kumc-bmi/naaccr-tumor-data

Issues

• Trouble loading version 210 XML

  #67 opened 3 years ago by dbudinekumc
  0

• document git submodule for WerthPADOH/naaccr

  #9 opened 5 years ago by dckc
  4

• NAACCR_ONTOLOGY changes since Sep 2017 attachment to GPC wiki

  #18 opened 5 years ago by dckc
  0

• 230 Age at Diagnosis (ageAtDiagnosis) was flagged private (Ni)

  #50 opened 4 years ago by dckc
  0

• CREATE Table code for TUMOR table

  #57 opened 4 years ago by dckc
  0

• test build NAACCR_ONTOLOGY in a local disk h2 DB FAILED

  #58 opened 4 years ago by dckc
  0

• support gradle newer than 5.3.1: build fails ("cant find Main") with gradle 6.8

  #59 opened 4 years ago by dckc
  1

• test site-specific factors csterms - no facts

  #61 opened 4 years ago by dckc
  0

• can't create TUMOR_TABLE on sqlserver: observation_blob null

  #60 opened 4 years ago by dckc
  0

• 752 tumorSizeClinical should be numeric

  #20 opened 5 years ago by dckc
  0

• Lay-Person Hierarchy

  #35 opened 5 years ago by dckc
  0

• naaccr_ontology missing tooltips

  #17 opened 5 years ago by dckc
  0

• re-publishing list of primary sites, morphologies from WHO

  #6 opened 5 years ago by dckc
  7

• ontology building performance: spark poor fit?

  #15 opened 4 years ago by dckc
  1

• extra spaces in concept_cd e.g. `'NAACCR|910:4C '`

  #34 opened 4 years ago by dckc
  1

• build i2b2 fact table

  #10 opened 4 years ago by dckc
  2

• drop rows with null PAT_ID?

  #53 opened 4 years ago by dckc
  0

• bad diagnostic for MRN not found: repeated for each item

  #51 opened 4 years ago by dckc
  0

• --encounter-start doesn't apply to TUMOR table

  #52 opened 4 years ago by dckc
  0

• can't combine v16, v18 into TUMOR table

  #49 opened 4 years ago by dckc
  0

• data from retired items? e.g. 1500 FIRST COURSE CALC METHOD

  #16 opened 4 years ago by dckc
  1

• combine multiple NAACCR files

  #26 opened 4 years ago by dckc
  4

• support patient_mapping from 2300 MEDICAL RECORD NUMBER

  #46 opened 4 years ago by dckc
  1

• provide varchar PATID per CDM (draft) TUMOR table spec

  #48 opened 4 years ago by dckc
  0

• H2 table functions rather than copying dataframes with insert

  #33 opened 4 years ago by dckc
  0

• match discrete-data column widths to NAACCR record layout

  #40 opened 4 years ago by dckc
  1

• discrete table including names, MRNs, and accession numbers

  #42 opened 4 years ago by dckc
  2

• ci-based release process

  #31 opened 4 years ago by dckc
  2

• illegal reflective access WARNINGs

  #30 opened 4 years ago by dckc
  1

• morphology - grouped items

  #19 opened 5 years ago by dckc
  1

• use DB to mediate access to raw records

  #29 opened 4 years ago by dckc
  2

• generate Oracle SQL (and sqlserver, postgres)

  #24 opened 4 years ago by dckc
  1

• i2b2-friendly staging column names?

  #41 opened 4 years ago by dckc
  2

• v16 fails with NaaccrIOException: invalid line length

  #43 opened 4 years ago by dckc
  1

• renamed-items-naaccr18.csv Mar 6 vs tumor table.version1.2.xlsx

  #44 opened 4 years ago by dckc
  0

• UI for numeric values

  #36 opened 5 years ago by dckc
  0

• docker deployment (jenkinsfile)

  #22 opened 4 years ago by dckc
  2

• single-jar deployment (no python)

  #21 opened 4 years ago by dckc
  2

• found EZCONNECT docs

  #39 opened 4 years ago by dckc
  0

• capture/use missing data sentinels

  #12 opened 5 years ago by dckc
  1

• tumor_reg_data jupyter notebook based on test data

  #11 opened 5 years ago by dckc
  3

• xsd:date YYYY-MM-DD vs NAACCR YYYYMMDD

  #3 opened 5 years ago by dckc
  3

• materialize wide table? Oracle SQL*Loader support?

  #23 opened 5 years ago by dckc
  1

• reduce dependencies to python stdlib (sqlite3), ant, JVM (groovy?)

  #25 opened 5 years ago by dckc
  4

• ICD9, ICD10 codes for comorbidities

  #14 opened 5 years ago by dckc
  0

• LOINC mapping dups for 1646

  #8 opened 5 years ago by dckc
  1

• re-publishing cancer staging info from cancerstaging.org

  #13 opened 5 years ago by dckc
  0

• sequence number (380, 560): i2b2 concept_cd or nval_num?

  #7 opened 5 years ago by dckc
  0

• LOINC answer lists missing / incomplete for 194 NAACCR items (e.g. 1791 Follow-up Source Central)

  #5 opened 5 years ago by dckc
  2

• no LOINC mapping for NAACCR item 240 Date of Birth?

  #4 opened 5 years ago by dckc
  0