本文整理匯總了Python中qiita_ware.ebi.EBISubmission.generate_run_xml方法的典型用法代碼示例。如果您正苦於以下問題：Python EBISubmission.generate_run_xml方法的具體用法？Python EBISubmission.generate_run_xml怎麽用？Python EBISubmission.generate_run_xml使用的例子？那麽, 這裏精選的方法代碼示例或許可以為您提供幫助。您也可以進一步了解該方法所在類qiita_ware.ebi.EBISubmission的用法示例。
在下文中一共展示了EBISubmission.generate_run_xml方法的2個代碼示例，這些例子默認根據受歡迎程度排序。您可以為喜歡或者感覺有用的代碼點讚，您的評價將有助於係統推薦出更棒的Python代碼示例。
示例1: test_generate_run_xml
# 需要導入模塊: from qiita_ware.ebi import EBISubmission [as 別名]
# 或者: from qiita_ware.ebi.EBISubmission import generate_run_xml [as 別名]
def test_generate_run_xml(self):
submission = EBISubmission('001', 'teststudy', 'test asbstract',
'metagenome')
submission.add_sample('test1')
submission.add_sample_prep('test1', 'ILLUMINA', 'fastq',
join(self.path, '__init__.py'),
'experiment description',
'library protocol')
xmlelement = submission.generate_run_xml()
xml = minidom.parseString(ET.tostring(xmlelement))
xmlstring = xml.toprettyxml(indent=' ', encoding='UTF-8')
obs_stripped = ''.join([l.strip() for l in xmlstring.splitlines()])
exp_stripped = ''.join([l.strip() for l in RUNXML.splitlines()])
self.assertEqual(obs_stripped, exp_stripped)示例2: test_generate_run_xml
# 需要導入模塊: from qiita_ware.ebi import EBISubmission [as 別名]
# 或者: from qiita_ware.ebi.EBISubmission import generate_run_xml [as 別名]
def test_generate_run_xml(self):
submission = EBISubmission('001', 'teststudy', 'test asbstract',
investigation_type='Other',
new_investigation_type='metagenome')
submission.add_sample('test1', '9606', 'homo sapiens', 'desc1')
submission.add_sample_prep('test1', 'ILLUMINA', 'fastq',
self.sample1_fp,
'experiment description',
'library protocol')
xmlelement = submission.generate_run_xml()
xml = minidom.parseString(ET.tostring(xmlelement))
# insert the proper EBI directory, since it is a timestamp and hard
# to predict
RUNXML_mod = RUNXML % {
'study_alias': submission._get_study_alias(),
'ebi_dir': submission.ebi_dir,
'organization_prefix': qiita_config.ebi_organization_prefix}
xmlstring = xml.toprettyxml(indent=' ', encoding='UTF-8')
obs_stripped = ''.join([l.strip() for l in xmlstring.splitlines()])
exp_stripped = ''.join([l.strip() for l in RUNXML_mod.splitlines()])
self.assertEqual(obs_stripped, exp_stripped)