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This page was generated on 2025-01-11 11:45 -0500 (Sat, 11 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4760
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4479
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4443
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4398
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4391
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 891/2277HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gpuMagic 1.23.0  (landing page)
Jiefei Wang
Snapshot Date: 2025-01-10 13:40 -0500 (Fri, 10 Jan 2025)
git_url: https://git.bioconductor.org/packages/gpuMagic
git_branch: devel
git_last_commit: 06a3340
git_last_commit_date: 2024-10-29 10:37:03 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  ERROR    ERROR  skipped
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  ERROR    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  ERROR    ERROR  skippedskipped
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  ERROR    ERROR  skipped

INSTALL results for gpuMagic on kjohnson3

To the developers/maintainers of the gpuMagic package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gpuMagic.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: gpuMagic
Version: 1.23.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL gpuMagic
StartedAt: 2025-01-10 15:13:10 -0500 (Fri, 10 Jan 2025)
EndedAt: 2025-01-10 15:13:12 -0500 (Fri, 10 Jan 2025)
EllapsedTime: 1.5 seconds
RetCode: 1
Status:   ERROR  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL gpuMagic
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘gpuMagic’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using C++11
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/Library/Frameworks/R.framework/Resources/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS  -DCL_SILENCE_DEPRECATION -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c C_Interface.cpp -o C_Interface.o
C_Interface.cpp:16:21: error: use of undeclared identifier 'ScalarInteger'; did you mean 'Rf_ScalarInteger'?
        SEXP platformNum = ScalarInteger(kernelManager::getPlatformNum());
                           ^~~~~~~~~~~~~
                           Rf_ScalarInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1125:7: note: 'Rf_ScalarInteger' declared here
SEXP     Rf_ScalarInteger(int);
         ^
C_Interface.cpp:22:61: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        SEXP deviceNum = ScalarInteger(kernelManager::getDeviceNum(asInteger(platform)));
                                                                   ^~~~~~~~~
                                                                   Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:22:19: error: use of undeclared identifier 'ScalarInteger'; did you mean 'Rf_ScalarInteger'?
        SEXP deviceNum = ScalarInteger(kernelManager::getDeviceNum(asInteger(platform)));
                         ^~~~~~~~~~~~~
                         Rf_ScalarInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1125:7: note: 'Rf_ScalarInteger' declared here
SEXP     Rf_ScalarInteger(int);
         ^
C_Interface.cpp:28:26: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        deviceIdentifier id = { asInteger(platform) ,asInteger(device) };
                                ^~~~~~~~~
                                Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:28:47: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        deviceIdentifier id = { asInteger(platform) ,asInteger(device) };
                                                     ^~~~~~~~~
                                                     Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:30:24: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
        SEXP info_R = PROTECT(allocVector(VECSXP, 8));
                              ^~~~~~~~~~~
                              Rf_allocVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1078:10: note: 'Rf_allocVector' declared here
SEXP     Rf_allocVector(SEXPTYPE, R_xlen_t);
         ^
C_Interface.cpp:32:36: error: use of undeclared identifier 'mkString'
        SET_VECTOR_ELT(info_R, 0, PROTECT(mkString(info.device_name.c_str())));
                                          ^
C_Interface.cpp:33:36: error: use of undeclared identifier 'ScalarInteger'; did you mean 'Rf_ScalarInteger'?
        SET_VECTOR_ELT(info_R, 1, PROTECT(ScalarInteger(info.device_type)));
                                          ^~~~~~~~~~~~~
                                          Rf_ScalarInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1125:7: note: 'Rf_ScalarInteger' declared here
SEXP     Rf_ScalarInteger(int);
         ^
C_Interface.cpp:34:36: error: use of undeclared identifier 'ScalarReal'; did you mean 'Rf_ScalarReal'?
        SET_VECTOR_ELT(info_R, 2, PROTECT(ScalarReal(info.global_memory)));
                                          ^~~~~~~~~~
                                          Rf_ScalarReal
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1128:7: note: 'Rf_ScalarReal' declared here
SEXP     Rf_ScalarReal(double);
         ^
C_Interface.cpp:35:36: error: use of undeclared identifier 'ScalarReal'; did you mean 'Rf_ScalarReal'?
        SET_VECTOR_ELT(info_R, 3, PROTECT(ScalarReal(info.local_memory)));
                                          ^~~~~~~~~~
                                          Rf_ScalarReal
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1128:7: note: 'Rf_ScalarReal' declared here
SEXP     Rf_ScalarReal(double);
         ^
C_Interface.cpp:36:36: error: use of undeclared identifier 'ScalarLogical'; did you mean 'Rf_ScalarLogical'?
        SET_VECTOR_ELT(info_R, 4, PROTECT(ScalarLogical(info.has_local_memory)));
                                          ^~~~~~~~~~~~~
                                          Rf_ScalarLogical
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1126:7: note: 'Rf_ScalarLogical' declared here
SEXP     Rf_ScalarLogical(int);
         ^
C_Interface.cpp:37:36: error: use of undeclared identifier 'mkString'
        SET_VECTOR_ELT(info_R, 5, PROTECT(mkString(info.opencl_version.c_str())));
                                          ^
C_Interface.cpp:38:36: error: use of undeclared identifier 'ScalarInteger'; did you mean 'Rf_ScalarInteger'?
        SET_VECTOR_ELT(info_R, 6, PROTECT(ScalarInteger(info.compute_unit_num)));
                                          ^~~~~~~~~~~~~
                                          Rf_ScalarInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1125:7: note: 'Rf_ScalarInteger' declared here
SEXP     Rf_ScalarInteger(int);
         ^
C_Interface.cpp:39:36: error: use of undeclared identifier 'ScalarInteger'; did you mean 'Rf_ScalarInteger'?
        SET_VECTOR_ELT(info_R, 7, PROTECT(ScalarInteger(info.work_group_size)));
                                          ^~~~~~~~~~~~~
                                          Rf_ScalarInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:388:31: note: expanded from macro 'PROTECT'
#define PROTECT(s)      Rf_protect(s)
                                   ^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:1125:7: note: 'Rf_ScalarInteger' declared here
SEXP     Rf_ScalarInteger(int);
         ^
C_Interface.cpp:41:2: error: use of undeclared identifier 'unprotect'
        unprotect(9);
        ^
C_Interface.cpp:48:26: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        deviceIdentifier id = { asInteger(platform) ,asInteger(device) };
                                ^~~~~~~~~
                                Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:48:47: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        deviceIdentifier id = { asInteger(platform) ,asInteger(device) };
                                                     ^~~~~~~~~
                                                     Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:49:26: error: use of undeclared identifier 'asInteger'; did you mean 'Rf_asInteger'?
        dtype dataType = (dtype)asInteger(type);
                                ^~~~~~~~~
                                Rf_asInteger
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:487:5: note: 'Rf_asInteger' declared here
int Rf_asInteger(SEXP x);
    ^
C_Interface.cpp:50:22: error: use of undeclared identifier 'asReal'
        size_t dataLength = asReal(length);
                            ^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
make: *** [C_Interface.o] Error 1
ERROR: compilation failed for package ‘gpuMagic’
* removing ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/gpuMagic’