R magick 包安装包错

R magick 包安装包错

做富集分析这里报错:


In bitr(DEG_list, fromType = opt$idtype, toType = opt$totype, OrgDb = opt$ann.db) :

  26.02% of input gene IDs are fail to map...

--> No gene can be mapped....

--> Expected input gene ID:

--> return NULL...

NULL

Error in (function (classes, fdef, mtable)  :

  unable to find an inherited method for function ‘dotplot’ for signature ‘"NULL"’

Calls: dotplot -> <Anonymous>


查了下需要升级R包:clusterProfiler等等

但是升级不成功:说magick安装不上,这里报错:


Error: package or namespace load failed for ‘magick’ in dyn.load(file, DLLpath = DLLpath, ...):

 unable to load shared object '/share/work/biosoft/R/R-v4.2.0/lib64/R/library/00LOCK-magick/00new/magick/libs/magick.so':

  /share/work/biosoft/R/R-v4.2.0/lib64/R/library/00LOCK-magick/00new/magick/libs/magick.so: undefined symbol: _ZN6Magick5Image5writeEPNS_4BlobERKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEm

Error: loading failed

Execution halted

ERROR: loading failed

* removing ‘/share/work/biosoft/R/R-v4.2.0/lib64/R/library/magick’

* restoring previous ‘/share/work/biosoft/R/R-v4.2.0/lib64/R/library/magick’

Warning message:


解决办法手动高版本的ImageMagick,之后手动安装magick包:

PKG_CONFIG_PATH=/share/work/biosoft/ImageMagick/ImageMagick-v7.1.0-62/lib/pkgconfig/ R CMD INSTALL magick_2.8.0.tar.gz


再重新升级:clusterProfiler

  • 发表于 2023-10-10 19:50
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  • 分类:R

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