本文整理汇总了Python中qiita_db.data.PreprocessedData.update_vamps_status方法的典型用法代码示例。如果您正苦于以下问题：Python PreprocessedData.update_vamps_status方法的具体用法？Python PreprocessedData.update_vamps_status怎么用？Python PreprocessedData.update_vamps_status使用的例子？那么恭喜您, 这里精选的方法代码示例或许可以为您提供帮助。您也可以进一步了解该方法所在类qiita_db.data.PreprocessedData的用法示例。
在下文中一共展示了PreprocessedData.update_vamps_status方法的2个代码示例，这些例子默认根据受欢迎程度排序。您可以为喜欢或者感觉有用的代码点赞，您的评价将有助于系统推荐出更棒的Python代码示例。
示例1: test_vamps_status
# 需要导入模块: from qiita_db.data import PreprocessedData [as 别名]
# 或者: from qiita_db.data.PreprocessedData import update_vamps_status [as 别名]
def test_vamps_status(self):
ppd = PreprocessedData(1)
# verifying current value
self.assertEqual(ppd.submitted_to_vamps_status(), 'not submitted')
# changing value and then verifying new value
ppd.update_vamps_status('failed')
self.assertEqual(ppd.submitted_to_vamps_status(), 'failed')
# checking failure
with self.assertRaises(ValueError):
ppd.update_vamps_status('not a valid status')示例2: submit_VAMPS
# 需要导入模块: from qiita_db.data import PreprocessedData [as 别名]
# 或者: from qiita_db.data.PreprocessedData import update_vamps_status [as 别名]
def submit_VAMPS(preprocessed_data_id):
"""Submit preprocessed data to VAMPS
Parameters
----------
preprocessed_data_id : int
The preprocesssed data id
"""
preprocessed_data = PreprocessedData(preprocessed_data_id)
study = Study(preprocessed_data.study)
sample_template = SampleTemplate(study.sample_template)
prep_template = PrepTemplate(preprocessed_data.prep_template)
status = preprocessed_data.submitted_to_vamps_status()
if status in ('submitting', 'success'):
raise ValueError("Cannot resubmit! Current status is: %s" % status)
preprocessed_data.update_vamps_status('submitting')
# Generating a tgz
targz_folder = mkdtemp(prefix=qiita_config.working_dir)
targz_fp = join(targz_folder, '%d_%d_%d.tgz' % (study.id,
prep_template.id,
preprocessed_data.id))
targz = taropen(targz_fp, mode='w:gz')
# adding sample/prep
samp_fp = join(targz_folder, 'sample_metadata.txt')
sample_template.to_file(samp_fp)
targz.add(samp_fp, arcname='sample_metadata.txt')
prep_fp = join(targz_folder, 'prep_metadata.txt')
prep_template.to_file(prep_fp)
targz.add(prep_fp, arcname='prep_metadata.txt')
# adding preprocessed data
for _, fp, fp_type in preprocessed_data.get_filepaths():
if fp_type == 'preprocessed_fasta':
targz.add(fp, arcname='preprocessed_fasta.fna')
targz.close()
# submitting
cmd = ("curl -F user=%s -F pass='%s' -F [email protected]%s -F "
"press=UploadFile %s" % (qiita_config.vamps_user,
qiita_config.vamps_pass,
targz_fp,
qiita_config.vamps_url))
obs, _, _ = system_call(cmd)
exp = ("<html>\n<head>\n<title>Process Uploaded File</title>\n</head>\n"
"<body>\n</body>\n</html>")
if obs != exp:
preprocessed_data.update_vamps_status('failure')
return False
else:
preprocessed_data.update_vamps_status('success')
return True