xcliu-oc
commented
7 years ago i was having same problem as yours, and update to 3.4.1 patched version and solve my issue. https://cran.r-project.org/bin/windows/base/rpatched.html
Open jp089 opened 7 years ago
xcliu-oc
commented
7 years ago i was having same problem as yours, and update to 3.4.1 patched version and solve my issue. https://cran.r-project.org/bin/windows/base/rpatched.html
Dear all,
i couldn't load "minfi", i installed it using:
source("https://bioconductor.org/biocLite.R") biocLite("minfi")
Apparently no errors:
BioC_mirror: https://bioconductor.org Using Bioconductor 3.5 (BiocInstaller 1.26.0), R 3.4.0 (2017-04-21). Installing package(s) ‘minfi’ essai de l'URL 'https://bioconductor.org/packages/3.5/bioc/bin/macosx/el-capitan/contrib/3.4/minfi_1.22.1.tgz' Content type 'application/x-gzip' length 825920 bytes (806 KB)
downloaded 806 KB
The downloaded binary packages are in /var/folders/mf/_xyr2hm93rx845kbc_8hcwwc0000gn/T//RtmpNwrMaY/downloaded_packages
Them when i tried to load it:
library(minfi)
I'm getting:
Le chargement a nécessité le package : bumphunter Error: package or namespace load failed for ‘bumphunter’ in dyn.load(file, DLLpath = DLLpath, ...): impossible de charger l'objet partagé '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so': dlopen(/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so, 6): Library not loaded: /usr/local/opt/openssl/lib/libssl.1.0.0.dylib Referenced from: /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so Reason: image not found Erreur : le package ‘bumphunter’ ne peut être chargé
So i tried reinstalling "bumphunter"
remove.packages("bumphunter")
source("https://bioconductor.org/biocLite.R")
biocLite("bumphunter")
library(bumphunter)
Erreur : package or namespace load failed for ‘bumphunter’ in dyn.load(file, DLLpath = DLLpath, ...): impossible de charger l'objet partagé '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so': dlopen(/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so, 6): Library not loaded: /usr/local/opt/openssl/lib/libssl.1.0.0.dylib Referenced from: /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so Reason: image not found
So i tried reinstalling "rtracklayer"
remove.packages("rtracklayer")
source("https://bioconductor.org/biocLite.R") biocLite("rtracklayer")
library(rtracklayer)
Erreur : package or namespace load failed for ‘rtracklayer’ in dyn.load(file, DLLpath = DLLpath, ...): impossible de charger l'objet partagé '/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so': dlopen(/Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so, 6): Library not loaded: /usr/local/opt/openssl/lib/libssl.1.0.0.dylib Referenced from: /Library/Frameworks/R.framework/Versions/3.4/Resources/library/rtracklayer/libs/rtracklayer.so Reason: image not found
So i checked too for maybe old package using biocValid():
[1] TRUE
So i have no clue how is going on, if some on could help me please.
Thanks.
Jp
R session info sessionInfo()
R version 3.4.0 (2017-04-21) Platform: x86_64-apple-darwin15.6.0 (64-bit) Running under: macOS Sierra 10.12.4
Matrix products: default BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib LAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib
locale: [1] fr_FR.UTF-8/fr_FR.UTF-8/fr_FR.UTF-8/C/fr_FR.UTF-8/fr_FR.UTF-8
attached base packages: [1] stats4 parallel stats graphics grDevices utils datasets methods
[9] base
other attached packages: [1] devtools_1.12.0 tidyr_0.6.2
[3] locfit_1.5-9.1 iterators_1.0.8
[5] foreach_1.4.3 Biostrings_2.44.0
[7] XVector_0.16.0 SummarizedExperiment_1.6.1 [9] DelayedArray_0.2.1 matrixStats_0.52.2
[11] Biobase_2.36.2 GenomicRanges_1.28.1
[13] GenomeInfoDb_1.12.0 IRanges_2.10.0
[15] S4Vectors_0.14.0 BiocGenerics_0.22.0
[17] BiocInstaller_1.26.0
loaded via a namespace (and not attached): [1] doRNG_1.6.6 GenomeInfoDbData_0.99.0 Rsamtools_1.28.0
[4] RSQLite_1.1-2 lattice_0.20-35 digest_0.6.12
[7] Matrix_1.2-10 XML_3.98-1.7 biomaRt_2.32.0
[10] zlibbioc_1.22.0 xtable_1.8-2 BiocParallel_1.10.1
[13] tibble_1.3.0 pkgmaker_0.22 withr_1.0.2
[16] magrittr_1.5 memoise_1.1.0 tools_3.4.0
[19] registry_0.3 stringr_1.2.0 rngtools_1.2.4
[22] AnnotationDbi_1.38.0 compiler_3.4.0 grid_3.4.0
[25] RCurl_1.95-4.8 rstudioapi_0.6 bitops_1.0-6
[28] codetools_0.2-15 DBI_0.6-1 GenomicAlignments_1.12.0 [31] stringi_1.1.5 Rcpp_0.12.10