CRAN Package Check Results for Package RcppPlanc

Last updated on 2025-04-12 20:51:55 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	2.0.3	32.27	2.12	34.39	ERROR
r-devel-linux-x86_64-debian-gcc	2.0.3	136.59	0.02	136.61	FAIL
r-devel-linux-x86_64-fedora-gcc	2.0.3			7.21	ERROR
r-devel-macos-arm64	2.0.3			133.00	OK
r-devel-macos-x86_64	2.0.3			335.00	OK
r-devel-windows-x86_64	2.0.3	614.00	344.00	958.00	OK
r-patched-linux-x86_64	2.0.3	188.13	0.02	188.15	FAIL
r-release-linux-x86_64	2.0.3				FAIL
r-release-macos-arm64	2.0.3			153.00	NOTE
r-release-macos-x86_64	2.0.3			281.00	NOTE
r-release-windows-x86_64	2.0.3	583.00	471.00	1054.00	NOTE
r-oldrel-macos-arm64	2.0.3			137.00	NOTE
r-oldrel-macos-x86_64	2.0.3			291.00	NOTE
r-oldrel-windows-x86_64	2.0.3	545.00	450.00	995.00	NOTE

Additional issues

gcc15

Check Details

Version: 2.0.3
Check: whether package can be installed
Result: ERROR Installation failed. Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-fedora-gcc

Version: 2.0.3
Check: examples
Result: ERROR Running examples in ‘RcppPlanc-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: onlineINMF > ### Title: Perform Integrative Non-negative Matrix Factorization Using > ### Online Learning > ### Aliases: onlineINMF > > ### ** Examples > > library(Matrix) > > # Scenario 1 with sparse matrices > set.seed(1) > res1 <- onlineINMF(list(ctrl.sparse, stim.sparse), + minibatchSize = 50, k = 10, verbose = FALSE) > > # Scenario 2 with H5 dense matrices > h5dense1 <- H5Mat(filename = system.file("extdata", "ctrl_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > h5dense2 <- H5Mat(filename = system.file("extdata", "stim_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > res2 <- onlineINMF(list(ctrl = h5dense1), minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 > res3 <- onlineINMF(list(ctrl = h5dense1), + newDatasets = list(stim = h5dense2), + Hinit = res2$H, Vinit = res2$V, Winit = res2$W, + Ainit = res2$A, Binit = res2$B, + minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/RcppPlanc/extdata/stim_dense.h5 Mat path: scaleData Dimension: 173 x 300 > > # Scenario 3 with H5 sparse matrices > h5sparse1 <- H5SpMat(filename = system.file("extdata", "ctrl_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(ctrl.sparse), + ncol = ncol(ctrl.sparse)) > h5sparse2 <- H5SpMat(filename = system.file("extdata", "stim_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(stim.sparse), + ncol = nrow(stim.sparse)) > res4 <- onlineINMF(list(ctrl = h5sparse1), minibatchSize = 50, k = 10, verbose = FALSE) Error in .onlineINMF_h5sparse(sapply(objectList, function(x) x$filename), : HDF5-API Errors: error #000: ../../../src/H5F.c in H5Fopen(): line 827: unable to synchronously open file class: HDF5 major: File accessibility minor: Unable to open file error #001: ../../../src/H5F.c in H5F__open_api_common(): line 788: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #002: ../../../src/H5VLcallback.c in H5VL_file_open(): line 3680: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #003: ../../../src/H5VLcallback.c in H5VL__file_open(): line 3514: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #004: ../../../src/H5VLnative_file.c in H5VL__native_file_open(): line 128: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #005: ../../../src/H5Fint.c in H5F_open(): lin Calls: onlineINMF -> .onlineINMF_h5sparse Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 2.0.3
Check: tests
Result: FAIL
Flavors: r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 2.0.3
Check: examples
Result: ERROR Running examples in ‘RcppPlanc-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: onlineINMF > ### Title: Perform Integrative Non-negative Matrix Factorization Using > ### Online Learning > ### Aliases: onlineINMF > > ### ** Examples > > library(Matrix) > > # Scenario 1 with sparse matrices > set.seed(1) > res1 <- onlineINMF(list(ctrl.sparse, stim.sparse), + minibatchSize = 50, k = 10, verbose = FALSE) > > # Scenario 2 with H5 dense matrices > h5dense1 <- H5Mat(filename = system.file("extdata", "ctrl_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > h5dense2 <- H5Mat(filename = system.file("extdata", "stim_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > res2 <- onlineINMF(list(ctrl = h5dense1), minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 > res3 <- onlineINMF(list(ctrl = h5dense1), + newDatasets = list(stim = h5dense2), + Hinit = res2$H, Vinit = res2$V, Winit = res2$W, + Ainit = res2$A, Binit = res2$B, + minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/RcppPlanc/extdata/stim_dense.h5 Mat path: scaleData Dimension: 173 x 300 > > # Scenario 3 with H5 sparse matrices > h5sparse1 <- H5SpMat(filename = system.file("extdata", "ctrl_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(ctrl.sparse), + ncol = ncol(ctrl.sparse)) > h5sparse2 <- H5SpMat(filename = system.file("extdata", "stim_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(stim.sparse), + ncol = nrow(stim.sparse)) > res4 <- onlineINMF(list(ctrl = h5sparse1), minibatchSize = 50, k = 10, verbose = FALSE) Error in .onlineINMF_h5sparse(sapply(objectList, function(x) x$filename), : HDF5-API Errors: error #000: ../../../src/H5F.c in H5Fopen(): line 827: unable to synchronously open file class: HDF5 major: File accessibility minor: Unable to open file error #001: ../../../src/H5F.c in H5F__open_api_common(): line 788: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #002: ../../../src/H5VLcallback.c in H5VL_file_open(): line 3680: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #003: ../../../src/H5VLcallback.c in H5VL__file_open(): line 3514: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #004: ../../../src/H5VLnative_file.c in H5VL__native_file_open(): line 128: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #005: ../../../src/H5Fint.c in H5F_open(): lin Calls: onlineINMF -> .onlineINMF_h5sparse Execution halted Flavor: r-patched-linux-x86_64

Version: 2.0.3
Check: examples
Result: ERROR Running examples in ‘RcppPlanc-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: onlineINMF > ### Title: Perform Integrative Non-negative Matrix Factorization Using > ### Online Learning > ### Aliases: onlineINMF > > ### ** Examples > > library(Matrix) > > # Scenario 1 with sparse matrices > set.seed(1) > res1 <- onlineINMF(list(ctrl.sparse, stim.sparse), + minibatchSize = 50, k = 10, verbose = FALSE) > > # Scenario 2 with H5 dense matrices > h5dense1 <- H5Mat(filename = system.file("extdata", "ctrl_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > h5dense2 <- H5Mat(filename = system.file("extdata", "stim_dense.h5", + package = "RcppPlanc", mustWork = TRUE), + dataPath = "scaleData") > res2 <- onlineINMF(list(ctrl = h5dense1), minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 > res3 <- onlineINMF(list(ctrl = h5dense1), + newDatasets = list(stim = h5dense2), + Hinit = res2$H, Vinit = res2$V, Winit = res2$W, + Ainit = res2$A, Binit = res2$B, + minibatchSize = 50, k = 10, verbose = FALSE) ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppPlanc/extdata/ctrl_dense.h5 Mat path: scaleData Dimension: 173 x 300 ==H5Mat constructed== H5File: /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/RcppPlanc/extdata/stim_dense.h5 Mat path: scaleData Dimension: 173 x 300 > > # Scenario 3 with H5 sparse matrices > h5sparse1 <- H5SpMat(filename = system.file("extdata", "ctrl_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(ctrl.sparse), + ncol = ncol(ctrl.sparse)) > h5sparse2 <- H5SpMat(filename = system.file("extdata", "stim_sparse.h5", + package = "RcppPlanc", mustWork = TRUE), + valuePath = "scaleDataSparse/data", + rowindPath = "scaleDataSparse/indices", + colptrPath = "scaleDataSparse/indptr", + nrow = nrow(stim.sparse), + ncol = nrow(stim.sparse)) > res4 <- onlineINMF(list(ctrl = h5sparse1), minibatchSize = 50, k = 10, verbose = FALSE) Error in .onlineINMF_h5sparse(sapply(objectList, function(x) x$filename), : HDF5-API Errors: error #000: ../../../src/H5F.c in H5Fopen(): line 827: unable to synchronously open file class: HDF5 major: File accessibility minor: Unable to open file error #001: ../../../src/H5F.c in H5F__open_api_common(): line 788: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #002: ../../../src/H5VLcallback.c in H5VL_file_open(): line 3680: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #003: ../../../src/H5VLcallback.c in H5VL__file_open(): line 3514: open failed class: HDF5 major: Virtual Object Layer minor: Can't open object error #004: ../../../src/H5VLnative_file.c in H5VL__native_file_open(): line 128: unable to open file class: HDF5 major: File accessibility minor: Unable to open file error #005: ../../../src/H5Fint.c in H5F_open(): lin Calls: onlineINMF -> .onlineINMF_h5sparse Execution halted Flavor: r-release-linux-x86_64

Version: 2.0.3
Check: installed package size
Result: NOTE installed size is 33.1Mb sub-directories of 1Mb or more: lib 5.3Mb libs 25.7Mb Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 2.0.3
Check: for GNU extensions in Makefiles
Result: NOTE GNU make is a SystemRequirements. Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64