Python unzipall Examples

Example #1

File: drugbank_upload.py Project: Quiltomics/mychem.info

 def load_data(self,data_folder):
     xmlfiles = glob.glob(os.path.join(data_folder,"*.xml"))
     if not xmlfiles:
         self.logger.info("Unzipping drugbank archive")
         unzipall(data_folder)
         self.logger.info("Load data from '%s'" % data_folder)
         xmlfiles = glob.glob(os.path.join(data_folder,"*.xml"))
     assert len(xmlfiles) == 1, "Expecting one xml file, got %s" % repr(xmlfiles)
     input_file = xmlfiles.pop()
     assert os.path.exists(input_file), "Can't find input file '%s'" % input_file
     return self.exclude_fields(load_data)(input_file)

Example #2

 def post_dump(self, *args, **kwargs):
     self.logger.info("Uncompressing files in '%s'" % self.new_data_folder)
     unzipall(self.new_data_folder)
     prev = os.path.abspath(os.curdir)
     try:
         os.chdir(os.path.join(self.new_data_folder, "snpEff"))
         self.logger.info("Downloading snpeff databases")
         subprocess.check_output(
             ["java", "-jar", "snpEff.jar", "download", "hg19"])
         subprocess.check_output(
             ["java", "-jar", "snpEff.jar", "download", "hg38"])
     finally:
         os.chdir(prev)

Example #3

File: unii_dump.py Project: SuLab/biothings.drugs

 def post_dump(self, *args, **kwargs):
     unzipall(self.new_data_folder)

Example #4

File: grasp_dump.py Project: SuLab/myvariant.info

 def post_dump(self):
     self.logger.info("Unzipping files in '%s'" % self.new_data_folder) 
     unzipall(self.new_data_folder)

Example #5

File: dbnsfp_dump.py Project: Quiltomics/myvariant.info

 def post_dump(self, *args, **kwargs):
     self.logger.info("Unzipping files in '%s'" % self.new_data_folder)
     unzipall(self.new_data_folder)

Example #6

File: ndc_dump.py Project: shunsunsun/mychem.info

 def post_dump(self, *args, **kwargs):
     unzipall(self.new_data_folder)

Example #7

 def post_dump(self):
     self.logger.info("Uncompressing files in '%s'" % self.new_data_folder)
     unzipall(self.new_data_folder)