library(CATALYST) Error

[yutingdai1125]

when I library(CATALYST)，I have this error： Error: package or namespace load failed for ‘CATALYST’: object ‘initializeCpp’ is not exported by 'namespace:beachmat'。 but when I packageVersion("CATALYST"), I have this result: [1] ‘1.26.0’ Please tell me know how to solve this problem? Thanks.

Here is my session info:

R version 4.3.2 (2023-10-31) Platform: x86_64-conda-linux-gnu (64-bit) Running under: CentOS Linux 7 (Core)

Matrix products: default

locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

time zone: Asia/Shanghai tzcode source: system (glibc)

attached base packages: [1] stats4 stats graphics grDevices utils datasets methods [8] base

other attached packages: [1] Matrix_1.6-1.1 beachmat_2.18.0 [3] RColorBrewer_1.1-3 dittoSeq_1.14.0 [5] lubridate_1.9.3 forcats_1.0.0 [7] stringr_1.5.0 dplyr_1.1.3 [9] purrr_1.0.2 readr_2.1.4 [11] tidyr_1.3.0 tibble_3.2.1 [13] ggplot2_3.4.4 tidyverse_2.0.0 [15] cytomapper_1.12.0 EBImage_4.42.0 [17] imcRtools_1.6.3 SpatialExperiment_1.10.0 [19] SingleCellExperiment_1.22.0 SummarizedExperiment_1.30.2 [21] Biobase_2.60.0 GenomicRanges_1.52.0 [23] GenomeInfoDb_1.36.1 IRanges_2.34.1 [25] S4Vectors_0.38.1 BiocGenerics_0.46.0 [27] MatrixGenerics_1.12.2 matrixStats_1.0.0

loaded via a namespace (and not attached): [1] bitops_1.0-7 sf_1.0-14 [3] doParallel_1.0.17 tools_4.3.2 [5] backports_1.4.1 utf8_1.2.4 [7] R6_2.5.1 DT_0.28 [9] HDF5Array_1.28.1 rhdf5filters_1.12.1 [11] GetoptLong_1.0.5 withr_2.5.2 [13] sp_2.1-1 gridExtra_2.3 [15] cli_3.6.1 archive_1.1.6 [17] sandwich_3.0-2 labeling_0.4.3 [19] nnls_1.5 mvtnorm_1.2-3 [21] proxy_0.4-27 ggridges_0.5.4 [23] systemfonts_1.0.5 colorRamps_2.3.1 [25] svglite_2.1.2 R.utils_2.12.2 [27] plotrix_3.8-3 limma_3.56.2 [29] flowCore_2.14.0 generics_0.1.3 [31] shape_1.4.6 gtools_3.9.4 [33] vroom_1.6.4 car_3.1-2 [35] RProtoBufLib_2.14.0 ggbeeswarm_0.7.2 [37] fansi_1.0.5 abind_1.4-5 [39] R.methodsS3_1.8.2 terra_1.7-55 [41] lifecycle_1.0.3 multcomp_1.4-25 [43] edgeR_3.42.4 carData_3.0-5 [45] rhdf5_2.44.0 SparseArray_1.2.0 [47] Rtsne_0.16 grid_4.3.2 [49] promises_1.2.1 dqrng_0.3.1 [51] crayon_1.5.2 shinydashboard_0.7.2 [53] lattice_0.22-5 cowplot_1.1.1 [55] magick_2.8.1 pillar_1.9.0 [57] ComplexHeatmap_2.18.0 RTriangle_1.6-0.12 [59] rjson_0.2.21 codetools_0.2-19 [61] glue_1.6.2 data.table_1.14.8 [63] vctrs_0.6.4 png_0.1-8 [65] gtable_0.3.4 S4Arrays_1.2.0 [67] mime_0.12 DropletUtils_1.20.0 [69] tidygraph_1.2.3 ConsensusClusterPlus_1.66.0 [71] survival_3.5-7 pheatmap_1.0.12 [73] iterators_1.0.14 cytolib_2.14.0 [75] units_0.8-4 ellipsis_0.3.2 [77] TH.data_1.1-2 bit64_4.0.5 [79] svgPanZoom_0.3.4 vipor_0.4.5 [81] KernSmooth_2.23-22 colorspace_2.1-0 [83] DBI_1.1.3 raster_3.6-26 [85] tidyselect_1.2.0 bit_4.0.5 [87] compiler_4.3.2 BiocNeighbors_1.18.0 [89] DelayedArray_0.28.0 scales_1.2.1 [91] classInt_0.4-10 distances_0.1.9 [93] tiff_0.1-11 digest_0.6.33 [95] fftwtools_0.9-11 XVector_0.40.0 [97] htmltools_0.5.7 pkgconfig_2.0.3 [99] jpeg_0.1-10 sparseMatrixStats_1.12.2 [101] fastmap_1.1.1 rlang_1.1.2 [103] GlobalOptions_0.1.2 htmlwidgets_1.6.2 [105] shiny_1.7.5.1 DelayedMatrixStats_1.22.1 [107] farver_2.1.1 zoo_1.8-12 [109] BiocParallel_1.34.2 R.oo_1.25.0 [111] RCurl_1.98-1.13 magrittr_2.0.3 [113] scuttle_1.10.1 GenomeInfoDbData_1.2.10 [115] Rhdf5lib_1.22.0 munsell_0.5.0 [117] Rcpp_1.0.11 ggnewscale_0.4.9 [119] viridis_0.6.4 stringi_1.7.12 [121] ggraph_2.1.0 zlibbioc_1.46.0 [123] MASS_7.3-60 plyr_1.8.9 [125] parallel_4.3.2 ggrepel_0.9.4 [127] graphlayouts_1.0.2 splines_4.3.2 [129] hms_1.1.3 circlize_0.4.15 [131] locfit_1.5-9.8 igraph_1.5.1 [133] ggpubr_0.6.0 ggsignif_0.6.4 [135] reshape2_1.4.4 ScaledMatrix_1.10.0 [137] XML_3.99-0.15 drc_3.0-1 [139] BiocManager_1.30.22 tzdb_0.4.0 [141] foreach_1.5.2 tweenr_2.0.2 [143] httpuv_1.6.12 polyclip_1.10-6 [145] clue_0.3-65 ggforce_0.4.1 [147] broom_1.0.5 xtable_1.8-4 [149] e1071_1.7-13 rstatix_0.7.2 [151] later_1.3.1 viridisLite_0.4.2 [153] class_7.3-22 FlowSOM_2.10.0 [155] beeswarm_0.4.0 cluster_2.1.4 [157] timechange_0.2.0 concaveman_1.1.0

[HelenaLC]

Can't reproduce this on my system- could you try BiocManager::install() to assure everything's up to date and in synch with the current release?

[HelenaLC]

closing due to inactivity