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| how_to [2020/03/02 16:02] – [Install R locally (e.g. on a cluster)?] admin | how_to [2020/03/06 01:44] – [Access a Bioconductor package source code?] admin |
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| ==== Install R locally (e.g. on a cluster)? ==== | ==== Install R locally (e.g. on a cluster)? ==== |
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| If you want to install the latest __development__ version of R on your macOS, and you do not have Fortran compiler, first install [[https://github.com/fxcoudert/gfortran-for-macOS/releases|Fortran]]. | If you want to install the latest __development__ version of R on your macOS, first install [[https://github.com/fxcoudert/gfortran-for-macOS/releases|Fortran]] if you do not have it. You may also need to update [[https://superuser.com/a/664326|PCRE]]. |
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| If you do not have sudo permissions, like when you are working on a cluster, you should either use the software module, or install it locally in your home directory. E.g., you can install R on Stampede or Maverick as follows: | If you do not have sudo permissions, like when you are working on a cluster, you should either use the software module, or install it locally in your home directory. E.g., you can install R on Stampede or Maverick as follows: |
| ==== Access a Bioconductor package source code? ==== | ==== Access a Bioconductor package source code? ==== |
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| It is always better to a install the latest version of a package as directed in the corresponding Bioconductor page (e.g., [[https://bioconductor.org/packages/Pigengene|Pigengene]]). If you need to see more details in the source code, or you need the development version, you can clone the source from the Bioconductor using the "Source Repository (Developer Access) " command, which is posted on the corresponding package [[https://bioconductor.org/packages/release/bioc/html/Pigengene.html|page]], e.g., | It is always better to a install the latest version of a package as directed in the corresponding Bioconductor page (e.g., [[https://bioconductor.org/packages/Pigengene|Pigengene]]). If you need to see more details in the source code, or you need the development version. If the package maintainer adds your public ssh [[https://git.bioconductor.org/BiocCredentials/|key]], then you can clone the source from the Bioconductor using the "Source Repository (Developer Access) " command, which is posted on the corresponding package [[https://bioconductor.org/packages/release/bioc/html/Pigengene.html|page]], e.g., |
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