sdk/cwl/arvados_cwl/arvdocker.py

   1 import logging
   2 import sys
   3
   4 import cwltool.docker
   5 from cwltool.errors import WorkflowException
   6 import arvados.commands.keepdocker
   7
   8
   9 logger = logging.getLogger('arvados.cwl-runner')
  10
  11 def arv_docker_get_image(api_client, dockerRequirement, pull_image, project_uuid):
  12     """Check if a Docker image is available in Keep, if not, upload it using arv-keepdocker."""
  13
  14     if "dockerImageId" not in dockerRequirement and "dockerPull" in dockerRequirement:
  15         dockerRequirement["dockerImageId"] = dockerRequirement["dockerPull"]
  16
  17     sp = dockerRequirement["dockerImageId"].split(":")
  18     image_name = sp[0]
  19     image_tag = sp[1] if len(sp) > 1 else None
  20
  21     images = arvados.commands.keepdocker.list_images_in_arv(api_client, 3,
  22                                                             image_name=image_name,
  23                                                             image_tag=image_tag)
  24
  25     if not images:
  26         imageId = cwltool.docker.get_image(dockerRequirement, pull_image)
  27         args = ["--project-uuid="+project_uuid, image_name]
  28         if image_tag:
  29             args.append(image_tag)
  30         logger.info("Uploading Docker image %s", ":".join(args[1:]))
  31         try:
  32             arvados.commands.keepdocker.main(args, stdout=sys.stderr)
  33         except SystemExit:
  34             raise WorkflowException()
  35
  36     images = arvados.commands.keepdocker.list_images_in_arv(api_client, 3,
  37                                                             image_name=image_name,
  38                                                             image_tag=image_tag)
  39
  40     #return dockerRequirement["dockerImageId"]
  41
  42     pdh = api_client.collections().get(uuid=images[0][0]).execute()["portable_data_hash"]
  43     return pdh