9c8304b9f70bc58317f012dd7c9d17e1fb16845c,foreman/data_refinery_foreman/surveyor/array_express.py,ArrayExpressSurveyor,create_experiment_from_api,#ArrayExpressSurveyor#Any#,44

Before Change

            experiment_object.save()

        platform_dict = {k: experiment[k]
                         for k in ("platform_accession_code", "platform_accession_name")}
        return experiment_object, platform_dict

    def determine_sample_accession(self, experiment_accession: str, sample_source_name: str, sample_assay_name: str, filename: str) -> str:

After Change

                    // Illumina appears in the accession codes for
                    // platforms manufactured by Illumina
                    if "ILLUMINA" in experiment["platform_accession_code"].upper():
                        experiment["manufacturer"] = "ILLUMINA"
                        experiment["platform_accession_name"] = platform["platform_accession"]
                    else:
                        // It"s not Illumina, the only other supported Microarray platform is
                        // Affy. As our list of supported platforms grows this logic will
                        // need to get more sophisticated.
                        experiment["manufacturer"] = "AFFYMETRIX"
                        platform_mapping = get_readable_affymetrix_names()
                        experiment["platform_accession_name"] = platform_mapping[
                            platform["platform_accession"]]

            if "platform_accession_code" not in experiment:
                // We don"t know what platform this accession corresponds to.
                experiment["platform_accession_code"] = external_accession
                experiment["platform_accession_name"] = UNKNOWN

Instances