a/examples/SR/milk/m5.7.jl b/examples/SR/milk/m5.7.jl
@@ -7,7 +7,7 @@ ProjDir = @__DIR__
 # ### snippet 5.29
 
 println()
-df = CSV.read(rel_path("..", "data", "milk.csv"), delim=';');
+df = DataFrame!(CSV.File(rel_path("..", "data", "milk.csv"), delim=';'));
 df = filter(row -> !(row[:neocortex_perc] == "NA"), df);
 df[!, :neocortex_perc] = parse.(Float64, df[:, :neocortex_perc])
 df[!, :lmass] = log.(df[:, :mass])
diff --git a/examples/SR/waffledivorce/AMD_Dag_1.jl b/examples/SR/waffledivorce/AMD_Dag_1.jl
@@ -9,7 +9,7 @@ cd(ProjDir) #do
 # ### snippet 5.1
 
 println()
-df1 = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df1 = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 first(df1, 5) |> display
 
 df = DataFrame()
diff --git a/examples/SR/waffledivorce/AMD_Dag_2.jl b/examples/SR/waffledivorce/AMD_Dag_2.jl
@@ -8,7 +8,7 @@ cd(ProjDir) #do
 
 # ### snippet 5.1
 
-df1 = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df1 = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 
 df = DataFrame()
 df[!, :A] = df1[:, :MedianAgeMarriage]
diff --git a/examples/SR/waffledivorce/AMD_Dag_3.jl b/examples/SR/waffledivorce/AMD_Dag_3.jl
@@ -8,7 +8,7 @@ cd(ProjDir) #do
 
 # ### snippet 5.1
 
-df1 = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df1 = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 
 df = DataFrame()
 df[!, :A] = df1[:, :MedianAgeMarriage]
diff --git a/examples/SR/waffledivorce/AMD_m1.jl b/examples/SR/waffledivorce/AMD_m1.jl
@@ -7,7 +7,7 @@ ProjDir = @__DIR__
 # ### snippet 5.1
 
 println()
-df = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 scale!(df, [:Marriage, :MedianAgeMarriage, :Divorce])
 println()
 
diff --git a/examples/SR/waffledivorce/AMD_m2.jl b/examples/SR/waffledivorce/AMD_m2.jl
@@ -8,7 +8,7 @@ ProjDir = @__DIR__
 
 # ### snippet 5.1
 
-df = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';')
+df = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 scale!(df, [:Marriage, :MedianAgeMarriage, :Divorce])
 
 # Define the Stan language model
diff --git a/examples/SR/waffledivorce/AMD_m3.jl b/examples/SR/waffledivorce/AMD_m3.jl
@@ -6,7 +6,7 @@ ProjDir = @__DIR__
 
 # ### snippet 5.1
 
-df = CSV.read(rel_path("..", "data", "WaffleDivorce.csv"), delim=';')
+df = DataFrame!(CSV.File(rel_path("..", "data", "WaffleDivorce.csv"), delim=';'))
 scale!(df, [:Marriage, :MedianAgeMarriage, :Divorce])
 
 # Define the Stan language model
diff --git a/examples/derived/derived.jl b/examples/derived/derived.jl
@@ -5,7 +5,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-derived_df = CSV.read(scm_path("..", "data", "derived.csv"));
+derived_df = DataFrame!(CSV.File(scm_path("..", "data", "derived.csv")));
 
 df = DataFrame(
   :y => log.(derived_df.Sys ./ derived_df.Dia),
diff --git a/examples/marks/marks.jl b/examples/marks/marks.jl
@@ -5,7 +5,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir)
 
-df = CSV.read(scm_path("..", "data", "marks.csv"));
+df = DataFrame!(CSV.File(scm_path("..", "data", "marks.csv")));
 
 #=
 R_dag = "
diff --git a/examples/sports/m1.jl b/examples/sports/m1.jl
@@ -6,7 +6,7 @@ using StanSample, MonteCarloMeasurements
 
 ProjDir = @__DIR__
 
-df = CSV.read(joinpath(ProjDir, "sports.csv"), delim=',');
+df = DataFrame!(CSV.File(joinpath(ProjDir, "sports.csv"), delim=','));
 scale!(df, [:TM, :WUE, :C])
 println()
 
diff --git a/examples/sports/m2.jl b/examples/sports/m2.jl
@@ -6,7 +6,7 @@ using StanSample, MonteCarloMeasurements
 
 ProjDir = @__DIR__
 
-df = CSV.read(joinpath(ProjDir, "sports.csv"), delim=',');
+df = DataFrame!(CSV.File(joinpath(ProjDir, "sports.csv"), delim=','));
 scale!(df, [:TM, :WUE, :FL])
 println()
 
diff --git a/examples/sports/m3.jl b/examples/sports/m3.jl
@@ -6,7 +6,7 @@ using StanSample, MonteCarloMeasurements
 
 ProjDir = @__DIR__
 
-df = CSV.read(joinpath(ProjDir, "sports.csv"), delim=',');
+df = DataFrame!(CSV.File(joinpath(ProjDir, "sports.csv"), delim=','));
 scale!(df, [:TM, :WUE, :PGP])
 println()
 
diff --git a/examples/sports/m4.jl b/examples/sports/m4.jl
@@ -6,7 +6,7 @@ using StanSample, MonteCarloMeasurements
 
 ProjDir = @__DIR__
 
-df = CSV.read(joinpath(ProjDir, "sports.csv"), delim=',');
+df = DataFrame!(CSV.File(joinpath(ProjDir, "sports.csv"), delim=','));
 scale!(df, [:C, :FL, :TM, :WUE, :PGP])
 println()
 
diff --git a/examples/sports/m5.jl b/examples/sports/m5.jl
@@ -6,7 +6,7 @@ using StanSample, MonteCarloMeasurements
 
 ProjDir = @__DIR__
 
-df = CSV.read(joinpath(ProjDir, "sports.csv"), delim=',');
+df = DataFrame!(CSV.File(joinpath(ProjDir, "sports.csv"), delim=','));
 scale!(df, [:C, :FL, :TM, :WUE, :PGP])
 println()
 
diff --git a/examples/sports/sports.jl b/examples/sports/sports.jl
@@ -15,7 +15,7 @@ end
 models=[m1s, m2s, m3s, m4s, m5s];
 pars=[:bC, :bFL, :bPGP, :bTM]
 
-df = CSV.read(scm_path("..", "examples", "sports", "sports.csv"), delim=',')
+df = DataFrame!(CSV.File(scm_path("..", "examples", "sports", "sports.csv"), delim=','));
 
 scatter(df[:, :TM], df[:, :WUE])
 savefig("$(ProjDir)/sports_01.png")
diff --git a/src/methods/d_separation.jl b/src/methods/d_separation.jl
@@ -35,7 +35,7 @@ d_separation(
 ```julia
 using StructuralCausalModels, CSV
 
-df = CSV.read(scm_path("..", "data", "marks.csv");
+df = DataFrame!(CSV.File(scm_path("..", "data", "marks.csv"));
 
 d = OrderedDict(
   :mechanics => [:vectors, :algebra],
diff --git a/src/methods/pcor.jl b/src/methods/pcor.jl
@@ -32,7 +32,7 @@ where:
 ```julia
 using StructuralCausalModels, CSV
 
-df = CSV.read(scm_path("..", "data", "marks.csv");
+df = DataFrame!(CSV.File(scm_path("..", "data", "marks.csv"));
 S = cov(Array(df))
 
 u = [2, 3, 4, 5]
diff --git a/test/test_graphviz_conversions.jl b/test/test_graphviz_conversions.jl
@@ -5,7 +5,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-df = CSV.read(scm_path("..", "data", "marks.csv"));
+df = DataFrame!(CSV.File(scm_path("..", "data", "marks.csv")));
 
 #=
 R_dag = "
diff --git a/test/test_sr6_4_3.jl b/test/test_sr6_4_3.jl
@@ -3,7 +3,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-df = CSV.read(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(scm_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 df = DataFrame(
   :s => df[:, :South],
   :a => df[:, :MedianAgeMarriage],
diff --git a/test/test_sr6_4_3a.jl b/test/test_sr6_4_3a.jl
@@ -3,7 +3,7 @@ using StructuralCausalModels
 ProjDir = @__DIR__
 cd(ProjDir) #do
 
-df = CSV.read(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(scm_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 df = DataFrame(
   :s => df[:, :South],
   :a => df[:, :MedianAgeMarriage],
diff --git a/test/test_sr6_4_3b.jl b/test/test_sr6_4_3b.jl
@@ -3,7 +3,7 @@ using StructuralCausalModels, Test
 ProjDir = @__DIR__
 cd(ProjDir)
 
-df = CSV.read(scm_path("..", "data", "WaffleDivorce.csv"), delim=';');
+df = DataFrame!(CSV.File(scm_path("..", "data", "WaffleDivorce.csv"), delim=';'));
 df = DataFrame(
   :s => df[:, :South],
   :a => df[:, :MedianAgeMarriage],
