In order to keep our codebase healthy, the Dataverse project encourages developers to write automated tests in the form of unit tests and integration tests. We also welcome ideas for how to improve our automated testing.
Contents:
Before we dive into the nut and bolts of testing, let’s back up for a moment and think about why we write automated tests in the first place. Writing automated tests is an investment and leads to better quality software. Counterintuitively, writing tests and executing them regularly allows a project to move faster. Martin Fowler explains this well while talking about the health of a codebase:
“This is an economic judgment. Several times, many times, I run into teams that say something like, ‘Oh well. Management isn’t allowing us to do a quality job here because it will slow us down. And we’ve appealed to management and said we need to put more quality in the code, but they’ve said no, we need to go faster instead.’ And my comment to that is well, as soon as you’re framing it in terms of code quality versus speed, you’ve lost. Because the whole point of refactoring is to go faster.
“And this is why I quite like playing a bit more with the metaphor as the health of a codebase. If you keep yourself healthy then you’ll be able to run faster. But if you just say, ‘Well, I want to run a lot so I’m therefore going to run a whole load all the time and not eat properly and not pay attention about this shooting pain going up my leg,’ then you’re not going to be able to run quickly very long. You have to pay attention to your health. And same with the codebase. You have to continuously say, ‘How do we keep it in a healthy state? Then we can go fast,’ because we’re running marathons here with codebases. And if we neglect that internal quality of the codebase, it hits you surprisingly fast.“
—Martin Fowler at https://devchat.tv/ruby-rogues/178-rr-book-club-refactoring-ruby-with-martin-fowler
Security in depth might mean that your castle has a moat as well as high walls. Likewise, when testing, you should consider testing a various layers of the stack using both unit tests and integration tests.
When writing tests, you may find it helpful to first map out which functions of your code you want to test, and then write a functional unit test for each which can later comprise a larger integration test.
Creating unit tests for your code is a helpful way to test what you’ve built piece by piece.
Unit tests can be executed without runtime dependencies on PostgreSQL, Solr, or any other external system. They are the lowest level of testing and are executed constantly on developers’ laptops as part of the build process and via continous integration services in the cloud.
A unit test should execute an operation of your code in a controlled fashion. You must make an assertion of what the expected response gives back. It’s important to test optimistic output and assertions (the “happy path”), as well as unexpected input that leads to failure conditions. Know how your program should handle anticipated errors/exceptions and confirm with your test(s) that it does so properly.
We use a variety of tools to write, execute, and measure the code coverage of unit tests, including Maven, JUnit, Jacoco, GitHub, Travis, and Coveralls. We’ll explain the role of each tool below, but here’s an overview of what you can expect from the automation we’ve set up.
As you prepare to make a pull request, as described in the Version Control section, you will be working on a new branch you create from the “develop” branch. Let’s say your branch is called 1012-private-url. As you work, you are constantly invoking Maven to build the war file. When you do a “clean and build” in Netbeans, Maven runs all the unit tests (anything ending with Test.java) and the runs the results through a tool called Jacoco that calculates code coverage. When you push your branch to GitHub and make a pull request, a web service called Travis CI runs Maven and Jacoco on your branch and pushes the results to Coveralls, which is a web service that tracks changes to code coverage over time.
To make this more concrete, observe that https://github.com/IQSS/dataverse/pull/3111 has comments from a GitHub user called coveralls saying things like “Coverage increased (+0.5%) to 5.547% when pulling dd6ceb1 on 1012-private-url into be5b26e on develop.” Clicking on the comment should lead you to a URL such as https://coveralls.io/builds/7013870 which shows how code coverage has gone up or down. That page links to a page such as https://travis-ci.org/IQSS/dataverse/builds/144840165 which shows the build on the Travis side that pushed the results ton Coveralls.
The main takeaway should be that we care about unit testing enough to measure the changes to code coverage over time using automation. Now let’s talk about how you can help keep our code coverage up by writing unit tests with JUnit.
We are aware that there are newer testing tools such as TestNG, but we use JUnit because it’s tried and true.
If writing tests is new to you, poke around existing unit tests which all end in Test.java and live under src/test. Each test is annotated with @Test and should have at least one assertion which specifies the expected result. In Netbeans, you can run all the tests in it by clicking “Run” -> “Test File”. From the test file, you should be able to navigate to the code that’s being tested by right-clicking on the file and clicking “Navigate” -> “Go to Test/Tested class”. Likewise, from the code, you should be able to use the same “Navigate” menu to go to the tests.
NOTE: Please remember when writing tests checking possibly localized outputs to check against en_US.UTF-8 and UTC
l10n strings!
Existing code is not necessarily written in a way that lends itself to easy testing. Generally speaking, it is difficult to write unit tests for both JSF “backing” beans (which end in Page.java) and “service” beans (which end in Service.java) because they require the database to be running in order to test them. If service beans can be exercised via API they can be tested with integration tests (described below) but a good technique for making the logic testable it to move code to “util beans” (which end in Util.java) that operate on Plain Old Java Objects (POJOs). PrivateUrlUtil.java is a good example of moving logic from PrivateUrlServiceBean.java to a “util” bean to make the code testable.
Often times you will want to test a method multiple times with similar values. In order to avoid test bloat (writing a test for every data combination), JUnit offers Data-driven unit tests with Parameterized.class and Theories.class. This allows a test to be run for each set of defined data values. For reference, take a look at issue https://github.com/IQSS/dataverse/issues/5619 .
Once you’ve written some tests, you’re probably wondering how much you’ve helped to increase the code coverage. In Netbeans, do a “clean and build.” Then, under the “Projects” tab, right-click “dataverse” and click “Code Coverage” -> “Show Report”. For each Java file you have open, you should be able to see the percentage of code that is covered by tests and every line in the file should be either green or red. Green indicates that the line is being exercised by a unit test and red indicates that it is not.
In addition to seeing code coverage in Netbeans, you can also see code coverage reports by opening target/site/jacoco/index.html in your browser.
You might find studying the following test classes helpful in writing tests for commands:
In addition, there is a writeup on “The Testable Command” at https://github.com/IQSS/dataverse/blob/develop/doc/theTestableCommand/TheTestableCommand.md .
You should be aware that some unit tests have been deemed “non-essential” and have been annotated with @Category(NonEssentialTests.class) and are excluded from the “dev” Maven profile, which is the default profile. All unit tests (that have not been annotated with @Ignore), including these non-essential tests, are run from continuous integration systems such as Jenkins and Travis CI with the following mvn command that invokes a non-default profile:
mvn test -P all-unit-tests
Typically https://travis-ci.org/IQSS/dataverse will show a higher number of unit tests executed because it uses the profile above.
Generally speaking, unit tests have been flagged as non-essential because they are slow or because they require an Internet connection. You should not feel obligated to run these tests continuously but you can use the mvn command above to run them. To iterate on the unit test in Netbeans and execute it with “Run -> Test File”, you must temporarily comment out the annotation flagging the test as non-essential.
Unit tests are fantastic for low level testing of logic but aren’t especially real-world-applicable because they do not exercise Dataverse as it runs in production with a database and other runtime dependencies. We test in-depth by also writing integration tests to exercise a running system.
Unfortunately, the term “integration tests” can mean different things to different people. For our purposes, an integration test has the following qualities:
To run the API test suite in an EC2 instance you should first follow the steps in the Deployment section to get set up for AWS in general and EC2 in particular.
You may always retrieve a current copy of the ec2-create-instance.sh script and accompanying group_var.yml file from the `dataverse-ansible repo<https://github.com/IQSS/dataverse-ansible/>`_:
Edit main.yml to set the desired GitHub repo, branch, and to ensure that the API test suite is enabled:
dataverse_repo: https://github.com/IQSS/dataverse.gitdataverse_branch: developdataverse.api.test_suite: truedataverse.sampledata.enabled: trueIf you wish, you may pass the local path of a logging directory, which will tell ec2-create-instance.sh to `grab glassfish, maven and other logs<https://github.com/IQSS/dataverse-ansible/blob/master/ec2/ec2-create-instance.sh#L185>`_ for your review.
Finally, run the script:
$ ./ec2-create-instance.sh -g main.yml -l log_dir
Near the beginning and at the end of the ec2-create-instance.sh output you will see instructions for connecting to the instance via SSH. If you are actively working on a branch and want to refresh the warfile after each commit, you may wish to call a `redeploy.sh<https://github.com/IQSS/dataverse-ansible/blob/master/templates/redeploy.sh.j2>`_ script placed by the Ansible role, which will do a “git pull” against your branch, build the warfile, deploy the warfile, then restart glassfish. By default this script is written to /tmp/dataverse/redeploy.sh. You may invoke the script by appending it to the SSH command in ec2-create’s output:
$ ssh -i your_pem.pem user@ec2-host.aws.com /tmp/dataverse/redeploy.sh
To run the full suite of integration tests on your laptop, we recommend using the “all in one” Docker configuration described in conf/docker-aio/readme.txt in the root of the repo.
Alternatively, you can run tests against Glassfish running on your laptop by following the “getting set up” steps below.
Unit tests are run automatically on every build, but dev environments and servers require special setup to run REST Assured tests. In short, Dataverse needs to be placed into an insecure mode that allows arbitrary users and datasets to be created and destroyed. This differs greatly from the out-of-the-box behavior of Dataverse, which we strive to keep secure for sysadmins installing the software for their institutions in a production environment.
The Development Environment section currently refers developers here for advice on getting set up to run REST Assured tests, but we’d like to add some sort of “dev” flag to the installer to put Dataverse in “insecure” mode, with lots of scary warnings that this dev mode should not be used in production.
The instructions below assume a relatively static dev environment on a Mac. There is a newer “all in one” Docker-based approach documented in the Docker, Kubernetes, and OpenShift section under “Docker” that you may like to play with as well.
For reasons that have been lost to the mists of time, Dataverse really wants you to to have a burrito. Specifically, if you’re trying to run REST Assured tests and see the error “Dataverse config issue: No API key defined for built in user management”, you must run the following curl command (or make an equivalent change to your database):
curl -X PUT -d 'burrito' http://localhost:8080/api/admin/settings/BuiltinUsers.KEY
Without this “burrito” key in place, REST Assured will not be able to create users. We create users to create objects we want to test, such as dataverses, datasets, and files.
In your browser, log in as dataverseAdmin (password: admin) and click the “Edit” button for your root dataverse. Navigate to Permissions, then the Edit Access button. Under “Who can add to this dataverse?” choose “Anyone with a dataverse account can add sub dataverses” if it isn’t set to this already.
Alternatively, this same step can be done with this script: scripts/search/tests/grant-authusers-add-on-root
The root dataverse must be published for some of the REST Assured tests to run.
When run locally (as opposed to a remote server), some of the REST Assured tests require the dataverse.siteUrl JVM option to be set to http://localhost:8080. See JVM Options section in the Installation Guide for advice changing JVM options. First you should check to check your JVM options with:
./asadmin list-jvm-options | egrep 'dataverse|doi'
If dataverse.siteUrl is absent, you can add it with:
./asadmin create-jvm-options "-Ddataverse.siteUrl=http\://localhost\:8080"
DatasetsIT.java exercises the feature where the “identifier” of a DOI can be a digit and requires a sequence to be added to your database. See :IdentifierGenerationStyle under the Configuration section for adding this sequence to your installation of PostgreSQL.
Before writing any new REST Assured tests, you should get the tests to pass in an existing REST Assured test file. BuiltinUsersIT.java is relatively small and requires less setup than other test files.
You do not have to reinvent the wheel. There are many useful methods you can call in your own tests – especially within UtilIT.java – when you need your test to create and/or interact with generated accounts, files, datasets, etc. Similar methods can subsequently delete them to get them out of your way as desired before the test has concluded.
For example, if you’re testing your code’s operations with user accounts, the method UtilIT.createRandomUser(); can generate an account for your test to work with. The same account can then be deleted by your program by calling the UtilIT.deleteUser(); method on the imaginary friend your test generated.
Remember, it’s only a test (and it’s not graded)! Some guidelines to bear in mind:
To execute existing integration tests on your local Dataverse, a helpful command line tool to use is Maven. You should have Maven installed as per the Development Environment guide, but if not it’s easily done via Homebrew: brew install maven.
Once installed, you may run commands with mvn [options] [<goal(s)>] [<phase(s)>].
If you want to run just one particular API test, it’s as easy as you think:
mvn test -Dtest=FileRecordJobIT
To run more than one test at a time, separate by commas:
mvn test -Dtest=FileRecordJobIT,ConfirmEmailIT
To run any test(s) on a particular domain, replace localhost:8080 with desired domain name:
mvn test -Dtest=FileMetadataIT -Ddataverse.test.baseurl='http://localhost:8080'
To see the full list of tests used by the Docker option mentioned above, see run-test-suite.sh.
Measuring the code coverage of integration tests with Jacoco requires several steps. In order to make these steps clear we’ll use “/usr/local/glassfish4” as the Glassfish directory and “glassfish” as the Glassfish Unix user.
In order to get code coverage reports out of Glassfish we’ll be adding jacocoagent.jar to the Glassfish “lib” directory.
First, we need to download Jacoco. Look in pom.xml to determine which version of Jacoco we are using. As of this writing we are using 0.8.1 so in the example below we download the Jacoco zip from https://github.com/jacoco/jacoco/releases/tag/v0.8.1
Note that we are running the following commands as the user “glassfish”. In short, we stop Glassfish, add the Jacoco jar file, and start up Glassfish again.
su - glassfish
cd /home/glassfish
mkdir -p local/jacoco-0.8.1
cd local/jacoco-0.8.1
wget https://github.com/jacoco/jacoco/releases/download/v0.8.1/jacoco-0.8.1.zip
unzip jacoco-0.8.1.zip
/usr/local/glassfish4/bin/asadmin stop-domain
cp /home/glassfish/local/jacoco-0.8.1/lib/jacocoagent.jar /usr/local/glassfish4/glassfish/lib
/usr/local/glassfish4/bin/asadmin start-domain
As the “glassfish” user download instrument_war_jacoco.bash (or skip ahead to the “git clone” step to get the script that way) and give it two arguments:
./instrument_war_jacoco.bash dataverse.war dataverse-jacoco.war
Please note that you’ll want to undeploy the old WAR file first, if necessary.
Run this as the “glassfish” user.
/usr/local/glassfish4/bin/asadmin deploy dataverse-jacoco.war
Note that after deployment the file “/usr/local/glassfish4/glassfish/domains/domain1/config/jacoco.exec” exists and is empty.
Note that even though you see “docker-aio” in the command below, we assume you are not necessarily running the test suite within Docker. (Some day we’ll probably move this script to another directory.) For this reason, we pass the URL with the normal port (8080) that Glassfish runs on to the run-test-suite.sh script.
Note that “/usr/local/glassfish4/glassfish/domains/domain1/config/jacoco.exec” will become non-empty after you stop and start Glassfish. You must stop and start Glassfish before every run of the integration test suite.
/usr/local/glassfish4/bin/asadmin stop-domain
/usr/local/glassfish4/bin/asadmin start-domain
git clone https://github.com/IQSS/dataverse.git
cd dataverse
conf/docker-aio/run-test-suite.sh http://localhost:8080
(As an aside, you are not limited to API tests for the purposes of learning which code paths are being executed. You could click around the GUI, for example. Jacoco doesn’t know or care how you exercise the application.)
Run these commands as the “glassfish” user. The cd dataverse means that you should change to the directory where you cloned the “dataverse” git repo.
cd dataverse
java -jar /home/glassfish/local/jacoco-0.8.1/lib/jacococli.jar report --classfiles target/classes --sourcefiles src/main/java --html target/coverage-it/ /usr/local/glassfish4/glassfish/domains/domain1/config/jacoco.exec
target/coverage-it/index.html is the place to start reading the code coverage report you just created.
Load and performance testing is conducted on an as-needed basis but we’re open to automating it. As of this writing Locust ( https://locust.io ) scripts at https://github.com/IQSS/dataverse-helper-scripts/tree/master/src/stress_tests have been used.
One way of generating load is by downloading many files. You can download download-files.sh, make it executable (chmod 755), and run it with --help. You can use -b to specify the base URL of the Dataverse installation and -s to specify the number of seconds to wait between requests like this:
./download-files.sh -b https://dev1.dataverse.org -s 2
The script requires a file called files.txt to operate and database IDs for the files you want to download should each be on their own line.
The Dataverse Project currently makes use of two Continuous Integration platforms, Travis and Jenkins.
Travis builds are configured via .travis.yml and a GitHub webhook <https://docs.travis-ci.com/user/notifications/#configuring-webhook-notifications>; build output is viewable at https://travis-ci.org/IQSS/dataverse/builds
Our Jenkins config is a work in progress and may be viewed at https://github.com/IQSS/dataverse-jenkins/ A corresponding GitHub webhook is required. Build output is viewable at https://jenkins.dataverse.org/
As always, pull requests to improve our continuous integration configurations are welcome.
In the future, CI builds in ephemeral build environments and Docker builds can benefit from caching all dependencies and plugins. As Dataverse is a huge project, build times can be enhanced by avoiding re-downloading everything when the Maven POM is unchanged. To seed the cache, use the following Maven goal before using Maven in (optional) offline mode in your scripts:
mvn de.qaware.maven:go-offline-maven-plugin:resolve-dependencies``
mvn -o package -DskipTests
The example above builds the WAR file without running any tests. For other scenarios: not using offline mode allows Maven to download more dynamic dependencies, which are not easy to track, like Surefire Plugins. Overall downloads will reduced anyway.
You will obviously have to utilize caching functionality of your CI service or do proper Docker layering.
A server at http://phoenix.dataverse.org has been set up to test the latest code from the develop branch. Testing is done using chained builds of Jenkins jobs:
We haven’t thought much about a good way to publicly list the “IT” classes that are executed against the phoenix server. (Currently your best bet is to look at the Executing Maven line at the top of the “Full Log” of “Console Output” of phoenix.dataverse.org-apitest-develop Jenkins job mentioned above.) We endeavor to keep the list of tests in the “all-in-one” Docker environment described above in sync with the list of tests configured in Jenkins. That is to say, refer to run-test-suite.sh mentioned in conf/docker-aio/readme.txt for the current list of IT tests that are expected to pass. Here’s a dump of that file:
#!/bin/sh
# This is the canonical list of which "IT" tests are expected to pass.
dvurl=$1
if [ -z "$dvurl" ]; then
dvurl="http://localhost:8084"
fi
# Please note the "dataverse.test.baseurl" is set to run for "all-in-one" Docker environment.
# TODO: Rather than hard-coding the list of "IT" classes here, add a profile to pom.xml.
mvn test -Dtest=DataversesIT,DatasetsIT,SwordIT,AdminIT,BuiltinUsersIT,UsersIT,UtilIT,ConfirmEmailIT,FileMetadataIT,FilesIT,SearchIT,InReviewWorkflowIT,HarvestingServerIT,MoveIT,MakeDataCountApiIT,FileTypeDetectionIT,EditDDIIT,ExternalToolsIT,AccessIT -Ddataverse.test.baseurl=$dvurl
Dataverse aims to improve the user experience for those with disabilities, and are in the process of following the recommendations of the Harvard University Digital Accessibility Policy, which use the Worldwide Web Consortium’s Web Content Accessibility Guidelines version 2.1, Level AA Conformance (WCAG 2.1 Level AA) as the standard.
To report an accessibility issue with Dataverse, you can create a new issue in our GitHub repo at: https://github.com/IQSS/dataverse/issues/
Our development process will incorporate automated testing provided by tools like SiteImprove and Accessibility Management Platform (AMP) from Level Access, to run accessibility reports for the application.
Developers who contribute front-end UI code are responsible for understanding the requirements of this standard and the tools and methods for securing conformance with it.
There are browser developer tools such as the Wave toolbar by WebAIM (available for Chrome, Firefox) and the Siteimprove Accessibility Checker (available for Chrome, Firefox) that will generate reports for a single page. It is required that developers utilize these tools to catch any accessibility issues with pages or features that are being added to the application UI.
We’d like to make improvements to our automated testing. See also ‘this thread from our mailing list <https://groups.google.com/forum/#!topic/dataverse-community/X8OrRWbPimA>’_ asking for ideas from the community, and discussion at ‘this GitHub issue. <https://github.com/IQSS/dataverse/issues/2746>’_
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