I went through the normal route of installing spade but it does not work. What I get is:
Input:
install.packages("devtools") library(devtools) devtools::install_github("nolanlab/Rclusterpp") source("http://bioconductor.org/biocLite.R") devtools::install_github("nolanlab/spade")
It stops at 'devtools::install_github("nolanlab/Rclusterpp")' and outputs
'Downloading GitHub repo nolanlab/Rclusterpp@master
✔ checking for file ‘/private/var/folders/vc/gqsl970d67q7d0y2b5zx47x80000gn/T/Rtmpy5uC0L/remotes7f8f5889b2a/nolanlab-Rclusterpp-740cb0b/DESCRIPTION’ ...
─ preparing ‘Rclusterpp’:
✔ checking DESCRIPTION meta-information ...
─ cleaning src
─ running ‘cleanup’
─ checking for LF line-endings in source and make files and shell scripts
─ checking for empty or unneeded directories
─ building ‘Rclusterpp_0.2.4.tar.gz’
removing ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/Rclusterpp’
Error: Failed to install 'Rclusterpp' from GitHub:
(converted from warning) installation of package ‘/var/folders/vc/gqsl970d67q7d0y2b5zx47x80000gn/T//Rtmpy5uC0L/file7f8f7e97ecde/Rclusterpp_0.2.4.tar.gz’ had non-zero exit status'
Session info is 'R version 3.6.0 (2019-04-26)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Mojave 10.14
Hi all,
I went through the normal route of installing spade but it does not work. What I get is: Input:
install.packages("devtools") library(devtools) devtools::install_github("nolanlab/Rclusterpp") source("http://bioconductor.org/biocLite.R") devtools::install_github("nolanlab/spade")It stops at 'devtools::install_github("nolanlab/Rclusterpp")' and outputs
'Downloading GitHub repo nolanlab/Rclusterpp@master ✔ checking for file ‘/private/var/folders/vc/gqsl970d67q7d0y2b5zx47x80000gn/T/Rtmpy5uC0L/remotes7f8f5889b2a/nolanlab-Rclusterpp-740cb0b/DESCRIPTION’ ... ─ preparing ‘Rclusterpp’: ✔ checking DESCRIPTION meta-information ... ─ cleaning src ─ running ‘cleanup’ ─ checking for LF line-endings in source and make files and shell scripts ─ checking for empty or unneeded directories ─ building ‘Rclusterpp_0.2.4.tar.gz’
Session info is 'R version 3.6.0 (2019-04-26) Platform: x86_64-apple-darwin15.6.0 (64-bit) Running under: macOS Mojave 10.14
Matrix products: default BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
Random number generation: RNG: Mersenne-Twister Normal: Inversion Sample: Rounding
locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages: [1] stats graphics grDevices utils datasets methods base
other attached packages: [1] devtools_2.1.0 usethis_1.5.1 flowWorkspace_3.32.0 ncdfFlow_2.30.1
[5] BH_1.69.0-1 RcppArmadillo_0.9.500.2.0 flowCore_1.50.0
loaded via a namespace (and not attached): [1] Rcpp_1.0.1 mvtnorm_1.0-11 lattice_0.20-38 corpcor_1.6.9 prettyunits_1.0.2
[6] ps_1.3.0 rprojroot_1.3-2 assertthat_0.2.1 digest_0.6.20 R6_2.4.0
[11] backports_1.1.4 stats4_3.6.0 pcaPP_1.9-73 pillar_1.4.2 zlibbioc_1.30.0
[16] rlang_0.4.0 curl_3.3 rstudioapi_0.10 data.table_1.12.2 callr_3.3.0
[21] Rgraphviz_2.28.0 hexbin_1.27.3 desc_1.2.0 stringr_1.4.0 munsell_0.5.0
[26] compiler_3.6.0 pkgconfig_2.0.2 BiocGenerics_0.30.0 pkgbuild_1.0.3 IDPmisc_1.1.19
[31] tidyselect_0.2.5 tibble_2.1.3 gridExtra_2.3 matrixStats_0.54.0 withr_2.1.2
[36] flowViz_1.48.0 rrcov_1.4-7 crayon_1.3.4 dplyr_0.8.3 MASS_7.3-51.4
[41] grid_3.6.0 gtable_0.3.0 magrittr_1.5 scales_1.0.0 graph_1.62.0
[46] RcppParallel_4.4.3 KernSmooth_2.23-15 cli_1.1.0 stringi_1.4.3 remotes_2.1.0
[51] fs_1.3.1 testthat_2.1.1 latticeExtra_0.6-28 robustbase_0.93-5 RColorBrewer_1.1-2 [56] tools_3.6.0 Biobase_2.44.0 glue_1.3.1 DEoptimR_1.0-8 purrr_0.3.2
[61] pkgload_1.0.2 processx_3.4.0 parallel_3.6.0 colorspace_1.4-1 cluster_2.1.0
[66] sessioninfo_1.1.1 memoise_1.1.0 '