From d928c4e1701a5a1dca07cc5e27d76197225753d9 Mon Sep 17 00:00:00 2001 From: fangpingmu Date: Mon, 30 Dec 2024 15:14:23 -0500 Subject: [PATCH] Update hugen.md --- docs/web-portals/hugen.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/web-portals/hugen.md b/docs/web-portals/hugen.md index 245f5dc..f79c66c 100644 --- a/docs/web-portals/hugen.md +++ b/docs/web-portals/hugen.md @@ -82,9 +82,9 @@ Type 'q()' to quit R. `[fangping@login3 ~]$ srun -M teach --account=hugen2071-2024f --pty bash` This command will request a single core, 1 hour walltime on teach cluster using hugen2071-2024f allocation. You can add slurm arguments to specify the job. https://crc-pages.pitt.edu/user-manual/slurm/batch-jobs/ -

Within each R module, various R packages and bioconductor packages have been installed. For the above r/4.3.0, the location of these packages is /ihome/crc/install/gcc-12.2.0/r/4.3.0/lib64/R/library. Within the R console, load the library to check whether it is already installed.

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Within each R module, various R packages and bioconductor packages have been installed. For the above r/4.4.0, the location of these packages is /ihome/crc/install/gcc-12.2.0/r/4.4.0/lib64/R/library. Within the R console, load the library to check whether it is already installed.

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You can also install your own R packages. R searches the user’s path for libraries followed by the root installation. R will stop searching when it finds the first instance of the library within the path hierarchy.Use “.libPaths()” to check the searching path. For r/4.3.0, your local R packages will be installed under ~/R/x86_64-pc-linux-gnu-library/4.3. To allow all attendees to use the same R packages, we recommend that the instructor hides his/her local R packages. If you need specific R packages for your course, submit a help ticket, and we will install the package so that all attendees can use the same version.

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You can also install your own R packages. R searches the user’s path for libraries followed by the root installation. R will stop searching when it finds the first instance of the library within the path hierarchy.Use “.libPaths()” to check the searching path. For r/4.4.0, your local R packages will be installed under ~/R/x86_64-pc-linux-gnu-library/4.4. To allow all attendees to use the same R packages, we recommend that the instructor hides his/her local R packages. If you need specific R packages for your course, submit a help ticket, and we will install the package so that all attendees can use the same version.

You can also use RStudio server on Open Ondemand to teach the course. Logon ondemand.htc.crc.pitt.edu, Select Interactive Apps -> RStudio Server 2022