test

EBI-Metagenomics · Feb 20, 2024 · dbb4d04 · dbb4d04
1 parent ef64bee
commit dbb4d04
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/genomeuploader/genome_upload.py b/genomeuploader/genome_upload.py
@@ -400,7 +400,7 @@ def extract_ENA_info(genomeInfo, uploadDir, webin, password):
                     if runAccession in runsSet:
                         sampleAccession = ENA_info[run]["sample_accession"]
                         sampleInfo = ena.get_sample(sampleAccession, webin, password)
-
+                        print(sampleInfo)
                         location = sampleInfo["location"]
                         latitude, longitude = '', ''
                         if 'N' in location:
@@ -449,7 +449,7 @@ def extract_ENA_info(genomeInfo, uploadDir, webin, password):
                             file.seek(0)
                             file.write(json.dumps(tempDict))
                             file.truncate()
-
+    print(tempDict)
     tempDict = {**tempDict, **backupDict}
     combine_ENA_info(genomeInfo, tempDict)
 
@@ -922,11 +922,11 @@ def create_genome_dictionary(self, samples_xml):
         logger.info('Retrieving data for MAG submission...')
 
         genomeInfo = extract_genomes_info(self.genomeMetadata, self.genomeType, self.live)
-        print(genomeInfo)
+
         if not os.path.exists(samples_xml) or self.force:
             extract_ENA_info(genomeInfo, self.upload_dir, self.username, self.password)
             logger.info("Writing genome registration XML...")
-            print(genomeInfo)
+
             write_genomes_xml(genomeInfo, samples_xml, self.genomeType, 
                               self.centre_name, self.tpa)
             logger.info("All files have been written to " + self.upload_dir)