Question

Error: 'biocValid' is not an exported object from 'namespace:BiocManager'

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mariatuffy • 0

@mariatuffy-18585

Last seen 5.5 years ago

Hello

Could you please let me know whether biocValid package has been replaced by something else? When I try to install (R version 3.5.1) I get this error:

BiocManager::biocValid()
Error: 'biocValid' is not an exported object from 'namespace:BiocManager'

When I look for biocValid using the command below it does not return any results indicating that is not available.

BiocManager::available("biocValid")
character(0)

Many thanks for your help.

biocmanager • 2.0k views

ADD COMMENT • link updated 5.5 years ago by shepherl 3.9k • written 5.5 years ago by mariatuffy • 0

score 2 · Answer 1 · 2018-11-29

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shepherl 3.9k

@lshep

Last seen 2 days ago

United States

BiocManager::valid() will be the same as BiocInstaller::BiocValid()

ADD COMMENT • link 5.5 years ago shepherl 3.9k

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Hello

Thanks for your reply.

BiocInstaller::biocValid() returns [1] TRUE which means that it is available but when I try to install it using:

BiocManager::install("biocValid") I get:

Bioconductor version 3.8 (BiocManager 1.30.4), R 3.5.1 (2018-07-02)
Installing package(s) 'biocValid'
Warning message:
package ‘biocValid’ is not available (for R version 3.5.1)

ADD REPLY • link 5.5 years ago mariatuffy • 0

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biocValid() was a function in BiocInstaller which is deprecated. BiocManager has the function valid() to use. Please run BiocManager::valid() in place of running BiocInstaller::biocValid()