Stanheaders fails to install from source - looking for old cvodes folder #507
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Yeah, you need to change the branch to "for-2.18"
…On Wed, Mar 14, 2018 at 8:14 PM, Andrew Johnson ***@***.***> wrote:
Summary:
The install_StanHeaders.R script fails because the cleanup script is
attempting to find the folder inst/include/mathlib/lib/cvodes_2.9.0 when
the folder is now inst/include/mathlib/lib/cvodes_3.1.0
Current Output:
Installing StanHeaders
'/usr/lib/R/bin/R' --no-site-file --no-environ --no-save --no-restore --quiet CMD \
INSTALL '/tmp/RtmpEJQQf0/git2r-273912a3c235/StanHeaders' \
--library='/home/andrew/R/x86_64-pc-linux-gnu-library/3.4' --install-tests \
--preclean
* installing *source* package ‘StanHeaders’ ...
cp: cannot stat 'inst/include/mathlib/lib/cvodes_2.9.0': No such file or directory
mv: cannot stat 'inst/include/mathlib/lib/cvodes_2.9.0/include/*': No such file or directory
** libs
make: *** No rule to make target 'cvodes/src/cvodes/cvodes.o', needed by 'static'. Stop.
ERROR: compilation failed for package ‘StanHeaders’
* removing ‘/home/andrew/R/x86_64-pc-linux-gnu-library/3.4/StanHeaders’
Error: Command failed (1)
RStan Version:
Latest version from git
R Version:
3.4.3
Operating System:
Ubuntu 17.10
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When I run the below Is there a set of branches for For what it's worth, here's the start of the compile errors: ... and so on for many pages. |
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I should mention that using the master branch for all three gives the ...and that using the master branch only for |
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On the "for-2.18" branch you need to be specifying the C++14 standard in
your Makevars file.
…On Thu, Apr 19, 2018 at 8:54 PM, Ryan ***@***.***> wrote:
When I run the below install_StanHeaders.R file (where my stan-dev
directory has fresh clones of all the repos), I get a lot of compile errors
running make install in rstan.
Is there a set of branches for rstan, math, and stan that are known to
work together?
# install_StanHeaders.R file:
# This directory has fresh clones of all the relevant repos to save repeatedly downloads.
stan_dev_root <- "/home/rgiordan/Documents/git_repos/stan-dev"
path_rstan <- tempfile(pattern = "git2r-")
git2r::clone(file.path(stan_dev_root, "rstan"), path_rstan,
branch = "for-2.18")
git2r::clone(file.path(stan_dev_root, "stan"),
file.path(path_rstan, "StanHeaders", "inst", "include", "upstream"),
branch = "develop")
git2r::clone(file.path(stan_dev_root, "math"),
file.path(path_rstan, "StanHeaders", "inst", "include", "mathlib"),
branch = "develop")
devtools::install(file.path(path_rstan, "StanHeaders"), args = "--preclean")
print(path_rstan)
For what it's worth, here's the start of the compile errors:
In file included from /usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast.hpp:105:0,
from /usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast_def.cpp:7,
from lang__ast_def.cpp:18:
/usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast/node/map_rect.hpp:27:48: error: ‘>>’ should be ‘> >’ within a nested template argument list
static std::vector<std::pair<int, std::string>>& registered_calls() {
^
/usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast/node/map_rect.hpp: In static member function ‘static std::vector<std::pair<int, std::__cxx11::basic_string<char> > >& stan::lang::map_rect::registered_calls()’:
/usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast/node/map_rect.hpp:28:50: error: ‘>>’ should be ‘> >’ within a nested template argument list
static std::vector<std::pair<int, std::string>> REGISTERED_CALLS_;
^
In file included from /usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast_def.cpp:92:0,
from lang__ast_def.cpp:18:
/usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast/node/map_rect_def.hpp: In member function ‘void stan::lang::map_rect::register_id()’:
/usr/local/lib/R/site-library/StanHeaders/include/src/stan/lang/ast/node/map_rect_def.hpp:42:22: error: ‘class std::vector<std::pair<int, std::__cxx11::basic_string<char> > >’ has no member named ‘emplace_back’
registered_calls().emplace_back(call_id_, fun_name_);
... and so on for many pages.
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Summary:
The
install_StanHeaders.Rscript fails because the cleanup script is attempting to find the folderinst/include/mathlib/lib/cvodes_2.9.0when the folder is nowinst/include/mathlib/lib/cvodes_3.1.0Current Output:
RStan Version:
Latest version from git
R Version:
3.4.3
Operating System:
Ubuntu 17.10
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