Python GirderClient.createItem方法代碼示例

# 需要導入模塊: from girder_client import GirderClient [as 別名]
# 或者: from girder_client.GirderClient import createItem [as 別名]
            'name': 'Data',
            'description': 'Data Folder',
            'public': 'true'
        })
        c.post('folder', parameters={
            'parentType': 'collection',
            'parentId': collection['_id'],
            'name': 'Analyses',
            'description': 'Analysis folder',
            'public': 'true'
        })
    else:
        collection = collection_search['collection'][0]

    # Get the 'Analyses' folder for this collection.
    analysis_folder = c.load_or_create_folder('Analyses', collection['_id'], 'collection')
    folder_id = analysis_folder['_id']

    # Read this analysis into a Python dictionary and upload it to Girder.
    analysis = {}
    with open (fullpath, "r") as analysis_file:
        analysis_str = analysis_file.read()
    try:
      analysis['analysis'] = json.loads(analysis_str)
    except ValueError:
      print "Could not read valid JSON from %s" % analysis_filename
      continue
    item = c.createItem(folder_id, analysis_name, analysis_name)
    c.addMetadataToItem(item['_id'], analysis)
    print "%s successfully uploaded to %s" % (analysis_filename, collection_name)

# 需要導入模塊: from girder_client import GirderClient [as 別名]
# 或者: from girder_client.GirderClient import createItem [as 別名]
  uploadACR = True

searchPGS = c.get('resource/search', {
    'q': 'Phylogenetic signal',
    'types': '["item"]'
})
if len(searchPGS['item']) == 0:
  uploadPGS = True

# Read our analyses into Python dictionaries and upload them to girder.
if uploadACR:
  ACR = {}
  with open ("%s/ancestral-state/aceArbor.json" % args.path, "r") as acrFile:
      acrStr = acrFile.read()
  ACR['analysis'] = json.loads(acrStr)
  item = c.createItem(folderId, 'aceArbor', 'Ancestral state reconstruction')
  c.addMetadataToItem(item['_id'], ACR)
  print "aceArbor successfully uploaded"
else:
  print "aceArbor already exists"

if uploadPGS:
  PGS = {}
  with open ("%s/phylogenetic-signal/Phylogenetic_signal.json" % args.path, "r") as pgsFile:
      pgsStr = pgsFile.read()
  PGS['analysis'] = json.loads(pgsStr)
  item = c.createItem(folderId, 'Phylogenetic signal', 'Phylogenetic signal')
  c.addMetadataToItem(item['_id'], PGS)
  print "Phylogenetic signal successfully uploaded"
else:
  print "Phylogenetic signal already exists"

# 需要導入模塊: from girder_client import GirderClient [as 別名]
# 或者: from girder_client.GirderClient import createItem [as 別名]
output_file_name = input_file_name.replace('.nc', '.json')

try:
    # Now download the dataset
    (fd, filepath) = tempfile.mkstemp()
    os.close(fd)
    client.downloadFile(fileId, filepath)

    # Create temp file and convert to GeoJs contour JSON format
    output_dir = tempfile.mkdtemp()
    output_filepath = os.path.join(output_dir, output_file_name)
    with open(output_filepath, 'w') as fp:
        fp.write(json_util.dumps(convert(filepath, variable, timestep)))

    # Create an item for this file
    output_item = client.createItem(dataset_folder_id, output_file_name, output_file_name)

    # Now upload the result
    client.uploadFileToItem(output_item['_id'], output_filepath)

    output_item_id = output_item['_id']

    # Finally promote item to dataset
    client.post('minerva_dataset/%s/dataset' % output_item_id)

finally:
    if filepath and os.path.exists(filepath):
        os.remove(filepath)
    if output_dir and os.path.exists(output_dir):
        shutil.rmtree(output_dir)