Over in the Development Environment section we described the “happy path” of when everything goes right as you set up your Dataverse development environment. Here are some common problems and solutions for when things go wrong.
Contents:
For unknown reasons, Netbeans will sometimes change the following line under src/main/webapp/WEB-INF/glassfish-web.xml:
<context-root>/</context-root>
Sometimes Netbeans will change / to /dataverse. Sometimes it will delete the line entirely. Either way, you will see very strange behavior when attempting to click around Dataverse in a browser. The home page will load but icons will be missing. Any other page will fail to load entirely and you’ll see a Glassfish error.
The solution is to put the file back to how it was before Netbeans touched it. If anyone knows of an open Netbeans bug about this, please let us know.
If you have trouble with the SMTP server, consider editing the install script to disable the SMTP check.
Out of the box, no emails will be sent from your development environment. This is because you have to set the :SystemEmail setting and make sure you’ve configured your SMTP server correctly.
You can configure :SystemEmail like this:
curl -X PUT -d 'Davisverse SWAT Team <davisthedog@harvard.edu>' http://localhost:8080/api/admin/settings/:SystemEmail
Unfortunately for developers not at Harvard, the installer script gives you by default an SMTP server of mail.hmdc.harvard.edu but you can specify an alternative SMTP server when you run the installer.
You can check the current SMTP server with the asadmin command:
./asadmin get server.resources.mail-resource.mail/notifyMailSession.host
This command helps verify what host your domain is using to send mail. Even if it’s the correct hostname, you may still need to adjust settings. If all else fails, there are some free SMTP service options available such as Gmail and MailGun. This can be configured from the GlassFish console or the command line.
From this window you can modify certain fields of your Dataverse’s notifyMailSession, which is the JavaMail session for outgoing system email (such as on user signup or data publication). Two of the most important fields we need are:
Most of the other defaults can safely be left as is. Default Sender Address indicates the address that your installation’s emails are sent from.
If your user credentials for the SMTP server require a password, you’ll need to configure some Additional Properties at the bottom.
IMPORTANT: Before continuing, it’s highly recommended that your Default User account does NOT use a password you share with other accounts, as one of the additional properties includes entering the Default User’s password (without concealing it on screen). For smtp.gmail.com you can safely use an app password or create an extra Gmail account for use with your Dataverse dev environment.
Authenticating yourself to a Mail Host can be tricky. As an example, we’ll walk through setting up our JavaMail Session to use smtp.gmail.com as a host by way of SSL on port 465. Use the Add Property button to generate a blank property for each name/value pair.
| Name | Value |
|---|---|
| mail.smtp.auth | true |
| mail.smtp.password | [user’s (app) password*] |
| mail.smtp.port | 465 |
| mail.smtp.socketFactory.port | 465 |
| mail.smtp.socketFactory.fallback | false |
| mail.smtp.socketFactory.class | javax.net.ssl.SSLSocketFactory |
*WARNING: Entering a password here will not conceal it on-screen. It’s recommended to use an app password (for smtp.gmail.com users) or utilize a dedicated/non-personal user account with SMTP server auths so that you do not risk compromising your password.
Save these changes at the top of the page and restart your Glassfish server to try it out.
The mail session can also be set from command line. To use this method, you will need to delete your notifyMailSession and create a new one. See the below example:
./asadmin delete-javamail-resource mail/MyMailSession./asadmin create-javamail-resource --mailhost [smtp.gmail.com] --mailuser [test\@test\.com] --fromaddress [test\@test\.com] --property mail.smtp.auth=[true]:mail.smtp.password=[password]:mail.smtp.port=[465]:mail.smtp.socketFactory.port=[465]:mail.smtp.socketFactory.fallback=[false]:mail.smtp.socketFactory.class=[javax.net.ssl.SSLSocketFactory] mail/notifyMailSessionThese properties can be tailored to your own preferred mail service, but if all else fails these settings work fine with Dataverse development environments for your localhost.
If you have an old copy of the database and old Solr data and want to start fresh, here are the recommended steps:
scripts/search/clearYou may also find https://github.com/IQSS/dataverse/blob/develop/scripts/deploy/phoenix.dataverse.org/deploy and related scripts interesting because they demonstrate how we have at least partially automated the process of tearing down a Dataverse installation and having it rise again, hence the name “phoenix.” See also “Fresh Reinstall” in the Installation section of the Installation Guide.
If you’ve reconfigured from EZID to DataCite and are seeing Response code: 400, [url] domain of URL is not allowed it’s probably because your dataverse.siteUrl JVM option is unset or set to localhost (-Ddataverse.siteUrl=http://localhost:8080). You can try something like this:
./asadmin delete-jvm-options '-Ddataverse.siteUrl=http\://localhost\:8080'
./asadmin create-jvm-options '-Ddataverse.siteUrl=http\://demo.dataverse.org'
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