Release/1.8.0 (#82)

* Sync development with master (#61)

* Provide java example dropbox 

Co-authored-by: Sven F <[email protected]>
Co-authored-by: luiskuhn <[email protected]>

Author: 3 people

CHANGELOG.md

@@ -1,5 +1,9 @@
 # Changelog
 
+## 1.8.0 2021-05-11
+
+* Add example Java dropbox
+
 ## 1.7.0 2021-03-19
 
 * Provides fully tested functionality to register generic imaging data, with OMERO server support (v5.4.10). [Link to PR](https://github.com/qbicsoftware/etl-scripts/pull/78)

README.md

@@ -30,6 +30,11 @@ OpenBIS loads Java libararies on startup, if they are provided in a `lib` folder
 
 We decoupled some shared functionality in the [data-model-lib](https://github.com/qbicsoftware/data-model-lib) and the [core-utils-lib](https://github.com/qbicsoftware/core-utils-lib). Please make sure to deploy them as well in of the lib folders, such that the classes are loaded by the etlserver class loader and available during runtime.
 
+##4. Dependencies for the example dropbox written in pure Java/Groovy
+
+Just deploy the compiled JAR of the [Java openBIS dropbox](https://github
+.com/qbicsoftware/java-openbis-dropboxes) in the `lib` folder of the dropbox (`
+./register-example-java-dropbox/lib`).
 
 ## Data format guidelines
 

drop-boxes/register-example-java-dropbox/README.md

@@ -0,0 +1,16 @@
+# Example openBIS dropbox written in Java
+
+Please find the source code of the ETL routine that this article is referring to in the
+[Java openBIS dropboxes](https://github.com/qbicsoftware/java-openbis-dropboxes) Github repository.
+
+## Installation
+
+Please provide the Java binaries as JAR from the [Java openBIS dropbox](https://github.com/qbicsoftware/java-openbis-dropboxes) in this directories
+folder `./lib`.
+
+The DSS needs to be restarted in order to activate this dropbox.
+
+## ETL routine
+
+This dropbox expects a file of any type and creates a new openBIS dataset from it. This dataset
+is then attached to a fixed sample with id `/TEST28/QXEGD018AW` for demonstration purposes.

drop-boxes/register-example-java-dropbox/lib/README.md

@@ -0,0 +1,2 @@
+Put the compiled Java binaries as JARs in this directory in order
+to be loaded by the openBIS DSS class loader on DSS startup.

drop-boxes/register-example-java-dropbox/plugin.properties

@@ -0,0 +1,11 @@
+#
+# Drop box for registering a fastq file as a data set
+#
+# Variables:
+#   incoming-root-dir
+#     Path to the directory which contains incoming directories for drop boxes.
+incoming-dir = ${incoming-root-dir}/QBiC-register-example-java-data
+incoming-data-completeness-condition = marker-file
+top-level-data-set-handler = ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2
+program-class = life.qbic.registration.MainETL
+storage-processor = ch.systemsx.cisd.etlserver.DefaultStorageProcessor