From d4eec4f76cee210f53a262db63fb078f71ea177a Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Bj=C3=B6rn=20Claremar?=
<70746791+bclaremar@users.noreply.github.com>
Date: Tue, 21 May 2024 13:56:19 +0200
Subject: [PATCH 1/4] transfer_basics.md fix uppmax links
---
docs/transfer_basics.md | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/docs/transfer_basics.md b/docs/transfer_basics.md
index a8938efe..0a59d3d0 100644
--- a/docs/transfer_basics.md
+++ b/docs/transfer_basics.md
@@ -25,7 +25,7 @@
- Therefore, it serves as a bridge between Internet and Bianca.
## Data transfers:
--
+-
- section 3: Transfer files to and from Bianca
### The `wharf` location on Bianca
@@ -83,7 +83,7 @@ Be sure to really use a SFTP client -- not just a SCP client.
## Using standard sftp client (command line)
---
-
+
```bash
$ sftp -q -@bianca-sftp.uppmax.uu.se
From 9942379c4d3a70b170f71f3e19b98ed85fd37eba Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Bj=C3=B6rn=20Claremar?=
<70746791+bclaremar@users.noreply.github.com>
Date: Tue, 21 May 2024 14:01:51 +0200
Subject: [PATCH 2/4] overview.md fix uppmax links
---
docs/overview.md | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/docs/overview.md b/docs/overview.md
index 4b9ae5da..8370460b 100644
--- a/docs/overview.md
+++ b/docs/overview.md
@@ -75,7 +75,7 @@ There are three types of UPPMAX systems:
Computing systems allow a user to do heavier computational calculations.
-[UPPMAX has, among others, the following clusters](https://www.uppmax.uu.se/resources/systems/):
+[UPPMAX has, among others, the following clusters](https://www.uu.se/en/centre/uppmax/resources/clusters):
- Rackham: regular data, general purpose
- Snowy: regular data, long runs and GPU:s
@@ -111,7 +111,7 @@ for either active use (i.e. in calculations) or to archive it.
Storage for active use is also called 'on-load' storage,
where archived data is called 'off-load' storage.
-The [UPPMAX storage systems](https://www.uppmax.uu.se/resources/systems/storage-systems/) are:
+The [UPPMAX storage systems](https://www.uu.se/en/centre/uppmax/resources/storage) are:
- On-load: Castor for Bianca, Crex for Rackham
- Off-load: Lutra for Rackham
@@ -136,7 +136,7 @@ flowchart TD
Cloud services allow a user to have something active (typically a website)
that can be accessed by the internet.
-For this, the [UPPMAX cloud](https://www.uppmax.uu.se/resources/systems/the-uppmax-cloud/)
+For this, the [UPPMAX cloud](https://www.uu.se/en/centre/uppmax/resources/clusters/cloud-service-dis)
has a service called 'Dis' (the Swedish word for 'haze') and is part of
the `EAST-1` region of the SNIC science cloud.
From ec9a44041de07a6c11eb87291b4b33a75c494f7f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Bj=C3=B6rn=20Claremar?=
<70746791+bclaremar@users.noreply.github.com>
Date: Tue, 21 May 2024 14:05:22 +0200
Subject: [PATCH 3/4] conda.md fix uppmax links
---
docs/extra/conda.md | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/docs/extra/conda.md b/docs/extra/conda.md
index 9260d577..283e293e 100644
--- a/docs/extra/conda.md
+++ b/docs/extra/conda.md
@@ -194,7 +194,7 @@ following channels available:
- Do a `conda clean -a` once in a while to remove unused and unnecessary files
-- [More info about Conda on UPPMAX](https://uppmax.uu.se/support/user-guides/conda-user-guide/)
+- [More info about Conda on UPPMAX](http://docs.uppmax.uu.se/cluster_guides/conda/)
## Working with Conda environments defined by files
From d0064a0e842c5b1df6501f69acc25e68717cc7eb Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Bj=C3=B6rn=20Claremar?=
<70746791+bclaremar@users.noreply.github.com>
Date: Tue, 21 May 2024 14:19:32 +0200
Subject: [PATCH 4/4] devel.md fix links to uppmax except git on bianca
---
docs/extra/devel.md | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/docs/extra/devel.md b/docs/extra/devel.md
index c60dd5da..8e0dbd84 100644
--- a/docs/extra/devel.md
+++ b/docs/extra/devel.md
@@ -23,9 +23,9 @@
- To build from source use a compiler module
- We have several compiler versions from GNU and INTEL
- check with: ``$ ml avail gcc`` and ``$ ml avail intel``
-- [Guide for compiling **serial** programs](https://www.uppmax.uu.se/support/user-guides/compiling-source-code/){:target="_blank"}
-- [Guide for compiling **parallel** programs](https://www.uppmax.uu.se/support/user-guides/mpi-and-openmp-user-guide/){:target="_blank"}
- - [Available **combinations** of compilers and parallel libraries](https://www.uppmax.uu.se/support/user-guides/mpi-and-openmp-user-guide/#tocjump_48302061903476823_2){:target="_blank"}
+- [Guide for compiling **serial** programs](http://docs.uppmax.uu.se/cluster_guides/compiling_serial/){:target="_blank"}
+- [Guide for compiling **parallel** programs](http://docs.uppmax.uu.se/cluster_guides/compiling_parallel/){:target="_blank"}
+ - [Available **combinations** of compilers and parallel libraries](http://docs.uppmax.uu.se/cluster_guides/compiling_parallel/#mpi-using-the-openmpi-library){:target="_blank"}
## Git on Bianca