added ACMC_GITHUB_PAT and ACMC_GITLAB_PAT as environmnet variables and...

added ACMC_GITHUB_PAT and ACMC_GITLAB_PAT as environmnet variables and reconstructed the url, no now need to username and password, or to include tokens in the API

added ACMC_GITHUB_PAT and ACMC_GITLAB_PAT as environmnet variables and...
43cba163 · mjbonifa · 43692665 · 43cba163 · 43cba163 · 43cba163
Commit 43cba163 authored 4 months ago by mjbonifa
--- a/example/codes/clinical-codes-org/About the source.docx
+++ b/example/codes/clinical-codes-org/About the source.docx
--- a/example/codes/clinical-codes-org/Behaviours code lists/Alcohol intake/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Alcohol intake/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Behaviours code lists/Alcohol intake/res47-alcohol-intake.csv
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Alcohol intake/res47-alcohol-intake.csv
--- a/example/codes/clinical-codes-org/Behaviours code lists/Physical activity/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Physical activity/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Behaviours code lists/Physical activity/res47-physical-activity.csv
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Physical activity/res47-physical-activity.csv
--- a/example/codes/clinical-codes-org/Behaviours code lists/Smoking status/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Smoking status/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Behaviours code lists/Smoking status/res56-smoking-status.csv
+++ b/example/codes/clinical-codes-org/Behaviours code lists/Smoking status/res56-smoking-status.csv
--- a/example/codes/clinical-codes-org/Cardiovascular events (ICD10)/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Cardiovascular events (ICD10)/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Cardiovascular events (ICD10)/res52-cardiovascular-events-icd10.csv
+++ b/example/codes/clinical-codes-org/Cardiovascular events (ICD10)/res52-cardiovascular-events-icd10.csv
--- a/example/codes/clinical-codes-org/Motor neurone disease/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Motor neurone disease/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Motor neurone disease/phenotype_PH62_ver_124_concepts_20230719T112819.csv
+++ b/example/codes/clinical-codes-org/Motor neurone disease/phenotype_PH62_ver_124_concepts_20230719T112819.csv
--- a/example/codes/clinical-codes-org/Non-attendance codes/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Non-attendance codes/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Non-attendance codes/res201-did-not-attend-appointment.csv
+++ b/example/codes/clinical-codes-org/Non-attendance codes/res201-did-not-attend-appointment.csv
--- a/example/codes/clinical-codes-org/Obsessive Compulsive Disorder/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Obsessive Compulsive Disorder/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Obsessive Compulsive Disorder/phenotype_PH223_ver_446_concepts_20230719T114228.csv
+++ b/example/codes/clinical-codes-org/Obsessive Compulsive Disorder/phenotype_PH223_ver_446_concepts_20230719T114228.csv
--- a/example/codes/clinical-codes-org/Palliative care codes/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Palliative care codes/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Palliative care codes/res176-palliative-and-end-of-life-care.csv
+++ b/example/codes/clinical-codes-org/Palliative care codes/res176-palliative-and-end-of-life-care.csv
--- a/example/codes/clinical-codes-org/Peptic ulcer/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Peptic ulcer/Where this code list comes from .docx
--- a/example/codes/clinical-codes-org/Peptic ulcer/phenotype_PH1091_ver_2385_concepts_20230719T122902.csv
+++ b/example/codes/clinical-codes-org/Peptic ulcer/phenotype_PH1091_ver_2385_concepts_20230719T122902.csv
--- a/example/codes/clinical-codes-org/Personality disorders/Where this code list comes from .docx
+++ b/example/codes/clinical-codes-org/Personality disorders/Where this code list comes from .docx