artoo 0.1.3

• artoo_checks() gained an invalid_encoding dimension (on by default):
  check_spec() flags character values whose bytes are not valid UTF-8, the
  signature of a source read under a mis-declared encoding, before a writer
  aborts on them.

• artoo_encodings() name resolution now accepts the SAS OEM/DOS encoding
  names (pcoem437, pcoem850, pcoem852, pcoem858, pcoem862,
  pcoem866, msdos737), and the reference table lists the PCOEM437 /
  PCOEM850 rows.

• write_xpt(), write_json(), write_ndjson(), and write_parquet()
  accept on_invalid = "translit", folding smart punctuation (curly quotes,
  en/em dashes, ellipsis, bullet) to its exact ASCII form per the SAS NLS
  punctuation table; characters with no fold still abort loudly.

• write_xpt(), write_json(), write_ndjson(), and write_parquet()
  also accept on_invalid = "fold": the punctuation fold plus the ICU
  Latin-ASCII accent strip (Ö to O, ß to ss, Æ to AE), pinned
  as data so the result is identical on every platform; characters neither
  table maps (the Euro sign) still abort.

• write_xpt() now warns (artoo_warning_encoding) when a value forces a
  column wider than its spec-declared length, instead of widening silently;
  data is still never truncated.

• write_xpt() and the other writers' on_invalid = "replace" now
  substitutes one ? per unrepresentable character instead of one per byte
  (a curly quote previously became ???).

• New article: Migrating clinical data from WLATIN1 to UTF-8, including
  the smart-punctuation fold table and the byte-length migration recipe.

artoo 0.1.2

Fixes the CRAN noLD check failure: the decimal full-precision JSON round-trip test now skips on builds without long double, guarded on capabilities("long.double"). The codec is unchanged. See NEWS.md.

artoo 0.1.1

Initial CRAN release. Resubmission of 0.1.0 addressing reviewer feedback: removed artoo::: from the set_meta() example (now uses the exported apply_spec()/get_meta() path), and cited the implemented CDISC Dataset-JSON and SAS XPORT format specifications by URL in Description.

See NEWS.md for the full feature list.

artoo 0.1.0

artoo 0.1.0

Initial release. artoo is a lightweight, lossless, CDISC-native reader and
writer for clinical-trial datasets, built around one canonical metadata model
(artoo_meta) so that conversion between any two supported formats is lossless
by construction. Pure R and lightweight, with no external SAS or Java runtime.

Formats

• Reads and writes SAS XPORT (v5 and v8), CDISC Dataset-JSON v1.1, NDJSON,
  Apache Parquet, and RDS. Every codec carries the full artoo_meta — labels,
  CDISC data types, lengths, SAS display formats, controlled-terminology
  references, and sort keys — so any-to-any conversion preserves the complete
  metadata. For Parquet the metadata rides as a metadata_json sidecar; a file
  written by another tool with no sidecar degrades gracefully to a bare frame
  rather than an error.

• Generic read_dataset() / write_dataset() dispatch on the file extension,
  with read_xpt() / write_xpt() and the matching read_json(),
  read_ndjson(), read_parquet(), and read_rds() pairs as direct entry
  points. Cross-cutting encoding, checks, and created arguments flow
  through ....

• Partial reads (col_select, n_max) on every reader; gzip-transparent JSON
  and NDJSON; multi-member SAS XPORT libraries via xpt_members() plus
  read_xpt(member = ).

• Numeric fidelity is exact end to end: a decimal value is exchanged as a
  string at IEEE round-trip precision, integer values beyond R's 32-bit range
  stay numeric rather than overflowing, and NaN / infinite values are
  rejected as invalid CDISC numerics. Rows are sorted in C-locale (byte) order,
  so a written file is deterministic across locales and matches SAS PROC SORT
  for ASCII keys.

• Encodings follow the IANA and SAS standards: the readers and writers accept a
  charset name in either the SAS or R spelling (see artoo_encodings()),
  character columns are transcoded to UTF-8 and NFC-normalized on read, and the
  on_invalid = c("error", "replace", "ignore") policy governs invalid bytes
  uniformly across every writer.

Specifications

• artoo_spec() builds the canonical metadata model from a Pinnacle 21 Excel
  workbook, a Define-XML 2.0 / 2.1 file, or a native artoo JSON spec.
  read_spec() / write_spec() dispatch on the file extension: .xlsx writes
  a Pinnacle 21 workbook (Define-XML to P21 is one composition), and the native
  JSON form is the lossless interchange that round-trips a spec identically.

• The spec is single-standard by construction: @standard is resolved once
  from the explicit argument or the source, and study-level fields are
  canonicalized to the CDISC ODM vocabulary. Accessors include
  spec_standard(), spec_variables(), spec_codelists(), spec_methods(),
  and spec_comments().

• set_type() returns a spec with one or more variables retyped through the
  CDISC vocabulary; repair_spec() retypes every variable a check_spec() run
  flags as fractional or out-of-range under an integer data type, so a frame
  the original spec would refuse coerces after one call.

Conform and check

• apply_spec(x, spec, dataset, conformance = , na_position = ) coerces each
  column to its CDISC data type, orders the columns and sorts the rows by the
  spec's keys, and stamps the artoo_meta. extra = c("keep", "drop")
  controls whether undeclared columns survive; on_coercion_loss = c("error", "keep") governs a coercion that would lose data. The pipeline
  never silently fabricates or drops a column: an undeclared column is reported
  and kept, a declared-but-absent column is reported and left absent.

• check_spec() validates a data frame against its spec across conformance
  dimensions toggled by artoo_checks(); check_study() runs it over a whole
  study and returns one stacked findings frame; conformance() reads the
  findings back off a stamped frame. validate_spec() checks a spec for
  internal consistency against a bundled rule catalog, with no external
  dependency.

• decode_column() translates coded values to or from their codelist decodes;
  sync_meta() reconciles a stamped frame's metadata after manual edits.

Inspect

• members() is the format-neutral inventory of the dataset(s) a path holds,
  one row per dataset, dispatched through the codec registry. columns() is the
  SAS PROC CONTENTS / Universal Viewer variable pane over a stamped frame, a
  plain data frame, or a file path. get_meta() / set_meta() read and attach
  the artoo_meta.

Errors

• Every condition artoo raises carries a three-level class chain —
  artoo_<severity>_<kind>, artoo_<severity>, artoo_condition — so a
  handler can catch a specific kind, a whole severity, or every artoo
  condition. The data-protection conditions attach their evidence as data
  (cnd$variables, cnd$findings) for programmatic inspection.

Data

• Bundled demo specs adam_spec (ADaMIG 1.1) and sdtm_spec (SDTMIG 3.1.2),
  built reproducibly from the official CDISC Define-XML 2.1 release examples and
  shipped also as Pinnacle 21 workbooks under inst/extdata/. Demo datasets
  come from the PHUSE Test Data Factory; the constructor tables
  cdisc_adam_datasets / cdisc_adam_variables, cdisc_sdtm_datasets /
  cdisc_sdtm_variables, and the shared cdisc_codelists build a spec by hand.
  Every bundled dataset conforms to its bundled spec, gated at build and test
  time.

Documentation

• An introductory vignette("artoo") plus task-oriented web articles
  (specifications; conform and validate; formats and lossless conversion;
  recipes), and a pkgdown reference site.