A configuration change pushed to the extractors-plantcv repository caused our Kubernetes version of the plantcv extractor to suddenly fail to connect to the test instance of Clowder we have set up for NDS Labs.

It seems as though starting the PlantCV extractor includes a git pull which, due to the order that we are making the config changes on disk, will always fail.

See the docker start.sh for PlantCV for more information.
As you can see, on lines 19-23, we manually alter the file on disk.
Then on line 37, we attempt to pull from BitBucket. Since we have manually modified config.py (via the set of sed commands), this pull is destined to fail, as it also includes changes to config.py.

We may need to revisit the Dockerfiles for Clowder to ensure that we know for certain which version of the code is running, and to ensure that we have the ability to re-run a particular version if necessary, instead of relying on the HEAD commit to be correct.