cmdstan: CmdStan Bernoulli Example Compiling but Not Running

Summary:

I can successfully compile the Stan model with cmdstan located in the examples/bernoulli directory, but the model is not running.

Description:

I found a similar issue here. But I want to use stan in my computer, can’t solve with that. It worked before, which I installed following the steps from the CmdStanR. But it stopped working after I updated the cmdstan with CmdStanR to 2.29.2. I forgort the older version of the cmdstan, I installed it around Oct. So I think it should be version 2.80.0.

Reproducible Steps:

At the begaining, I have followed the steps in here. Everything went well, no error or warning was shown. After the compilation of the cmdstan, I restarted the R session. After that, I tried to run the example model from the CmdStanR, but it failed.

> library(cmdstanr)
This is cmdstanr version 0.5.0
- CmdStanR documentation and vignettes: mc-stan.org/cmdstanr
- CmdStan path: C:/Users/alimd/Documents/.cmdstan/cmdstan-2.29.2
- CmdStan version: 2.29.2
> fit <- cmdstanr_example(chains = 1)
Compiling Stan program...
Warning: Chain 1 finished unexpectedly!

Warning message:
No chains finished successfully. Unable to retrieve the fit. 

I checked the steps here. Added the tbb to the environment path. I opened cmd session in the cmdstan directory, and executed the following:

mingw32-make examples/bernoulli/bernoulli.exe

This is successful, and there’s a bernoulli.exe file under the examples/bernoulli folder. I followed the steps here try to run the sampler:

cd examples/bernoulli
bernoulli.exe sample data file=bernoulli.data.json

But nothing happened. I removed everything and followed steps here, compiled cmdstan from source. The problem is still there after trying cmdstan from 2.70.0 to 2.92.2.

I have added tbb path manually and also run mingw32-make install-tbb. But the mingw32-make install-tbb works if I add quotation marks around the path in the setx command:

setx Path "%~dp0stan\lib\stan_math\lib\tbb;%OLD_SYSTEM_PATH%"

Current Output:

No output from the following command:

cd examples/bernoulli
bernoulli.exe sample data file=bernoulli.data.json

Error from R:

> fit <- cmdstanr_example(chains = 1)
Compiling Stan program...
Warning: Chain 1 finished unexpectedly!

Warning message:
No chains finished successfully. Unable to retrieve the fit. 

Expected Output:

Based on the manual here, it should start working.

Additional Information:

I am using Windows 11, Rtools 4.0, R 4.1.0.

C:\Users\alimd>g++ --version
g++ (Built by Jeroen for the R-project) 8.3.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

C:\Users\alimd>mingw32-make --version
GNU Make 4.2.1
Built for x86_64-w64-mingw32
Copyright (C) 1988-2016 Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html>
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.

My environment path is here, don’t know if this has any impact.

C:\Program Files\WindowsApps\Microsoft.WindowsTerminal_1.11.3471.0_x64__8wekyb3d8bbwe;
C:\Users\alimd\AppData\Roaming\ActiveState\bin;
C:\Windows\system32;
C:\Windows;
C:\Windows\System32\Wbem;
C:\Windows\System32\WindowsPowerShell\v1.0\;
C:\Windows\System32\OpenSSH\;
C:\Program Files\SASHome\SASFoundation\9.4\ets\sasexe;
C:\Program Files\SASHome\Secure\ccme4;
C:\Program Files\SASHome\SASFoundation\9.4\core\sasexe;
C:\WINDOWS\system32;
C:\WINDOWS;
C:\WINDOWS\System32\Wbem;
C:\WINDOWS\System32\WindowsPowerShell\v1.0\;
C:\WINDOWS\System32\OpenSSH\;
C:\Program Files\dotnet\;
C:\Program Files (x86)\PDFtk Server\bin\;
C:\Program Files\Git\cmd;
C:\Perl64\bin;
C:\Users\alimd\Documents\.cmdstan\cmdstan-2.29.2\stan\lib\stan_math\lib\tbb;
C:\rtools40\usr\bin;
C:\rtools40\mingw64\bin;
C:\Users\alimd\AppData\Local\Microsoft\WindowsApps;
C:\Program Files\R\R-4.1.0\bin;
C:\Users\alimd\AppData\Local\Programs\Python\Python39;
C:\Users\alimd\AppData\Local\Programs\Python\Python39\Scripts;
C:\Users\alimd\AppData\Local\Programs\Microsoft VS Code\bin;
C:\Users\alimd\AppData\Local\Programs\MiKTeX\miktex\bin\x64\;
C:\gs;
C:\Users\alimd\AppData\Local\Pandoc\;

I believe this is hard to reproduce, but I don’t know where is the problem. I have been struggling for days now. I don’t want to reinstall my OS to solve this.

Current Version:

v2.29.2