Deleted previously commented out code

ISA-tools · Mar 20, 2024 · 945241a · 945241a
1 parent e78f621
commit 945241a
Show file tree

Hide file tree

Showing 2 changed files with 0 additions and 38 deletions.
diff --git a/isatools/isatab/utils.py b/isatools/isatab/utils.py
@@ -515,32 +515,6 @@ def get_object_column_map(isatab_header, df_columns):
  return object_column_map
 
 
-# def get_column_header(protocol_type_term, protocol_types_dict):
-# column_header = None
-# if protocol_type_term.lower() in \
-# protocol_types_dict["nucleic acid sequencing"][SYNONYMS] \
-# + protocol_types_dict["phenotyping"][SYNONYMS] \
-# + protocol_types_dict["data acquisition"][SYNONYMS]:
-# column_header = "Assay Name"
-# elif protocol_type_term.lower() in protocol_types_dict["data collection"][SYNONYMS]:
-# column_header = "Scan Name"
-# elif protocol_type_term.lower() in protocol_types_dict["mass spectrometry"][SYNONYMS]:
-# column_header = "MS Assay Name"
-# elif protocol_type_term.lower() in protocol_types_dict["nmr spectroscopy"][SYNONYMS]:
-# column_header = "NMR Assay Name"
-# elif protocol_type_term.lower() in \
-# protocol_types_dict["data transformation"][SYNONYMS] \
-# + protocol_types_dict["sequence analysis data transformation"][SYNONYMS] \
-# + protocol_types_dict["metabolite identification"][SYNONYMS] \
-# + protocol_types_dict["protein identification"][SYNONYMS]:
-# column_header = "Data Transformation Name"
-# elif protocol_type_term.lower() in protocol_types_dict["normalization"][SYNONYMS]:
-# column_header = "Normalization Name"
-# if protocol_type_term.lower() == "unknown protocol":
-# column_header = "Unknown Protocol Name"
-# return column_header
-
-
 def get_value_columns(label, x):
  """ Generates the appropriate columns based on the value of the object.
  For example, if the object's .value value is an OntologyAnnotation,

diff --git a/isatools/model/process.py b/isatools/model/process.py
@@ -307,18 +307,6 @@ def from_assay_dict(self, process, technology_type):
  self.name = process.get('name', '')
  self.executes_protocol = indexes.get_protocol(process['executesProtocol']['@id'])
  self.load_comments(process.get('comments', []))
- # allowed_protocol_type_terms = [
- # "nucleic acid sequencing",
- # "nmr spectroscopy",
- # "mass spectrometry",
- # "nucleic acid hybridization",
- # "data transformation",
- # "data normalization"
- # ]
- # if self.executes_protocol.protocol_type.term in allowed_protocol_type_terms or (
- # self.executes_protocol.protocol_type.term == 'data collection'
- # and technology_type.term == 'DNA microarray'):
- # self.name = process['name']
 
  # Inputs / Outputs
  for io_data_target in ['inputs', 'outputs']: