McCall N. Matthew
| Snapshot Date: 2024-12-11 13:40 -0500 (Wed, 11 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) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-12-12 11:46 -0500 (Thu, 12 Dec 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4752 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4464 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4415 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4370 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4279 |
| 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 2115/2273 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ternarynet 1.51.0 (landing page) McCall N. Matthew
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the ternarynet package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to [email protected]: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. |
| Package: ternarynet |
| Version: 1.51.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ternarynet |
| StartedAt: 2024-12-11 17:46:38 -0500 (Wed, 11 Dec 2024) |
| EndedAt: 2024-12-11 17:46:40 -0500 (Wed, 11 Dec 2024) |
| EllapsedTime: 2.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
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###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data ternarynet
###
##############################################################################
##############################################################################
* checking for file ‘ternarynet/DESCRIPTION’ ... OK
* preparing ‘ternarynet’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to build vignettes
-----------------------------------
* 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 ‘/private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpiSiU1q/Rinst32ef7a251cdc/ternarynet’
-----------------------------------
ERROR: package installation failed