search

CancerRegistryOfNorway / nordcanpreprocessing

Other
0 stars 0 forks source link

Age of lifetable ends up to 89, while data validation need it end up to 90. #27

Closed HuidongTian closed 3 years ago

HuidongTian commented 3 years ago

When running the survival analysis, an error message said the validation of the population life table is failed, due to its 'age' variable contains no value of 90.

report_national_population_life_table_is_valid line 565

BjarteAAGNES commented 3 years ago

For now keep age < 90 I will validate this tuesday.

HuidongTian commented 3 years ago

Changed the code to reset the value of age to 0:89, survival analysis failed at extract_define_survival_data. log file shows error at line 9 stata_code_head, function(extract_define_survival_data). I changed the code back to 0:90, for now.

BjarteAAGNES commented 3 years ago

Age in life-table

ref.: https://github.com/CancerRegistryOfNorway/NORDCAN/wiki/Call-for-data-Survival

In the call for survival the age for life-table is now set to:

age (at least years 0-90)

Thus the validation in column_checks.R on the age in life-table can be 90 and I will provide a new life-table including 90.

Age in data for analysis

ref.: https://github.com/CancerRegistryOfNorway/NORDCAN/wiki/nordcansurvival

Data for analysis should be restricted to max 89 years ( < 90)

Ref validation in extract_define_survival_data.ado

assert inrange(age, 0, 89)

HuidongTian commented 3 years ago

Fixed by supplying lifetable which the age column must contain values up to 99 years.

BjarteAAGNES commented 3 years ago

Life-tables SHOLD be up to 99 years.

From: Huidong Tian @.***> Sent: 27 April 2021 14:37 To: CancerRegistryOfNorway/nordcanpreprocessing Cc: Bjarte Aagnes; Assign Subject: Re: [CancerRegistryOfNorway/nordcanpreprocessing] Age of lifetable ends up to 89, while data validation need it end up to 90. (#27)

Fixed by supplying lifetable which the age column must contain 90.

- You are receiving this because you were assigned. Reply to this email directly, view it on GitHubhttps://github.com/CancerRegistryOfNorway/nordcanpreprocessing/issues/27#issuecomment-827572854, or unsubscribehttps://github.com/notifications/unsubscribe-auth/AEKDCNEZSK2KT7PTSSSN3DLTK2VW7ANCNFSM4ZCLPJ6Q.