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2025-12-11 10:32:15 +01:00
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docs/merlin6/99-support/faq.md
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@@ -12,28 +12,28 @@ permalink: /merlin6/faq.html
## How do I register for Merlin?
See [Requesting Merlin Access](/merlin6/request-account.html).
See [Requesting Merlin Access](../quick-start-guide/requesting-accounts.md).
## How do I get information about downtimes and updates?
See [Get updated through the Merlin User list!](/merlin6/contact.html#get-updated-through-the-merlin-user-list)
See [Get updated through the Merlin User list!](contact.md#get-updated-through-the-merlin-user-list)
## How can I request access to a Merlin project directory?
Merlin projects are placed in the `/data/project` directory. Access to each project is controlled by Unix group membership.
If you require access to an existing project, please request group membership as described in [Requesting Unix Group Membership](/merlin6/request-project.html#requesting-unix-group-membership).
If you require access to an existing project, please request group membership as described in [Requesting Unix Group Membership](../quick-start-guide/requesting-projects.md#requesting-unix-group-membership).
Your project leader or project colleagues will know what Unix group you should belong to. Otherwise, you can check what Unix group is allowed to access that project directory (simply run `ls -ltrhd` for the project directory).
## Can I install software myself?
Most software can be installed in user directories without any special permissions. We recommend using `/data/user/$USER/bin` for software since home directories are fairly small. For software that will be used by multiple groups/users you can also [request the admins](/merlin6/contact.html) install it as a [module](/merlin6/using-modules.html).
Most software can be installed in user directories without any special permissions. We recommend using `/data/user/$USER/bin` for software since home directories are fairly small. For software that will be used by multiple groups/users you can also [request the admins](contact.md) install it as a [module](../how-to-use-merlin/using-modules.md).
How to install depends a bit on the software itself. There are three common installation procedures:
1. *binary distributions*. These are easy; just put them in a directory (eg `/data/user/$USER/bin`) and add that to your PATH.
2. *source compilation* using make/cmake/autoconfig/etc. Usually the compilation scripts accept a `--prefix=/data/user/$USER` directory for where to install it. Then they place files under `<prefix>/bin`, `<prefix>/lib`, etc. The exact syntax should be documented in the installation instructions.
3. *conda environment*. This is now becoming standard for python-based software, including lots of the AI tools. First follow the [initial setup instructions](/merlin6/python.html#anaconda) to configure conda to use /data/user instead of your home directory. Then you can create environments like:
3. *conda environment*. This is now becoming standard for python-based software, including lots of the AI tools. First follow the [initial setup instructions](../software-support/python.md#anaconda) to configure conda to use /data/user instead of your home directory. Then you can create environments like:
```
module load anaconda/2019.07
@@ -48,5 +48,5 @@ conda activate myenv
## Something doesn't work
Check the list of [known problems](/merlin6/known-problems.html) to see if a solution is known.
If not, please [contact the admins](/merlin6/contact.html).
Check the list of [known problems](known-problems.md) to see if a solution is known.
If not, please [contact the admins](contact.md).

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docs/merlin6/99-support/known-problems.md
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@@ -100,7 +100,7 @@ getent passwd $USER | awk -F: '{print $NF}'
```
If SHELL does not correspond to the one you need to use, you should request a central change for it.
This is because Merlin accounts are central PSI accounts. Hence, **change must be requested via [PSI Service Now](/merlin6/contact.html#psi-service-now)**.
This is because Merlin accounts are central PSI accounts. Hence, **change must be requested via [PSI Service Now](contact.md#psi-service-now)**.
Alternatively, if you work on other PSI Linux systems but for Merlin you need a different SHELL type, a temporary change can be performed during login startup.
You can update one of the following files:
@@ -140,9 +140,9 @@ module load paraview
vglrun paraview
```
Officially, the supported method for running `vglrun` is by using the [NoMachine remote desktop](/merlin6/nomachine.html).
Officially, the supported method for running `vglrun` is by using the [NoMachine remote desktop](../../how-to-use-merlin/nomachine.md).
Running `vglrun` it's also possible using SSH with X11 Forwarding. However, it's very slow and it's only recommended when running
in Slurm (from [NoMachine](/merlin6/nomachine.html)). Please, avoid running `vglrun` over SSH from a desktop or laptop.
in Slurm (from [NoMachine](../../how-to-use-merlin/nomachine.md)). Please, avoid running `vglrun` over SSH from a desktop or laptop.
## Software

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docs/merlin6/99-support/migration-from-merlin5.md
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@@ -53,7 +53,7 @@ Merlin6 introduces the concept of a *project* directory. These are the recommend
#### Requesting a *project*
Refer to [Requesting a project](/merlin6/request-project.html)
Refer to [Requesting a project](../quick-start-guide/requesting-projects.md)
---
@@ -64,7 +64,7 @@ Refer to [Requesting a project](/merlin6/request-project.html)
* Users keep working on Merlin5
* Merlin5 production directories: ``'/gpfs/home/'``, ``'/gpfs/data'``, ``'/gpfs/group'``
* Users may raise any problems (quota limits, unaccessible files, etc.) to merlin-admins@lists.psi.ch
* Users can start migrating data (see [Migration steps](/merlin6/migrating.html#migration-steps))
* Users can start migrating data (see [Migration steps](#migration-steps))
* Users should copy their data from Merlin5 ``/gpfs/data`` to Merlin6 ``/data/user``
* Users should copy their home from Merlin5 ``/gpfs/home`` to Merlin6 ``/psi/home``
* Users should inform when migration is done, and which directories were migrated. Deletion for such directories can be requested by admins.
@@ -76,7 +76,7 @@ Refer to [Requesting a project](/merlin6/request-project.html)
* Merlin5 directories available in RW in login nodes: ``'/gpfs/home/'``, ``'/gpfs/data'``, ``'/gpfs/group'``
* In Merlin5 computing nodes, Merlin5 directories are mounted in RW: ``'/gpfs/home/'``, ``'/gpfs/data'``, ``'/gpfs/group'``
* In Merlin5 computing nodes, Merlin6 directories are mounted in RW: ``'/psi/home/'``, ``'/data/user'``, ``'/data/project'``
* Users must migrate their data (see [Migration steps](/merlin6/migrating.html#migration-steps))
* Users must migrate their data (see [Migration steps](#migration-steps))
* ALL data must be migrated
* Job submissions by default to Merlin6. Submission to Merlin5 computing nodes possible.
* Users should inform when migration is done, and which directories were migrated. Deletion for such directories can be requested by admins.
@@ -94,7 +94,7 @@ Refer to [Requesting a project](/merlin6/request-project.html)
### Cleanup / Archive files
* Users must cleanup and/or archive files, according to the quota limits for the target storage.
* If extra space is needed, we advise users to request a [project](/merlin6/request-project.html)
* If extra space is needed, we advise users to request a [project](../quick-start-guide/requesting-projects.md)
* If you need a larger quota in respect to the maximal allowed number of files, you can request an increase of your user quota.
#### File list

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docs/merlin6/99-support/troubleshooting.md
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@@ -8,12 +8,12 @@ sidebar: merlin6_sidebar
permalink: /merlin6/troubleshooting.html
---
For troubleshooting, please contact us through the official channels. See [Contact](/merlin6/contact.html)
For troubleshooting, please contact us through the official channels. See [Contact](contact.md)
for more information.
## Known Problems
Before contacting us for support, please check the **[Merlin6 Support: Known Problems](/merlin6/known-problems.html)** page to see if there is an existing
Before contacting us for support, please check the **[Merlin6 Support: Known Problems](known-problems.md)** page to see if there is an existing
workaround for your specific problem.
## Troubleshooting Slurm Jobs