(已解決)library(DESeq2)錯誤:Error in loadNamespace: no package called ""s

[Iris.c]

Hi all,

library(DESeq2)時產生以下錯誤訊息：

    

   Loading required package: S4Vectors

   Loading required package: stats4

   Loading required package: BiocGenerics

   Loading required package: parallel

    Attaching package: ‘BiocGenerics’

    The following objects are masked from ‘package:parallel’:

       clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,

       clusterExport, clusterMap, parApply, parCapply, parLapply,

       parLapplyLB, parRapply, parSapply, parSapplyLB

    The following objects are masked from ‘package:stats’:

        IQR, mad, xtabs

    The following objects are masked from ‘package:base’:

       anyDuplicated, append, as.data.frame, cbind, colnames, do.call,

       duplicated, eval, evalq, Filter, Find, get, grep, grepl, intersect,

       is.unsorted, lapply, lengths, Map, mapply, match, mget, order,

       paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind,

       Reduce, rownames, sapply, setdiff, sort, table, tapply, union,

       unique, unsplit, which, which.max, which.min

    Attaching package: ‘S4Vectors’

    The following objects are masked from ‘package:base’:

        colMeans, colSums, expand.grid, rowMeans, rowSums

   Loading required package: IRanges

   Loading required package: GenomicRanges

   Loading required package: GenomeInfoDb

   Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :

      there is no package called ‘RCurl’

   In addition: Warning messages:

    1: package ‘DESeq2’ was built under R version 3.3.2

    2: package ‘S4Vectors’ was built under R version 3.3.3

    3: package ‘BiocGenerics’ was built under R version 3.3.1

    4: package ‘IRanges’ was built under R version 3.3.3

    5: package ‘GenomicRanges’ was built under R version 3.3.3

    6: package ‘GenomeInfoDb’ was built under R version 3.3.2

    Error: package ‘GenomeInfoDb’ could not be loaded

嘗試安裝Rcurl (install.packages("RCurl")) 在library一次後仍跳出類似的找不到package的錯誤訊息，如下：

    

   Loading required package: GenomicRanges

   Loading required package: GenomeInfoDb

   Loading required package: SummarizedExperiment

   Loading required package: Biobase

   Welcome to Bioconductor

        Vignettes contain introductory material; view with

       'browseVignettes()'. To cite Bioconductor, see

       'citation("Biobase")', and for packages 'citation("pkgname")'.

    Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :

      there is no package called ‘Hmisc’

   In addition: Warning messages:

    1: package ‘DESeq2’ was built under R version 3.3.2

    2: package ‘GenomicRanges’ was built under R version 3.3.3

    3: package ‘GenomeInfoDb’ was built under R version 3.3.2

    4: package ‘SummarizedExperiment’ was built under R version 3.3.1

    5: package ‘Biobase’ was built under R version 3.3.1

    Error: package or namespace load failed for ‘DESeq2’

因為使用下載其他package時也一直遇到類似問題，所以想可能主要原因不是錯誤訊息裡提到的找不到package或package無法載入這些原因，大家是否知道可以如何處理這樣的問題。

以下是我的電腦, R及RStudio版本：

macOS Mojave 10.14.3

R 3.3.0

RStudio 1.2.1335

任何意見皆萬分感激，謝謝。

[WEPA ^_^]

Hi Iris,

剛才在 Mac 10.12.6 的OS之中, 使用R-3.5.3 安裝多次, 都會有類似的錯誤, 最後將R/RStudio 都更新至最新版本(R-3.6.0, RStudio-1.2.1335), 則使用以下指令即可安裝:

if (!requireNamespace("BiocManager", quietly = TRUE))

  install.packages("BiocManager")

BiocManager::install("DESeq2")

# 測試畫面1

# 測試畫面2: 輸入 Yes 就是要安裝

# 測試畫面3: 輸入 a 全部更新

# 測試畫面4: plotMA{DESeq2} 可以繪圖

# 完整測試程式

# title: mac install DESeq2 package

# date: 2019.5.20

# 舊版安裝會有問題，將R更新至最新版R-3.6.0, RStudio更新至最新版RStudio-1.2.1335

# 作業系統與R版本

sessionInfo()

# 安裝DESeq2套件

if (!requireNamespace("BiocManager", quietly = TRUE))

  install.packages("BiocManager")

BiocManager::install("DESeq2")

# 線上說明

browseVignettes("DESeq2")

# 測試DESeq2套件

library(DESeq2)

dds <- makeExampleDESeqDataSet()

dds <- DESeq(dds)

plotMA(dds)

# end

Iris.c於 2019年5月20日星期一 UTC+8下午6時40分37秒寫道：

[Iris.c]

問題解決了！！謝謝你

WEPA ^_^於 2019年5月20日星期一 UTC+8下午11時47分03秒寫道：