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sirselim / jetson_nanopore_sequencing

A place to collate notes and resources of our journey into porting nanopore sequencing over to accessible, portable technology.
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Add specific instructions to include guppyd.service #18

Closed sirselim closed 1 year ago

sirselim commented 2 years ago

It was brought to my attention by @mikblack this afternoon that on his Xavier AGX build MinKNOW and Guppy weren't "talking" to each other. This was running the latest builds as of 2021-11-30, MinKNOW 21.10.8 (Mk1c version) and Guppy 5.0.17.

My suggestion was to try adding guppyd.service to the set up (I've been doing this by default since seeing it introduced). Turns out this fixed the issue. So this is a reminder to myself to include the guppyd.service in the same step as minknow.service, which should prevent this problem in the future.

sirselim commented 2 years ago

I have pushed an update that includes the instructions to copy across guppyd.service to the correct location and start the service.

I will leave this issue open until I have had a chance to write a little more about potential modifications to the guppyd.service in terms of tweaks to RAM limits etc for specific GPUs/devices.

starnoux commented 2 years ago

Dear @sirselim,

We had the gpu running but had to upgrade some of the software. And while re-installing the gpu connection. I encounter a weird error. I made the guppyd.service as you propose. And when trying to enable it, the following error pop up:

The unit files have no installation config (WantedBy=, RequiredBy=, Also=,
Alias= settings in the [Install] section, and DefaultInstance= for template
units). This means they are not meant to be enabled using systemctl.

Would you have any idea why it does not recognise the [Install] ? I followed up, not installing minion-nc but the 5 packages adviced and in a next step the ont-guppy.

minion-nc:
  Installé : (aucun)
  Candidat : 22.08.8-1~focal
 Table de version :
     22.08.8-1~focal 10
         10 http://mirror.oxfordnanoportal.com/apt focal-stable/non-free amd64 Packages
         10 http://mirror.oxfordnanoportal.com/apt focal-stable/non-free i386 Packages
(base) remi_bernard@CW19054876:~$ apt policy ont-guppy
ont-guppy:
  Installé : 6.3.7-1~focal
  Candidat : 6.3.7-1~focal
 Table de version :
 *** 6.3.7-1~focal 100
         10 http://mirror.oxfordnanoportal.com/apt focal-stable/non-free amd64 Packages
        100 /var/lib/dpkg/status

The thing I don"t understand is that the guppyd.service is loaded and active when I check.

Any idea on why the 'enabling' does not work ?

Thanks a lot for you help, Best Stéphanie

sirselim commented 1 year ago

This issue will be addressed with the major repo update that should happen in the next few days. 😄

starnoux commented 1 year ago

Awesome :-) We are so much looking forward to it.