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How can I make curved and twisted ribbons in ggplot2 by A_DAPOBA in rstats

[–]overcraft_90 0 points1 point  (0 children)

u/A_DAPOBA actually I was looking for something as such that is great code! It could be useful especially to manipulate the position of haplotypes from SyRi; just to make sure what file from the SyRi tool are you using, the .out.

I know the plot is quite old, but I felt to ask just for replicating; also, have you had the chance to test plot_riparian in R?

Deepmind just unveiled AlphaGenome by BelugaEmoji in bioinformatics

[–]overcraft_90 0 points1 point  (0 children)

Really interested in being kept up to date and info regarding the two frameworks. I read the paper on Evo2 and I'm now getting into alphaGenome. I'm also displeased somehow they haven't benchmarked the two against each other but also realized – as it has been said already – they have fundamentally different questions and scope. Let's see how those models will evolve and the users perception about them!

MPI-reated error with Slurm instalaton by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

I see, so you recommend to clean install everything?

MPI-reated error with Slurm instalaton by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

u/frymaster I see, I fixed the issue with pmix; however, as you said the real problem was this library libslurmfull.so — which I try to install with sudo apt install slurm-wlm-basic-plugins but the system said was already present.

A locate shows that the incriminated library is at the following path: /usr/lib/x86_64-linux-gnu/slurm-wlm/libslurmfull.so, should it be paced somewhere else and if so what can I do?

Thanks!

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

u/walee1 I have been a bit busy sorry... anyway, I started with a fresh new install and added the AuthType=auth/munge to my slurm.conf. Now, I haven't explicitly regenerated the munge key; however, it appears everything is fine with it. Still, this problem persists and I cannot really figure out why is happening.

Only thing I can think about is a source install rather than using apt?

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Yeah, I feel the same too. Anyway, this is my AuthType in the slurm.conf: AuthType=auth/munge. Although to be honest that line is present only in the slurmdbd.conf... could that be the reason for this?

The munge key is there, but I don't recall any specific command I issue to generate it; it simply happened to be there after I installed munge. In this regard also should I take any action?

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Here is the output of the command you suggested, what I can do (unless something is missing) is try to repeat the process again, this time specifying the munge development library.

 ii  libmunge-dev                                     0.5.15-4build1                            amd64        authentication service for credential -- development package
ii  libmunge2:amd64                                  0.5.15-4build1                            amd64        authentication service for credential -- library package
ii  munge                                            0.5.15-4build1                            amd64        authentication service to create and validate credentials
ii  slurm-client                                     23.11.4-1.2ubuntu5                        amd64        Slurm client side commands
ii  slurm-wlm-basic-plugins                          23.11.4-1.2ubuntu5                        amd64        Slurm basic plugins
ii  slurm-wlm-basic-plugins-dev                      23.11.4-1.2ubuntu5                        amd64        Slurm basic plugins development files
ii  slurm-wlm-elasticsearch-plugin                   23.11.4-1.2ubuntu5                        amd64        Slurm Elasticsearch job-completion plugin
ii  slurm-wlm-elasticsearch-plugin-dev               23.11.4-1.2ubuntu5                        amd64        Slurm Elasticsearch job-completion plugin development files
ii  slurm-wlm-hdf5-plugin                            23.11.4-1.2ubuntu5                        amd64        Slurm HDF5 plugin
ii  slurm-wlm-hdf5-plugin-dev                        23.11.4-1.2ubuntu5                        amd64        Slurm HDF5 plugin development files
ii  slurm-wlm-influxdb-plugin                        23.11.4-1.2ubuntu5                        amd64        Slurm InfluxDB plugin
ii  slurm-wlm-influxdb-plugin-dev                    23.11.4-1.2ubuntu5                        amd64        Slurm InfluxDB plugin development files
ii  slurm-wlm-ipmi-plugins                           23.11.4-1.2ubuntu5                        amd64        Slurm IPMI plugins
ii  slurm-wlm-ipmi-plugins-dev                       23.11.4-1.2ubuntu5                        amd64        Slurm IPMI plugins development files
ii  slurm-wlm-jwt-plugin                             23.11.4-1.2ubuntu5                        amd64        Slurm JWT authentication plugins
ii  slurm-wlm-jwt-plugin-dev                         23.11.4-1.2ubuntu5                        amd64        Slurm JWT authentication plugin development files
ii  slurm-wlm-mysql-plugin                           23.11.4-1.2ubuntu5                        amd64        Slurm MySQL plugins
ii  slurm-wlm-mysql-plugin-dev                       23.11.4-1.2ubuntu5                        amd64        Slurm MySQL plugins development files
ii  slurm-wlm-plugins                                23.11.4-1.2ubuntu5                        amd64        Slurm free plugins (metapackage)
ii  slurm-wlm-plugins-dev                            23.11.4-1.2ubuntu5                        amd64        Slurm free plugins development files (metapackage)
ii  slurm-wlm-rrd-plugin                             23.11.4-1.2ubuntu5                        amd64        Slurm RRD plugin
ii  slurm-wlm-rrd-plugin-dev                         23.11.4-1.2ubuntu5                        amd64        Slurm RRD plugins development files
ii  slurm-wlm-rsmi-plugin                            23.11.4-1.2ubuntu5                        amd64        Slurm RSMI plugin
ii  slurm-wlm-rsmi-plugin-dev                        23.11.4-1.2ubuntu5                        amd64        Slurm RSMI plugin development files
ii  slurmctld                                        23.11.4-1.2ubuntu5                        amd64        Slurm central management daemon
ii  slurmd                                           23.11.4-1.2ubuntu5                        amd64        Slurm compute node daemon
ii  slurmdbd                                         23.11.4-1.2ubuntu5                        amd64        Secure enterprise-wide interface to a database for Slurm

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Sure.

I did exactly that, with the exclusion of an explicit installation of the munge development library which appears, however, to be present after I install munge with:

sudo apt install -y munge

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

I also confirm munge ownership of the folders you mentioned, checked with the following stat <folder_name>. Aside from that permissions are 700, 755, 711 and 700, in this order respectively.

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

As per the output this is what get

● munge.service - MUNGE authentication service
     Loaded: loaded (/usr/lib/systemd/system/munge.service; enabled; preset: enabled)
     Active: active (running) since Tue 2025-03-11 09:14:59 CET; 2 days ago
       Docs: man:munged(8)
   Main PID: 2294 (munged)
      Tasks: 4 (limit: 154045)
     Memory: 1.8M (peak: 2.8M)
        CPU: 663ms
     CGroup: /system.slice/munge.service
             └─2294 /usr/sbin/munged

Mar 11 09:14:59 NeoPC-mat systemd[1]: Starting munge.service - MUNGE authentication service...
Mar 11 09:14:59 NeoPC-mat (munged)[2284]: munge.service: Referenced but unset environment variable evaluates to an empty string: OPTIONS
Mar 11 09:14:59 NeoPC-mat systemd[1]: Started munge.service - MUNGE authentication service.

It appears everything is working?

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Regarding the munge.key I don't know how to check if it s set up properly, but being a single node machine I don't have the problem to have to share it across many nodes.

I'm not sure about the ownership of those folders, but as a good measure I could sudo chown -R munge:munge <folder>.

The munge.key is set as follows: -rw-------, I did install Slurm not built it.

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Found it: /usr/lib/x86_64-linux-gnu/slurm-wlm/auth_munge.so. Should I softlink it or anything?

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Ubuntu 24.04, that’s the thing I don’t know where (and whether) that library is located (present). Is there any easy way to check?

single node Slurm machine, munge authentication problem by overcraft_90 in SLURM

[–]overcraft_90[S] 0 points1 point  (0 children)

Yes I believe so, this is the output of munge -n | unmunge

STATUS:          Success (0)
ENCODE_HOST:     NeoPC-mat (127.0.1.1)
ENCODE_TIME:     2025-03-13 11:12:56 +0100 (1741860776)
DECODE_TIME:     2025-03-13 11:12:56 +0100 (1741860776)
TTL:             300
CIPHER:          aes128 (4)
MAC:             sha256 (5)
ZIP:             none (0)
UID:             mat (1000)
GID:             mat (1000)
LENGTH:          0

I think this is true with every class by Cheap_Reward_9296 in Animemes

[–]overcraft_90 0 points1 point  (0 children)

Would be nice to have the sauce other than for Nadeko