bschilder
commented
3 years ago It seems that the creators of destiny aren't actively maintaining the Bioconductor distribution anymore...
I've had more success installing it this way:
remotes::install_github("theislab/destiny")Was able to successfully install URD after that (tho i havent tested the functions just yet).
Hi There! I used "BiocManager::install("destiny")" command to install destiny but the following error message appeared, do you know what is the issue? Thanks very much! (I've also attached my Rsession info at the end for reference)
Error message: Bioconductor version 3.12 (BiocManager 1.30.10), R 4.0.2 (2020-06-22) Installing package(s) 'destiny' cannot open URL 'https://bioconductor.org/packages/3.12/data/annotation/bin/macosx/contrib/4.0/PACKAGES.rds': HTTP status was '404 Not Found'cannot open URL 'https://bioconductor.org/packages/3.12/data/annotation/bin/macosx/contrib/4.0/PACKAGES.gz': HTTP status was '404 Not Found'cannot open URL 'https://bioconductor.org/packages/3.12/data/experiment/bin/macosx/contrib/4.0/PACKAGES.rds': HTTP status was '404 Not Found'cannot open URL 'https://bioconductor.org/packages/3.12/data/experiment/bin/macosx/contrib/4.0/PACKAGES.gz': HTTP status was '404 Not Found'cannot open URL 'https://bioconductor.org/packages/3.12/workflows/bin/macosx/contrib/4.0/PACKAGES.rds': HTTP status was '404 Not Found'cannot open URL 'https://bioconductor.org/packages/3.12/workflows/bin/macosx/contrib/4.0/PACKAGES.gz': HTTP status was '404 Not Found'Package which is only available in source form, and may need compilation of C/C++/Fortran: ‘destiny’
my R session info: R version 4.0.2 (2020-06-22) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS 10.16
Matrix products: default LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib
locale: [1] en_GB.UTF-8/en_GB.UTF-8/en_GB.UTF-8/C/en_GB.UTF-8/en_GB.UTF-8
attached base packages: [1] parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages: [1] celldex_1.0.0 SingleR_1.4.1 SC3_1.18.0 clustree_0.4.3
[5] ggraph_2.0.5 harmony_1.0 Rcpp_1.0.6 cowplot_1.1.1
[9] Matrix_1.2-18 forcats_0.5.1 stringr_1.4.0 dplyr_1.0.6
[13] purrr_0.3.4 readr_1.4.0 tidyr_1.1.3 tibble_3.1.1
[17] tidyverse_1.3.0 sctransform_0.3.2 ggplot2_3.3.3 SeuratObject_4.0.1
[21] Seurat_4.0.1 slingshot_1.8.0 princurve_2.1.6 SummarizedExperiment_1.20.0 [25] Biobase_2.50.0 GenomicRanges_1.42.0 GenomeInfoDb_1.24.2 IRanges_2.24.1
[29] S4Vectors_0.28.1 BiocGenerics_0.36.1 MatrixGenerics_1.2.1 matrixStats_0.58.0