dataverse

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  • g.sarigiannis
    G
    This reply could not be found.
    It was a misconfiguration of nginx, all good! Thank you for your help!
  • pdurbin
    phew! 😅 thanks for letting us know!
  • pdurbin
    Have a good weekend everyone!

  • @ralph:fx45.in left the room

  • haker404 joined the room
  • reis.quarteu joined the room
  • reis.quarteu
    R
    Good morning. I work in a portuguese institution that makes research in agriculture topic. I am installing Dataverse in that institution but I have an important question. How can I use an agriculture controlled vocabulary in keywords, is it possible?
  • pdurbin

    R
    reis.quarteu: do you mean a vocabulary like AGROVOC? It's mentioned here: https://github.com/gdcc/dataverse-external-vocab-support/blob/main/docs/readme.md

    Also, will you be in Braga for #dataverse2023?

  • reis.quarteu
    R
    Yes, I will try to be present in #dataverse2023, at least for 1 day.
  • pdurbin
    Nice! I'll be there.
  • reis.quarteu
    R
    👍️
  • pdurbin
    R
    reis.quarteu    : so is AGROVOC what you want? Or some other vocabulary?
  • reis.quarteu
    R
    Yes I think AGROVOC is what I need, but I have a new doubt. 'skosterm' is not a datasetField name of a field defined in a metadata block file, is it? Can the 'skosterm' field-name be replaced by 'keyword' or the 'keyword' field must be be hidden and 'skosterm' must be used?
  • pdurbin
    It's complicated.
    R
    reis.quarteu     can you please create a new issue in https://github.com/IQSS/dataverse/issues ? Something like "AGROVOC for keyword" would be a good title. I'd like to see what
    Q
    qqmyers     thinks.
  • reis.quarteu
    R
    Yes, I will do it.
  • pdurbin
    I see it: https://github.com/IQSS/dataverse/issues/9604 . Thanks!
  • reis.quarteu
    R
    Meanwhile, is it possible to have a simpler solution (a controlled vocabulary with agriculture terms defined by our organization) , something like an internal controlled vocabulary?
  • pdurbin
    For "keyword"?
  • reis.quarteu
    R
    Yes
  • pdurbin
    (in the citation block?)
  • reis.quarteu
    R
    yes
  • pdurbin
    That's what we'll want to ask
    Q
    qqmyers     about in the issue you opened. I'm not sure.
  • An alternative would be to create your own custom metadata block.
  • (I'm asking
    Q
    qqmyers     in Slack, by the way.)
  • reis.quarteu
    R
    In reply to
    pdurbin
  • An alternative would be to create your own custom metadata block.
    • Something similar to the Controlled Vocabulary used for 'Subject' datasetfield in 'citation' MetadataBlock.
  • pdurbin
    Yes, exactly. With your own custom metadata block you could store the controlled vocabulary values in the database.
  • We do this all the time for Harvard Dataverse: https://github.com/IQSS/dataverse.harvard.edu/blob/3fc9bfe9a171b2f7546ad44b1114f5c3920907d1/metadatablocks/custom3d.tsv#L16
  • pdurbin
    You could also attach an external controlled vocabulary (like AGROVOC) to your custom metadata block.
  • Anyway, various options. I'm just not sure about using an external vocab with the existing "Keyword" field in the citation block.
  • Don Sizemore
    D
    @pdurbin cowbox fix Q?
  • pdurbin
    yee haw, whatchu got,
    D
    Don Sizemore     ?
  • Don Sizemore
    D
    @pdurbin I'm kludging up the ec2-create script for perpetuity, and can't remember why it installs nano
  • @pdurbin my kludge is to enable epel-testing ongoing to avoid Ansible package dependency gaps during release churn
  • pdurbin
    I'm a vi guy. You can kill nano
  • Don Sizemore
    D
    @pdurbin good, 'cause I already did. see #dv-tech for a potential and easy fix for the NodeJS package installation failures, since we're back on that again.
  • pdurbin
    L
    luddaniel     (or anyone): what does "Mo" mean at https://github.com/IQSS/dataverse/issues/9606 , please? My guess is mégaoctets.

  • pdurbin
    I'm confused about #jupyterhub_binder:gitter.im vs. #binder:petrichor.me
  • stefankasberger changed their name to sennin

  • Miguel Silva

    Hi everyone.
    The next revision for the 12-bit Smart DAQ (open hardware) will add JTAG debugging capabilities to the PCB electronics.

    Connectivity

    • 2.4GHz WIFI
    • Bluetooth & BLE
    • USB-C serial communication
    • JTAG debugger connector
    • Serial UART connector

    See the full specifications list on the GitHub Wiki page here:
    https://github.com/aeonSolutions/openScience-Smart-DAQ-to-Upload-Live-Experimental-Data-to-a-Data-Repository/wiki/12bit-Smart-DAQ--Hardware-Specifications

  • juliangautier
    J
    I think it's the French version of MB for megabytes
  • Karol Zając joined the room
  • Karol Zając
    K
    Hello, I am trying my best with Dataverse fresh installation and I met a problem with logging as superuser. After prompting for password change, the loading icon shows and nothing happen (no redirect). After going to login page again - newly set password is incorrect, and old one still results with infinite loading. Same after submitting sign up form - but in this case the account is created, and I can log in after refreshing. Can you specify what this problem is connected with? I cannot see any logs in server.log.
  • * Hello, I am trying my best with Dataverse fresh installation and I met a problem with logging as superuser. After prompting for password change, the loading icon shows and nothing happen (no redirect). After going to login page again - newly set password is incorrect, and old one still results with infinite loading. Same after submitting sign up form - but in this case the account is created, and I can log in after refreshing. Can you specify what this problem is connected with? I cannot see any logs related to this in server.log.
  • pdurbin
    K
    Karol Zając    : sorry to hear about the trouble. Have you installed the latest version of Dataverse, 5.13? And did you install it manually by following the installation guide or by using a tool like dataverse-ansible or dataverse-docker?
  • Karol Zając
    K
    Yes, I installed the latest version, following the installation guide and running the install.py script.
  • pdurbin
    Anything in the browser console?
  • Don Sizemore
    D
    K
    Karol Zając    : Hello, Leonid at IQSS asks if you've double-checked your dataverse.siteUrl jvm-option in /usr/local/payara5/glassfish/domains/domain1/config.xml? He's right, it sounds like Dataverse may be redirecting you to localhost.

  • reis.quarteu
    R
    Hello. I tried to use agrovoc on our dataverse but the URL is not known

  • This message is being deleted (worng url)…

  • reis.quarteu
    R
    https://skosmos.dev.finto.fi/rest/v1/search?unique=true&vocab=agrovoc&parent=&lang=en&&query=agr*
  • reis.quarteu
    R
    What can I do to fix it?
  • Karol Zając
    K
    In reply to
    pdurbin
  • Anything in the browser console?
    • Nothing in the browser console.
  • In reply to
    D
    Don Sizemore
  • K
    Karol Zając    : Hello, Leonid at IQSS asks if you've double-checked your dataverse.siteUrl jvm-option in /usr/local/payara5/glassfish/domains/domain1/config.xml? He's right, it sounds like Dataverse may be redirecting you to localhost.
    • If you meant: /usr/local/payara5/glassfish/domains/domain1/config/domain.xml, it contains:
    <jvm-options>-Ddataverse.siteUrl=http://${dataverse.fqdn}:8080</jvm-options>.
  • Don Sizemore
    D
    K
    Karol Zając    : that's likely one problem, if not the. is your instance listening externally on port 80 instead of 8080 (or better yet, using https)?
  • Don Sizemore
    D
    @pdurbin you're correct that we don't grab setup-all.*.log but we can
  • pdurbin
    K
    Karol Zając    : please also verify what <jvm-options>-Ddataverse.fqdn... says
  • D
    Don Sizemore    : great! Should I open an issue?
  • Don Sizemore
    D
    @pdurbin you're welcome to, or I will.
  • pdurbin
    done! https://github.com/GlobalDataverseCommunityConsortium/dataverse-ansible/issues/289 thank you!
  • sennin changed their name to stefankasberger
  • Karol Zając
    K
    In reply to
    D
    Don Sizemore
  • K
    Karol Zając    : that's likely one problem, if not the. is your instance listening externally on port 80 instead of 8080 (or better yet, using https)?
    • it is http and 8080 port number
  • In reply to
    pdurbin
  • K
    Karol Zając    : please also verify what <jvm-options>-Ddataverse.fqdn... says
    • Ddataverse.fqdn value is a FQDN that I am passing during installation, and it is ported (DNAT) to our available IP address.
  • Don Sizemore
    D
    K
    Karol Zając    : can the Dataverse instance reach itself via the expanded dataverse.siteurl value?
  • pdurbin
    K
    Karol Zając    : like
    D
    Don Sizemore     is saying the siteUrl should be the final URL that users see, the one that you put on flyers around campus
  • container meeting in about 45 minutes: https://ct.gdcc.io
  • Don Sizemore
    D
    K
    Karol Zając    : well, siteUrl needs to be correct, and it needs to be reachable by the Payara service over that URL. I'm wondering if your NAT setup doesn't allow this.
  • Karol Zając
    K
    We will try to set up a reverse proxy to reach the instance on the proper URL. Thank you!
  • Don Sizemore
    D
    K
    Karol Zając    : if you're using Shibboleth you'll need to use Apache (for mod_shib). otherwise you can just use nginx or traefik or whatever proxy you'd like.
  • @pdurbin I'm about to head to campus and will likely miss the container meeting. I'm therefore proxying to you to make decisions for me.
  • g.sarigiannis
    G
    hello
    P
    pdurbin     , is there a way to restrict Dataverse guests to only view datasets?
  • pdurbin
    D
    Don Sizemore    : heh. Ok. I wish I was skipping. I'd go listen to Tom Hanks: https://www.thecrimson.com/article/2023/3/21/tom-hanks-commencement/
  • G
    g.sarigiannis    : you don't want guests to see collections (dataverses) or files?
  • g.sarigiannis
    G
    We want guests to be able to only view published datasets, not download them. In addition, we don't want them to be able to view unpublished datasets/dataverses
  • Most important thing would be to not have the DownloadFile role permission as a default for non-registered users
  • Don Sizemore
    D
    G
    g.sarigiannis    : there is a "meta group" :AllUsers IIRC from which you may revoke downloading permissions? or perhaps :unauthenticated-users if that exists
  • pdurbin
    G
    g.sarigiannis    : does restricting files help?
  • g.sarigiannis
    G
    P
    pdurbin    : yes that's what we are going to go with if there's no other option
  • pdurbin
    Would this help? Dataverse setting to restrict files by default #6158 - https://github.com/IQSS/dataverse/issues/6158
  • g.sarigiannis
    G
    That would be very helpful indeed
  • g.sarigiannis
    G
    D
    Don Sizemore    : the default permissions for AllUsers seem to be ViewPublishedDataset, ViewUnpublishedDataset and DownloadFile. I don't see any way to edit this, at least from the dashboard / dataverse roles + permissions. Perhaps this can be changed on the backend somewhere?
  • So f.e. you could allow guests to keep the ViewUnpublishedDataset, ViewPublishedDataset and maybe redirect them to the login screen when they attempt to download a file, or just a produce a message stating that you need to be logged in to download files
  • Don Sizemore
    D
    G
    g.sarigiannis    : you can define a custom role: https://guides.dataverse.org/en/latest/api/native-api.html#create-a-new-role-in-a-dataverse-collection
  • g.sarigiannis
    G
    Yup, the issue with what you sent is that any role you create would be a subgroup of the guest role
  • Don Sizemore
    D
    you could assign that to the root collection, then apply inheritance: https://guides.dataverse.org/en/latest/api/native-api.html#inherit-dataverse-collection-role-assignments
  • if you want to edit the default role, you may have to tinker in the DB
  • g.sarigiannis
    G
    yup I thought so, just prompted to confirm this is the way to go and whether going this way will have any consequences that you are aware of
  • Don Sizemore
    D
    I would ask
    P
    pdurbin     to be certain
  • pdurbin
    last I checked AllUsers was hard coded
  • related: https://github.com/IQSS/dataverse/issues/9119
  • Don Sizemore
    D
    @pdurbin 48 open issues. that dude's a real pain in the butt ;)
  • pdurbin
    ha
  • poikilotherm (CEST,UTC+2)
    In reply to
    D
    Don Sizemore
  • @pdurbin 48 open issues. that dude's a real pain in the butt ;)
    • You referring to me? 🤨 /me clicks nuckels
  • * You referring to me? 🤨 /me clicks nuckels (:wink:)
  • * You referring to me? 🤨 /me clicks nuckels (😉)
  • pdurbin
    don't make me run my open issues by author script again
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