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Data Source Versions

Your InterMine data parser has a version.

What is the version for my data parser?

The version for your mine’s custom source is the version value in the build.gradle file in your sources directory. When you install your source, the JAR of the correct version will be created.

# "build.gradle" in the root of your sources directory
group = 'org.intermine'
version = '4.0.1' <-- change this to change your source's version

See FlyMine’s build.gradle file.

We recommend you use semantic versioning.

How do I specify which version of my data parser to use in my build?

To use a specific version, add a parameter to your project XML entry.

<source name="flyatlas" type="flyatlas" version="2.0.0">
  <property name="src.data.dir" location="/data/flyatlas"/>
</source>

You will get an error if it can’t find a JAR with this version. Note that this is a simple string comparison, e.g. “2.0” will NOT match with “2.0.0”.

If no version is provided, the default InterMine version is used. For InterMine’s bio sources, a global variable is set in the gradle.properties file in your mine.

I got an error. Maven can’t find my JAR

Here is an example error:

> Could not find any matches for org.intermine:bio-source-mysource:4.0.+

Maven is looking in your repo and Maven central for your JAR as version 4.0.0. You have two choices:

  1. Update the version of your source to be 4.0.0.
  2. Update your project XML to set the version to look for to 4.0.0.

See the above sections for how to do this.

I got an error. Why is Maven looking in Maven Central for my JAR?

Here is an error when Maven can’t find your JAR:

> Could not find any matches for org.intermine:bio-source-mysource:4.0.+ as no versions of org.intermine:bio-source-mysource are available.
  Searched in the following locations:
      file:/home/$USER/.m2/repository/org/intermine/bio-source-mysource/
      https://jcenter.bintray.com/org/intermine/bio-source-mysource/

You can see that Maven first looking in your local Maven repo, then it looked in the remote Maven repository, JCenter.

This is because in the gradle file, we have specified which repositories to search. Maven will search in order. It will search the first repo for the specified JAR. If it fails, then it will continue to the next repository.

# in build.gradle
repositories {
    mavenLocal() <-- where your installs go
    jcenter() <-- InterMine JARs
    mavenCentral()
}