Merge branch 'david/pytestCorrections' into david/runStandAlone

tests/raw_data/PrimaryDiagnosis.csv

@@ -1,9 +1,9 @@
 submitter_donor_id, primary_site, submitter_primary_diagnosis_id, date_of_diagnosis, cancer_type_code, basis_of_diagnosis, clinical_tumour_staging_system, clinical_t_category, clinical_n_category, clinical_m_category, clinical_stage_group, laterality, pathological_t_category, pathological_n_category, pathological_m_category, pathological_stage_group
 DONOR_1,Esophagus,PD_1,1/1/2018,C43.1,Cytology,International Neuroblastoma Staging System,,,,Stage 1,Left,T3e,N1,MX,
 DONOR_2,Eye and adnexa,PD_2,1/3/2020,C04.9,Specific tumour markers,Rai staging system,,,,Stage 1A,Bilateral,,,,In situ
-DONOR_3,Floor of mouth,PD_3,1/5/2018,C43.9,Not available,AJCC 7th edition,T0,N0,M1a,,Left,,,,Stage IIIA
-DONOR_3,Tongue,DUPLICATE_ID,1/5/2018,C43.9,Not available,AJCC 7th edition,T0,N0,M1a,,Left,,,,Stage IIIB
-DONOR_4,,PD_4,1/5/2018,C64.9,Death certificate only,Revised International staging system (RISS),,,,Stage 1B,"Unilateral, side not specified",,,,Stage IIS
-DONOR_5,Gum,PD_5,1/3/2020,C64.9,,Revised International staging system (RISS),T1,N0a,M0,,Left,,,,Stage IIBES
+DONOR_3,Floor of mouth,PD_3,1/5/2018,C43.9,Not available,AJCC cancer staging system,T0,N0,M1a,,Left,,,,Stage IIIA
+DONOR_3,Tongue,DUPLICATE_ID,1/5/2018,C43.9,Not available,AJCC cancer staging system,T0,N0,M1a,,Left,,,,Stage IIIB
+DONOR_4,,PD_4,1/5/2018,C64.9,Death certificate only,Revised International staging system (R-ISS),,,,Stage 1B,"Unilateral, side not specified",,,,Stage IIS
+DONOR_5,Gum,PD_5,1/3/2020,C64.9,,Revised International staging system (R-ISS),T1,N0a,M0,,Left,,,,Stage IIBES
 DONOR_6,"Heart, mediastinum, and pleura",PD_6,1/5/2018,C02.2,Specific tumour markers,International Neuroblastoma Staging System,,,,Stage C,"Unilateral, side not specified",,,,Stage IIIB
 DONOR_2,Floor of mouth,PD_2_1,6/3/2018,C43.9,Histology of a primary tumour,Binet staging system,,,,Stage B,Bilateral,,,,