import data

[FlorianBeckOle]

I can only browse inside the users Directory for data import.
e.g /data/projectsNext/users/user1/

If I try to go one level up I get
"folder not allowed "message.

For space and security reasons It would be good,
if the user could also import data from a different
directory(s).

Is that possible ? What do I need to configure.

thanks

Florian

[abartesaghi]

Florian, since nextPYP runs inside of a Singularity/Apptainer container, by default, no files from outside of the container will be visible once inside the application. To make files visible, you need to bind the directories containing those files into the container using the binds parameter in the [pyp] section of the config.toml configuration file. This is explained in Step 5 of the installation.

Depending on what you want to make visible, it looks like you will need to add something like the following to your configuration file:

[pyp]
binds = [ '/data' ]

For the change to take effect, you will need to restart nextPYP.

[FlorianBeckOle]

Thanks that works.

best
Florian

[kexinliu0001]

hi,

I binded the directories, and tried to restart nextpyp.
but the start process is failed.

how can I overcome it?

[yuhx47]

Hi,

I always encountered the internal server error on the top right corner when I import raw tutorial data,
And the job stuck there.
how can I overcome the error?

Thanks,
Huaxin

[cuchaz]

The "Internal server error" message in the browser means there's another more detailed error message in the server micromon log. The log should be in your local/logs folder. See the installation docs for more info about the log files. There will probably be more information about the error in that log. If you want to share it here, we can try to figure out what went wrong.

[yuhx47]

micromon.txt
Please see the attached file.

Thanks

[cuchaz]

When deleting the slurm section, make sure you delete the [slurm] text from the config file as well, or the website will still try to look for the SLURM configuration.

Once your instance is started, you can setup your admin user by following the first-time setup instructions.

[yuhx47]

I met a situation as following screenshot,
actually, I re-installed the program this time, I set up the admin and users successfully before,
could you give me some advice to find the admin information of the nextPYP settings?

[cuchaz]

It looks like you've already done the first time setup? Try logging in as the user account you created during the setup. There's a login link in the upper right corner of your screenshot. That login account should be an administrator.

If you're not able to log in, then try deleting the database (delete the entire local/db folder), restarting the server, and going through the first-time setup again.

[yuhx47]

Thanks,

It works, I started and logged in,
but as the screenshot shows, the import never finished, the gear keeps running,
and by the way, where is the output written? It seems I did not set the work directory to write files.

[cuchaz]

If your job gets stuck, try canceling it (red button on the right) and running it again. If the job still finishes, but fails somehow, you can try to read logs in the browser first. That blue question mark button on the right will change into a file-looking icon and clicking that button will show logs for that job.

If the job never finishes, try reading the server logs, particularly the micromon log and the hostprocessor log.

And definitely make sure your local and shared folders are writable by the user running the nextpyp process.