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scipion-em / scipion-em-relion

Plugin to use Relion SPA programs within the Scipion framework
GNU General Public License v3.0
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Installation of RELION Plugin Stalls #418

Open jpellman opened 2 weeks ago

jpellman commented 2 weeks ago

Describe the bug

Hi,

When I attempt to install the RELION plugin via the plugin manager, the installation does not appear to progress / seems to stall out at some point. I can see that some of the RELION binaries/artifacts have been produced, but it does not appear that all of them are present in the build output directory. Is this a known issue? Are only certain RELION binaries supposed to be generated?

I've noticed that even though the plugin manager window indicates that installation is proceeding, no cmake, make or g++ commands are running.

To Reproduce Steps to reproduce the behavior:

  1. Go to plugin manager
  2. Install RELION plug in
  3. Wait indefinitely.

Expected behavior The RELION plugin should finish installation in a timely manner and all RELION binaries should be present.

Logs There are no logs produced that I can find- is there a log somewhere that stores the contents of stdout/stderr during the build process? The plugin manager shows nothing.

Additional context

We're using Ubuntu 22.04 with CUDA 11.4.3 libraries for our userland.

pconesa commented 2 weeks ago

Hi @jpellman m sorry about this.

Latest relion version downloads many files and creates a conda environment the takes some time.

Best thing to do is to use the command line:

scipion3 install -p scipion-em-relion

You'll see everything in the terminal and avoid the "freeze" in the plugin manager.

Alternatively, if you already have relion5 installed you can pass to the command --noBin to skip relion installation and link it using the config file:

https://scipion-em.github.io/docs/release-3.0.0/docs/scipion-modes/linking-existing-software.html

Let us know how it goes....