Cmdstan installation problem on Windows

Interfaces CmdStan
1

Hello,

I’m new to Windows and have been struggling to install cmdstan on my windows machine. When I type mingw32-make build, the only thing that seems wrong at first is a warning “INFO: Could not find files for the given pattern(s).” Subsequently, the commands seem to be running in a loop forever (I tried to build cmdstan last night with a 16 core machine using -j16 and it is still running 12 hours later with no error messages except for the 'INFO:…" warning.

INFO: Could not find files for the given pattern(s).
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/ast_def.o -MT stan/src/stan/lang/ast_def.d -M -E -MG -MP -MF stan/src/stan/lang/ast_def.d stan/src/stan/lang/ast_def.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/semantic_actions_def.o -MT stan/src/stan/lang/grammars/semantic_actions_def.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/semantic_actions_def.d stan/src/stan/lang/grammars/semantic_actions_def.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/program_grammar_inst.o -MT stan/src/stan/lang/grammars/program_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/program_grammar_inst.d stan/src/stan/lang/grammars/program_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/expression_grammar_inst.o -MT stan/src/stan/lang/grammars/expression_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/expression_grammar_inst.d stan/src/stan/lang/grammars/expression_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/statement_grammar_inst.o -MT stan/src/stan/lang/grammars/statement_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/statement_grammar_inst.d stan/src/stan/lang/grammars/statement_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/expression07_grammar_inst.o -MT stan/src/stan/lang/grammars/expression07_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/expression07_grammar_inst.d stan/src/stan/lang/grammars/expression07_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/block_var_decls_grammar_inst.o -MT stan/src/stan/lang/grammars/block_var_decls_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/block_var_decls_grammar_inst.d stan/src/stan/lang/grammars/block_var_decls_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/statement_2_grammar_inst.o -MT stan/src/stan/lang/grammars/statement_2_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/statement_2_grammar_inst.d stan/src/stan/lang/grammars/statement_2_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/indexes_grammar_inst.o -MT stan/src/stan/lang/grammars/indexes_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/indexes_grammar_inst.d stan/src/stan/lang/grammars/indexes_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/local_var_decls_grammar_inst.o -MT stan/src/stan/lang/grammars/local_var_decls_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/local_var_decls_grammar_inst.d stan/src/stan/lang/grammars/local_var_decls_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/whitespace_grammar_inst.o -MT stan/src/stan/lang/grammars/whitespace_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/whitespace_grammar_inst.d stan/src/stan/lang/grammars/whitespace_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/bare_type_grammar_inst.o -MT stan/src/stan/lang/grammars/bare_type_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/bare_type_grammar_inst.d stan/src/stan/lang/grammars/bare_type_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/term_grammar_inst.o -MT stan/src/stan/lang/grammars/term_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/term_grammar_inst.d stan/src/stan/lang/grammars/term_grammar_inst.cpp
g++ -std=c++1y -m64 -D_REENTRANT -Wall -Wno-unused-function -Wno-uninitialized -Wno-unused-but-set-variable -Wno-unused-variable -Wno-sign-compare -Wno-unused-local-typedefs      -I stan/lib/stan_math/lib/tbb_2019_U8/include -O3 -I src -I stan/src -I lib/rapidjson_1.1.0/ -I stan/lib/stan_math/ -I stan/lib/stan_math/lib/eigen_3.3.3 -I stan/lib/stan_math/lib/boost_1.72.0 -I stan/lib/stan_math/lib/sundials_5.2.0/include  -D_USE_MATH_DEFINES  -DBOOST_DISABLE_ASSERTS      -c -MT bin/cmdstan/lang/grammars/functions_grammar_inst.o -MT stan/src/stan/lang/grammars/functions_grammar_inst.d -M -E -MG -MP -MF stan/src/stan/lang/grammars/functions_grammar_inst.d stan/src/stan/lang/grammars/functions_grammar_inst.cpp
INFO: Could not find files for the given pattern(s).

Thank you for your help!

  • Operating System: Windows Server 2016 Standard
  • CmdStan Version: 02.23
  • Compiler/Toolkit: gcc
2

Hi,

can you post the output of
g++ --version

The build should not run more than 3,4 minutes with -j4, even on an ancient computer.

3

Thanks for the fast response! I know, build on my Mac and Ubuntu machine were really fast… that’s why I knew something was wrong here

g++ --version
g++ (GCC) 7.4.0
Copyright (C) 2017 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.
4

So I am guessing this is using the MinGW from http://www.mingw.org/?

Is it an option for you to install RTools 3.5 from https://cran.r-project.org/bin/windows/Rtools/history.html
Or even RTools 4.0.

If not, we can explore why the MinGW environemnt is acting up. If you can, that would get you working much faster.

5

Ah ha! Removing MInGW works, everything works fine now. Thank you very much!

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