本文整理汇总了Python中askomics.libaskomics.rdfdb.SparqlQueryBuilder.SparqlQueryBuilder.get_all_taxon方法的典型用法代码示例。如果您正苦于以下问题：Python SparqlQueryBuilder.get_all_taxon方法的具体用法？Python SparqlQueryBuilder.get_all_taxon怎么用？Python SparqlQueryBuilder.get_all_taxon使用的例子？那么, 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askomics.libaskomics.rdfdb.SparqlQueryBuilder.SparqlQueryBuilder的用法示例。
在下文中一共展示了SparqlQueryBuilder.get_all_taxon方法的1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: source_files_overview
# 需要导入模块: from askomics.libaskomics.rdfdb.SparqlQueryBuilder import SparqlQueryBuilder [as 别名]
# 或者: from askomics.libaskomics.rdfdb.SparqlQueryBuilder.SparqlQueryBuilder import get_all_taxon [as 别名]
def source_files_overview(self):
"""
Get preview data for all the available files
"""
self.log.debug(" ========= Askview:source_files_overview =============")
sfc = SourceFileConvertor(self.settings, self.request.session)
source_files = sfc.get_source_files()
data = {}
data['files'] = []
# get all taxon in the TS
sqb = SparqlQueryBuilder(self.settings, self.request.session)
ql = QueryLauncher(self.settings, self.request.session)
res = ql.execute_query(sqb.get_all_taxon().query)
taxons_list = []
for elem in res['results']['bindings']:
taxons_list.append(elem['taxon']['value'])
data['taxons'] = taxons_list
for src_file in source_files:
infos = {}
infos['name'] = src_file.name
infos['type'] = src_file.type
if src_file.type == 'tsv':
try:
infos['headers'] = src_file.headers
infos['preview_data'] = src_file.get_preview_data()
infos['column_types'] = []
header_num = 0
for ih in range(0, len(infos['headers'])):
#if infos['headers'][ih].find("@")>0:
# infos['column_types'].append("entity")
#else:
infos['column_types'].append(src_file.guess_values_type(infos['preview_data'][ih], infos['headers'][header_num]))
header_num += 1
except Exception as e:
traceback.print_exc(file=sys.stdout)
infos['error'] = 'Could not read input file, are you sure it is a valid tabular file?'
self.log.error(str(e))
data['files'].append(infos)
elif src_file.type == 'gff':
try:
entities = src_file.get_entities()
infos['entities'] = entities
except Exception as e:
self.log.debug('error !!')
traceback.print_exc(file=sys.stdout)
infos['error'] = 'Could not parse the file, are you sure it is a valid GFF3 file?'
self.log.error('error with gff examiner: ' + str(e))
data['files'].append(infos)
elif src_file.type == 'ttl':
infos['preview'] = src_file.get_preview_ttl()
data['files'].append(infos)
return data