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mkdocs/docs/HPC/rlibs.md

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# R libraries
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Please keep in mind, that this is not a genral manual
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Please keep in mind, that this is not a general manual
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abut installing `R` libraries, but only system specific information about self
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installed R libraries at {{ hpcinfra }}.
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Our infrastructure contains different CPU arcitectures, that are
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not neccesarily compatible with each other. Additionally, we have
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Our infrastructure contains different CPU architectures, that are
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not necessarily compatible with each other. Additionally, we have
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multiple versions of `R` installed with different versions of toolchains, and by default,
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self installed libraries are installed in separate directories based only
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on R major and minor versions.
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In this way, you might use self installed R libraries on incopatible architectures and/or
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In this way, you might use self installed R libraries on incompatible architectures and/or
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compiled with incompatible toolchains, which might lead to hangs or other types of errors.
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When you load a centrally installed `R` module we make sure that self installed libraries
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will be installed to an operational system, arhictecture, toolchain, and `R` version
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dependent directory. The loaction of this directory by default is
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will be installed to an operational system, architecture, toolchain, and `R` version
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dependent directory. The location of this directory by default is
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(by setting `R_LIBS_USER` environmental variable to)
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`$VSC_DATA/local_R_LIBS/$VSC_OS_LOCAL/$VSC_ARCH_LOCAL/<R version>-<toolchain>`.
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*before* you load any centrally installed `R` module. In this case, the location of the
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directory for self installed `R` libraries will be
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`$R_LIBS_BASEDIR/local_R_LIBS/$VSC_OS_LOCAL/$VSC_ARCH_LOCAL/<R version>-<toolchain>`.
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If this directory is not writtable, you can still be able to use already installed
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`R` libararies from that location, but you will not be able to install `R` libarires
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If this directory is not writable, you can still be able to use already installed
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`R` libraries from that location, but you will not be able to install `R` libraries
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yourself.
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You can always check the default location(s) of `R` libraries by issuing `.libPaths()` command
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in `R`. This command will show the library locations ordered by their priorites.
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in `R`. This command will show the library locations ordered by their priorities.
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Please be aware that if you have installed an `R` libaries yourself in the past, you might have to
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Please be aware that if you have installed an `R` libraries yourself in the past, you might have to
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reinstall those if you want to use them:
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- on a different cluster
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- with a different version of `R`

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