def _import_ncbi_genome(meth, ncbi_genome_name, genome_id):
"""Import a Genome and ContigSet from NCBI into your workspace. [26]
:param ncbi_genome_name: Name of public genome accessible on NCBI FTP. [26.1]
:type ncbi_genome_name: kbtypes.Unicode
:ui_name ncbi_genome_name: NCBI Genome Name
:param genome_id: Output Genome ID. If empty, an ID will be chosen automatically. [26.2]
:type genome_id: kbtypes.KBaseGenomes.Genome
:ui_name genome_id: Genome Object ID
:return: Preparation message
:rtype: kbtypes.Unicode
:input_widget: NcbiGenomeImportInput
:output_widget: GenomeAnnotation
"""
if not genome_id:
chars = ['\'',' ','-','=','.','/','(',')','_',':','+','*','#',',','[',']']
genome_id_prefix = ncbi_genome_name
for ch in chars:
genome_id_prefix = genome_id_prefix.replace(ch, '_')
genome_id = genome_id_prefix + '.ncbi'
meth.stages = 1
token, workspace = meth.token, meth.workspace_id
cmpClient = GenomeComparison(url = service.URLS.genomeCmp, token = token)
import_ncbi_genome_params = {
'genome_name': ncbi_genome_name,
'out_genome_ws': workspace,
'out_genome_id': genome_id,
}
cmpClient.import_ncbi_genome(import_ncbi_genome_params)
return json.dumps({'ws_name': workspace, 'ws_id': genome_id})
