Rel 4.4.1

.github/workflows/CI.yml

@@ -7,7 +7,7 @@ on:
   pull_request:
 
 env:
-  CMDSTAN: "/home/worker/cmdstan-2.33.0/"
+  CMDSTAN: "/home/worker/cmdstan-2.34.1/"
 
 jobs:
   test:
@@ -41,17 +41,17 @@ jobs:
           OLDWD=`pwd`
           cd ~
           pwd
-          wget https://github.com/stan-dev/cmdstan/releases/download/v2.33.0/cmdstan-2.33.0.tar.gz
-          tar -xzpf cmdstan-2.33.0.tar.gz
+          wget https://github.com/stan-dev/cmdstan/releases/download/v2.34.1/cmdstan-2.34.1.tar.gz
+          tar -xzpf cmdstan-2.34.1.tar.gz
           ls -lia .
-          ls -lia ./cmdstan-2.33.0
-          ls -lia ./cmdstan-2.33.0/make
-          touch ./cmdstan-2.33.0/make/local
-          echo "STAN_THREADS=true" > ./cmdstan-2.33.0/make/local
+          ls -lia ./cmdstan-2.34.1
+          ls -lia ./cmdstan-2.34.1/make
+          touch ./cmdstan-2.34.1/make/local
+          echo "STAN_THREADS=true" > ./cmdstan-2.34.1/make/local
           make -C $CMDSTAN build
           cd $OLDWD
         env:
-          CMDSTAN: "/home/runner/cmdstan-2.33.0/"
+          CMDSTAN: "/home/runner/cmdstan-2.34.1/"
       - uses: actions/checkout@v2
       - uses: julia-actions/setup-julia@v1
         with:
@@ -70,7 +70,7 @@ jobs:
       - uses: julia-actions/julia-buildpkg@latest
       - uses: julia-actions/julia-runtest@latest
         env:
-          CMDSTAN: "/home/runner/cmdstan-2.33.0/"
+          CMDSTAN: "/home/runner/cmdstan-2.34.1/"
       - uses: julia-actions/julia-processcoverage@v1
         if: matrix.version == '1' && matrix.os == 'ubuntu-latest' && matrix.num_threads == 1
       - uses: codecov/codecov-action@v1

Project.toml

@@ -1,7 +1,7 @@
 authors = ["Rob J Goedman <[email protected]>"]
 name = "StanQuap"
 uuid = "e4723793-2808-4fc5-8a98-c57f4c160c53"
-version = "4.4.0"
+version = "4.4.1"
 
 [compat]
 CSV = "0.10"

README.md

@@ -35,7 +35,7 @@ pkg> add StanQuap.jl
 You need a working [Stan's cmdstan](https://mc-stan.org/users/interfaces/cmdstan.html) installation, the path of which you should specify either in `CMDSTAN` or `JULIA_CMDSTAN_HOME`, eg in your `~/.julia/config/startup.jl` have a line like
 ```julia
 # CmdStan setup
-ENV["CMDSTAN"] = expanduser("~/src/cmdstan-2.28.2/") # replace with your path
+ENV["CMDSTAN"] = expanduser("~/src/cmdstan-2.34.1/") # replace with your path
 ```
 
 It is recommended that you start your Julia process with multiple worker processes to take advantage of parallel sampling, eg

src/quap.jl

@@ -166,22 +166,6 @@ function sample(qr::QuapResult, count::Int)::DataFrame
     ])
 end
 
-#=
-# Will be deprecated, use QuapResult object
-function sample(qm::NamedTuple; nsamples=4000)
-  df = DataFrame()
-  p = Particles(nsamples, qm.distr)
-  for (indx, coef) in enumerate(qm.params)
-    if length(qm.params) == 1
-      df[!, coef] = p.particles
-    else
-      df[!, coef] = p[indx].particles
-    end
-  end
-  df
-end
-=#
-
 export
     QuapResult,
     stan_quap,