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Library loading issue #238
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For context, here is my session Info: Platform: x86_64-apple-darwin20 (64-bit)
Running under: macOS Ventura 13.2
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: America/Chicago
tzcode source: internal
attached base packages:
[1] stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] celldex_1.10.0 SummarizedExperiment_1.30.0 Biobase_2.60.0 GenomicRanges_1.52.0
[5] GenomeInfoDb_1.36.0 IRanges_2.34.0 S4Vectors_0.38.0 BiocGenerics_0.46.0
[9] MatrixGenerics_1.12.0 matrixStats_0.63.0 EnhancedVolcano_1.18.0 ggrepel_0.9.3
[13] ggpubr_0.6.0 harmony_0.1.1 Rcpp_1.0.10 lubridate_1.9.2
[17] forcats_1.0.0 stringr_1.5.0 dplyr_1.1.2 purrr_1.0.1
[21] readr_2.1.4 tidyr_1.3.0 tibble_3.2.1 ggplot2_3.4.2
[25] tidyverse_2.0.0 SeuratObject_4.1.3 Seurat_4.3.0
loaded via a namespace (and not attached):
[1] RcppAnnoy_0.0.20 splines_4.3.0 later_1.3.0 filelock_1.0.2
[5] bitops_1.0-7 polyclip_1.10-4 lifecycle_1.0.3 rstatix_0.7.2
[9] globals_0.16.2 lattice_0.21-8 MASS_7.3-59 backports_1.4.1
[13] magrittr_2.0.3 plotly_4.10.1 yaml_2.3.7 httpuv_1.6.9
[17] sctransform_0.3.5 sp_1.6-0 spatstat.sparse_3.0-1 reticulate_1.28
[21] cowplot_1.1.1 pbapply_1.7-0 DBI_1.1.3 RColorBrewer_1.1-3
[25] abind_1.4-5 zlibbioc_1.46.0 Rtsne_0.16 RCurl_1.98-1.12
[29] rappdirs_0.3.3 GenomeInfoDbData_1.2.10 irlba_2.3.5.1 listenv_0.9.0
[33] spatstat.utils_3.0-2 goftest_1.2-3 spatstat.random_3.1-4 fitdistrplus_1.1-11
[37] parallelly_1.35.0 DelayedMatrixStats_1.22.0 leiden_0.4.3 codetools_0.2-19
[41] DelayedArray_0.25.0 tidyselect_1.2.0 BiocFileCache_2.8.0 spatstat.explore_3.1-0
[45] jsonlite_1.8.4 ellipsis_0.3.2 progressr_0.13.0 ggridges_0.5.4
[49] survival_3.5-5 tools_4.3.0 ica_1.0-3 glue_1.6.2
[53] gridExtra_2.3 withr_2.5.0 BiocManager_1.30.20 fastmap_1.1.1
[57] fansi_1.0.4 digest_0.6.31 timechange_0.2.0 R6_2.5.1
[61] mime_0.12 colorspace_2.1-0 scattermore_0.8 tensor_1.5
[65] spatstat.data_3.0-1 RSQLite_2.3.1 utf8_1.2.3 generics_0.1.3
[69] data.table_1.14.8 httr_1.4.5 htmlwidgets_1.6.2 uwot_0.1.14
[73] pkgconfig_2.0.3 gtable_0.3.3 blob_1.2.4 lmtest_0.9-40
[77] XVector_0.40.0 htmltools_0.5.5 carData_3.0-5 scales_1.2.1
[81] png_0.1-8 rstudioapi_0.14 tzdb_0.3.0 reshape2_1.4.4
[85] curl_5.0.0 nlme_3.1-162 zoo_1.8-12 cachem_1.0.7
[89] BiocVersion_3.17.1 KernSmooth_2.23-20 parallel_4.3.0 miniUI_0.1.1.1
[93] AnnotationDbi_1.62.0 pillar_1.9.0 grid_4.3.0 vctrs_0.6.2
[97] RANN_2.6.1 promises_1.2.0.1 car_3.1-2 dbplyr_2.3.2
[101] xtable_1.8-4 cluster_2.1.4 cli_3.6.1 compiler_4.3.0
[105] rlang_1.1.1 crayon_1.5.2 future.apply_1.10.0 ggsignif_0.6.4
[109] plyr_1.8.8 stringi_1.7.12 viridisLite_0.4.1 deldir_1.0-6
[113] munsell_0.5.0 Biostrings_2.68.0 lazyeval_0.2.2 spatstat.geom_3.1-0
[117] Matrix_1.5-4 ExperimentHub_2.8.0 hms_1.1.3 patchwork_1.1.2
[121] sparseMatrixStats_1.12.0 bit64_4.0.5 future_1.32.0 KEGGREST_1.40.0
[125] shiny_1.7.4 interactiveDisplayBase_1.38.0 AnnotationHub_3.8.0 ROCR_1.0-11
[129] igraph_1.4.2 broom_1.0.4 memoise_2.0.1 bit_4.0.5 ``` |
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Dear SingleR community,
I've recently installed SingleR for annotation of various T-cell subtypes. Although I was able to install via the bioconductor command
BiocManager::install("SingleR")
I haven't been able to load it into R yet. Whenever i run
library(SingleR)
I am faced with the following error:
Error: package or namespace load failed for ‘SingleR’ in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BiocParallel/libs/BiocParallel.so': dlopen(/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BiocParallel/libs/BiocParallel.so, 0x0006): Library not loaded: /Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libR.dylib Referenced from: <BE9EB1DB-DF61-3612-B689-0B341783A2EC> /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/BiocParallel/libs/BiocParallel.so Reason: tried: '/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libR.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libR.dylib' (no such file), '/Library/Frameworks/R.framework/Versions/4.3/Resources/lib/libR.dylib' (no such file), '/usr/local/lib/libR.dylib' (no such file), '/usr/lib/libR.dylib' (no
I have already attempted updating BiocParallel but it unfortunately did not resolve the issue.
Has anyone experienced this error before? Any insight would be greatly appreciated!
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