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This page was generated on 2024-12-23 11:46 -0500 (Mon, 23 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4372
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 2116/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ternarynet 1.51.0  (landing page)
McCall N. Matthew
Snapshot Date: 2024-12-22 13:40 -0500 (Sun, 22 Dec 2024)
git_url: https://git.bioconductor.org/packages/ternarynet
git_branch: devel
git_last_commit: 251d20a
git_last_commit_date: 2024-10-29 09:40:14 -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 ternarynet on kjohnson3

To the developers/maintainers of the ternarynet package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ternarynet.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: ternarynet
Version: 1.51.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ternarynet
StartedAt: 2024-12-22 15:09:11 -0500 (Sun, 22 Dec 2024)
EndedAt: 2024-12-22 15:09:12 -0500 (Sun, 22 Dec 2024)
EllapsedTime: 1.1 seconds
RetCode: 1
Status:   ERROR  

Command output

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘ternarynet’ ...
** using staged installation
** libs
using C compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c array.c -o array.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c gn.c -o gn.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c gn_Rwrap.c -o gn_Rwrap.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c init.c -o init.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c tnetfit.cc -o tnetfit.o
tnetfit.cc:35:32: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    perturbationType = INTEGER(coerceVector(RperturbationType, INTSXP))[0];
                               ^~~~~~~~~~~~
                               Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:36:25: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    scoreType = INTEGER(coerceVector(RscoreType, INTSXP))[0];
                        ^~~~~~~~~~~~
                        Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:37:27: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    backupStage = INTEGER(coerceVector(RbackupStage, INTSXP))[0];
                          ^~~~~~~~~~~~
                          Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:38:24: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    maxStage = INTEGER(coerceVector(RmaxStage, INTSXP))[0];
                       ^~~~~~~~~~~~
                       Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:39:29: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    maxTransition = INTEGER(coerceVector(RmaxTransition, INTSXP))[0];
                            ^~~~~~~~~~~~
                            Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:41:20: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    beta = INTEGER(coerceVector(Rbeta, INTSXP))[0];
                   ^~~~~~~~~~~~
                   Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:44:18: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    ne = INTEGER(coerceVector(Rne, INTSXP))[0];
                 ^~~~~~~~~~~~
                 Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:45:18: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    m0 = INTEGER(coerceVector(Rm0, INTSXP))[0];
                 ^~~~~~~~~~~~
                 Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:46:25: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    maxDegree = INTEGER(coerceVector(RmaxDegree, INTSXP))[0];
                        ^~~~~~~~~~~~
                        Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:49:30: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    neighborDegree = INTEGER(coerceVector(RneighborDegree, INTSXP))[0];
                             ^~~~~~~~~~~~
                             Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:51:21: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    nGene = INTEGER(coerceVector(RnGene, INTSXP))[0];
                    ^~~~~~~~~~~~
                    Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:52:27: error: use of undeclared identifier 'coerceVector'; did you mean 'Rf_coerceVector'?
    nExperiment = INTEGER(coerceVector(RnExperiment, INTSXP))[0];
                          ^~~~~~~~~~~~
                          Rf_coerceVector
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:482:6: note: 'Rf_coerceVector' declared here
SEXP Rf_coerceVector(SEXP, SEXPTYPE);
     ^
tnetfit.cc:220:23: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(Routput = allocVector(VECSXP, 14));
                      ^~~~~~~~~~~
                      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);
         ^
tnetfit.cc:223:26: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RdegreeObj = allocVector(INTSXP, nGene));
                         ^~~~~~~~~~~
                         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);
         ^
tnetfit.cc:229:25: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RgraphObj = allocVector(INTSXP, nGene*nGene));
                        ^~~~~~~~~~~
                        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);
         ^
tnetfit.cc:242:25: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RtableObj = allocVector(INTSXP, tableWidth*nGene));
                        ^~~~~~~~~~~
                        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);
         ^
tnetfit.cc:256:29: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RdegreeObjMin = allocVector(INTSXP, nGene));
                            ^~~~~~~~~~~
                            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);
         ^
tnetfit.cc:262:28: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RgraphObjMin = allocVector(INTSXP, nGene*nGene));
                           ^~~~~~~~~~~
                           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);
         ^
tnetfit.cc:275:28: error: use of undeclared identifier 'allocVector'; did you mean 'Rf_allocVector'?
    PROTECT(RtableObjMin = allocVector(INTSXP, tableWidth*nGene));
                           ^~~~~~~~~~~
                           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);
         ^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
make: *** [tnetfit.o] Error 1
ERROR: compilation failed for package ‘ternarynet’
* removing ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/ternarynet’