old_contents: 
  
  """
  This is a test for the blastn function.
  """
  import shutil
  from pathlib import Path
  
  from datasnakes.Manager.utils import mana
  
  # Modules used
  from datasnakes.Orthologs.Blast.blastn import BLASTn
  
  #from ete3 import NCBITaxa
  # NCBITaxa().update_taxonomy_database()
  
  # Initializations
  repo = "Test2"
  user = "rgilmore"
  project = "BLASTest"
  research = "comparative_genetics"
  research_type = "public"
  # Directory setup now combined with blast setup
  #a = mana.ProjMana(repo=repo, user=user, project=project, research=research, research_type=research_type, new_project=True, new_research=True, new_repo=True, new_user=True)
  a = mana.ProjMana(
      repo=repo,
      user=user,
      project=project,
      research=research,
      research_type=research_type)
  shutil.copy(str(a.index / Path('MAFV3.2.csv')), str(a.project_index))
  Path.mkdir(a.raw_data / Path('blast') / Path('gi_lists'), parents=True)
  shutil.copy(str(a.index / Path('get_gi_lists.sh')),
              str(a.raw_data / Path('blast') / Path('gi_lists')))
  shutil.copy(str(a.index / Path('get_gi_lists.py')),
              str(a.raw_data / Path('blast') / Path('gi_lists')))
  # x = BLASTn(repo, user, project, research, research_type, template="MAFV3.2.csv", new_project=True, new_research=True, new_repo=True, new_user=True)
  x = BLASTn(
      repo=repo,
      user=user,
      project=project,
      research=research,
      research_type=research_type,
      template="MAFV3.2.csv")
  BLASTER = x.blast_config
  BLASTER(x.blast_human, 'Homo_sapiens', auto_start=True)
  # x.post_blast_analysis("Vall")
  
new_contents: 
  
  """
  This is a test for the blastn function.
  """
  import shutil
  from pathlib import Path
  
  from datasnakes.Manager.utils import mana
  
  # Modules used
  from datasnakes.Orthologs.Blast.blastn import BLASTn
  
  #from ete3 import NCBITaxa
  # NCBITaxa().update_taxonomy_database()
  
  # Initializations
  repo = "Test2"
  user = "rgilmore"
  project = "BLASTest"
  research = "comparative_genetics"
  research_type = "public"
  # Directory setup now combined with blast setup
  #a = mana.ProjMana(repo=repo, user=user, project=project, research=research, research_type=research_type, new_project=True, new_research=True, new_repo=True, new_user=True)
  a = mana.ProjMana(
      repo=repo,
      user=user,
      project=project,
      research=research,
      research_type=research_type)
  # shutil.copy(str(a.index / Path('MAFV3.2.csv')), str(a.project_index))
  # Path.mkdir(a.raw_data / Path('blast') / Path('gi_lists'), parents=True)
  # shutil.copy(str(a.index / Path('get_gi_lists.sh')),
  #             str(a.raw_data / Path('blast') / Path('gi_lists')))
  # shutil.copy(str(a.index / Path('get_gi_lists.py')),
  #             str(a.raw_data / Path('blast') / Path('gi_lists')))
  # x = BLASTn(repo, user, project, research, research_type, template="MAFV3.2.csv", new_project=True, new_research=True, new_repo=True, new_user=True)
  x = BLASTn(
      repo=repo,
      user=user,
      project=project,
      research=research,
      research_type=research_type,
      template="MAFV3.2.csv")
  BLASTER = x.blast_config
  BLASTER(x.blast_human, 'Homo_sapiens', auto_start=True)
  # x.post_blast_analysis("Vall")
  
subject: Update blasting_test