Merge branch 'main' of https://github.com/UPPMAX/bianca_workshop

UPPMAX · Sep 2, 2024 · 5cc8306 · 5cc8306
2 parents c1e3cee + d43583b
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diff --git a/docs/extra/devel.md b/docs/extra/devel.md
@@ -37,7 +37,7 @@
 - A little cumbersome but doable!
 
 - For collaboration within a ``sens`` project your can have a "local" ``remote`` repo in your common project folder. 
-- [More on Git on Bianca](http://docs.uppmax.uu.se/cluster_guides/git_on_bianca/)
+- [More on Git on Bianca](http://docs.uppmax.uu.se/software/git_on_bianca/)
 
 
 

diff --git a/docs/extra/rpackages.md b/docs/extra/rpackages.md
@@ -37,7 +37,7 @@ drwxrwsr-x  7 douglas sw  4096 May 25 10:46 glmnetr
 
 ### Install on Rackham
 
-- [R on UPPMAX course](https://uppmax.github.io/R-python-julia-HPC/r/packagesR.html){:target="_blank"}
+- [R on UPPMAX course](https://uppmax.github.io/R-python-julia-matlab-HPC/r/packagesR.html){:target="_blank"}
 - **note** First decide on which R version it should be based on and load that R_packages module.
 - If not stated otherwise, your installation will end up in the ``~/R`` directory within your home directory
 

diff --git a/docs/intermediate/ides.md b/docs/intermediate/ides.md
@@ -65,7 +65,7 @@ there are superior ways to develop code on Bianca,
 as -for example- taught in the
 [UPPMAX 'Programming Formalisms' course](https://github.com/UPPMAX/programming_formalisms).
 
-There are three [IDEs on Bianca](http://docs.uppmax.uu.se/cluster_guides/ides_on_bianca/)
+There are three [IDEs on Bianca](http://docs.uppmax.uu.se/software/ides_on_bianca/)
 we can show: Jupyter, RStudio or VSCodium.
 We will practice and discuss one, and briefly talk about the others.
 
@@ -95,7 +95,7 @@ It may look like below, where there is a preference for Jupyter:
     - Explore the UPPMAX documentation
     - Start the favorite IDE on Bianca
 
-- Go to the UPPMAX documentation of the [IDEs on Bianca](http://docs.uppmax.uu.se/cluster_guides/ides_on_bianca/)
+- Go to the UPPMAX documentation of the [IDEs on Bianca](http://docs.uppmax.uu.se/software/ides_on_bianca/)
 - Get the IDE that got the most votes to run on Bianca, by following
   its documentation. If you really want to run another IDE,
   you may do so! When done, do exercise 2.
@@ -129,7 +129,7 @@ It may look like below, where there is a preference for Jupyter:
 
 - Try to answer the questions below.
   Be generous in accepting you answer.
-  If you have no idea, use the UPPMAX documentation of the [IDEs on Bianca](http://docs.uppmax.uu.se/cluster_guides/ides_on_bianca/).
+  If you have no idea, use the UPPMAX documentation of the [IDEs on Bianca](http://docs.uppmax.uu.se/software/ides_on_bianca/).
   When done, run the other two IDEs on Bianca
 
 ???- question "Why use an IDE?"

diff --git a/docs/intermediate/slurm_bianca.md b/docs/intermediate/slurm_bianca.md
@@ -216,7 +216,7 @@ sbatch -p devcore -t 00:15:00 jobscript.sh
 
     - submit early = run early
     - bonus jobs always run eventually, but may need to wait until the night or weekend
-    - In detail: <https://docs.uppmax.uu.se/cluster_guides/jobinfo_reason/>
+    - In detail: <https://docs.uppmax.uu.se/software/jobinfo_reason/>
 
 
 ???+ question "Hands-on #2: sbatch/squeue/scancel/scontrol/jobinfo"

diff --git a/docs/transfer_basics.md b/docs/transfer_basics.md
@@ -83,7 +83,7 @@ Be sure to really use a SFTP client -- not just a SCP client.
 
 ## Using standard sftp client (command line)
 ---
-<http://docs.uppmax.uu.se/cluster_guides/bianca_file_transfer_using_sftp/>
+<http://docs.uppmax.uu.se/software/bianca_file_transfer_using_sftp/>
 
 ```bash
 $ sftp -q <username>-<projid>@bianca-sftp.uppmax.uu.se