Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Trouble installing InSituType #218

Open
p-fessas opened this issue Nov 4, 2024 · 1 comment
Open

Trouble installing InSituType #218

p-fessas opened this issue Nov 4, 2024 · 1 comment

Comments

@p-fessas
Copy link

p-fessas commented Nov 4, 2024

Please see the error below:

devtools::install_github("https://github.com/Nanostring-Biostats/InSituType", verbose = TRUE)
Downloading GitHub repo Nanostring-Biostats/InSituType@HEAD
Skipping 3 packages not available: SummarizedExperiment, sparseMatrixStats, SingleCellExperiment ##These packages are installed already.
── R CMD build ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
✔ checking for file ‘/private/var/folders/dv/fpbl4h8126jb08v99y8bq5w00000gn/T/RtmptOVE57/remotesa2393b4d5dad/Nanostring-Biostats-InSituType-7a7b6d1/DESCRIPTION’ ...
─ preparing ‘InSituType’:
✔ checking DESCRIPTION meta-information ...
─ cleaning src
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘InSituType_2.0.tar.gz’

system (cmd0): /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL

  • installing source package ‘InSituType’ ...
    ** using staged installation
    ** libs
    using C++ compiler: ‘Apple clang version 16.0.0 (clang-1600.0.26.3)’
    using C++11
    using SDK: ‘MacOSX15.0.sdk’
    clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/RcppArmadillo/include' -I/opt/R/arm64/include -DARMA_64BIT_WORD=1 -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
    In file included from RcppExports.cpp:4:
    In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo.h:29:
    In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25:
    In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include/RcppCommon.h:30:
    In file included from /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include/Rcpp/r/headers.h:66:
    /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include/Rcpp/platform/compiler.h:100:10: fatal error: 'cmath' file not found
    100 | #include
    | ^~~~~~~
    1 error generated.
    make: *** [RcppExports.o] Error 1
    ERROR: compilation failed for package ‘InSituType’
  • removing ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/InSituType’
    Warning message:
    In i.p(...) :
    installation of package ‘/var/folders/dv/fpbl4h8126jb08v99y8bq5w00000gn/T//RtmptOVE57/filea2395868338f/InSituType_2.0.tar.gz’ had non-zero exit status

Has anyone else encountered this?

Copy link

github-actions bot commented Nov 4, 2024

Thank you for contacting us about our tools! To receive assistance, kindly email [email protected] with detailed information about your issue. If applicable, attach a screenshot of any encountered errors and include a copy of the modified script in Notepad. Our customer support team will help facilitate a review and resolution of the issue.

Thank you for choosing NanoString,
NanoString Dev Team

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant