* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/ragnar.Rcheck’ * using R Under development (unstable) (2025-07-15 r88411) * using platform: x86_64-pc-linux-gnu * R was compiled by clang version 20.1.8 flang version 20.1.8 * running under: Fedora Linux 42 (Workstation Edition) * using session charset: UTF-8 * using option ‘--no-stop-on-test-error’ * checking for file ‘ragnar/DESCRIPTION’ ... OK * this is package ‘ragnar’ version ‘0.2.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘ragnar’ can be installed ... [32s/106s] OK See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/ragnar-00install.html' for details. * used C compiler: ‘clang version 20.1.8’ * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... [5s/18s] OK * checking whether the package can be loaded with stated dependencies ... [5s/14s] OK * checking whether the package can be unloaded cleanly ... [5s/16s] OK * checking whether the namespace can be loaded with stated dependencies ... [5s/14s] OK * checking whether the namespace can be unloaded cleanly ... [6s/21s] OK * checking loading without being on the library search path ... [5s/21s] OK * checking whether startup messages can be suppressed ... [5s/15s] OK * checking use of S3 registration ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... [36s/92s] OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd line widths ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking line endings in shell scripts ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking pragmas in C/C++ headers and code ... OK * checking compilation flags used ... OK * checking compiled code ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [18s/116s] ERROR Running examples in ‘ragnar-Ex.R’ failed The error most likely occurred in: > ### Name: ragnar_store_create > ### Title: Create and connect to a vector store > ### Aliases: ragnar_store_create ragnar_store_connect > > ### ** Examples > > # A store with a dummy embedding > store <- ragnar_store_create( + embed = \(x) matrix(stats::runif(10), nrow = length(x), ncol = 10), + version = 1 + ) > ragnar_store_insert(store, data.frame(text = "hello")) > > # A store with a schema. When inserting into this store, users need to > # provide an `area` column. > store <- ragnar_store_create( + embed = \(x) matrix(stats::runif(10), nrow = length(x), ncol = 10), + extra_cols = data.frame(area = character()), + version = 1 + ) > ragnar_store_insert(store, data.frame(text = "hello", area = "rag")) > > # If you already have a data.frame with chunks that will be inserted into > # the store, you can quickly create a suitable store with `vec_ptype()`: > chunks <- data.frame(text = letters, area = "rag") > store <- ragnar_store_create( + embed = \(x) matrix(stats::runif(10), nrow = length(x), ncol = 10), + extra_cols = vctrs::vec_ptype(chunks), + version = 1 + ) > ragnar_store_insert(store, chunks) > > # version = 2 (the default) has support for deoverlapping > store <- ragnar_store_create( + # if embed = NULL, then only bm25 search is used (not vss) + embed = NULL + ) > doc <- MarkdownDocument( + paste0(letters, collapse = ""), + origin = "/some/where" + ) > chunks <- markdown_chunk(doc, target_size = 3, target_overlap = 2 / 3) > chunks$context <- substring(chunks$text, 1, 1) > chunks # @document@origin: /some/where # A tibble: 24 × 4 start end context text 1 1 3 a abc 2 2 4 b bcd 3 3 5 c cde 4 4 6 d def 5 5 7 e efg 6 6 8 f fgh 7 7 9 g ghi 8 8 10 h hij 9 9 11 i ijk 10 10 12 j jkl # ℹ 14 more rows > ragnar_store_insert(store, chunks) > ragnar_store_build_index(store) *** caught segfault *** address 0x7a89500, cause 'memory not mapped' Traceback: 1: rapi_execute(stmt, convert_opts) 2: withCallingHandlers(expr, condition = function(cnd) { { .__handler_frame__. <- TRUE .__setup_frame__. <- frame if (inherits(cnd, "message")) { except <- c("warning", "error") } else if (inherits(cnd, "warning")) { except <- "error" } else { except <- "" } } while (!is_null(cnd)) { if (inherits(cnd, "error")) { out <- handlers[[1L]](cnd) if (!inherits(out, "rlang_zap")) throw(out) } inherit <- .subset2(.subset2(cnd, "rlang"), "inherit") if (is_false(inherit)) { return() } cnd <- .subset2(cnd, "parent") }}) 3: doTryCatch(return(expr), name, parentenv, handler) 4: tryCatchOne(expr, names, parentenv, handlers[[1L]]) 5: tryCatchList(expr, classes, parentenv, handlers) 6: tryCatch(withCallingHandlers(expr, condition = function(cnd) { { .__handler_frame__. <- TRUE .__setup_frame__. <- frame if (inherits(cnd, "message")) { except <- c("warning", "error") } else if (inherits(cnd, "warning")) { except <- "error" } else { except <- "" } } while (!is_null(cnd)) { if (inherits(cnd, "error")) { out <- handlers[[1L]](cnd) if (!inherits(out, "rlang_zap")) throw(out) } inherit <- .subset2(.subset2(cnd, "rlang"), "inherit") if (is_false(inherit)) { return() } cnd <- .subset2(cnd, "parent") }}), stackOverflowError = handlers[[1L]]) 7: rlang::try_fetch(rapi_execute(stmt, convert_opts), error = function(e) { rethrow_error_from_rapi(e, call)}) 8: rethrow_rapi_execute(res@stmt_lst$ref, duckdb_convert_opts_impl(res@connection@convert_opts, arrow = res@arrow)) 9: duckdb_execute(res) 10: duckdb_result(connection = conn, stmt_lst = stmt_lst, arrow = arrow) 11: .local(conn, statement, ...) 12: dbSendQuery(conn, statement, ...) 13: dbSendQuery(conn, statement, ...) 14: dbSendStatement(conn, statement, ...) 15: dbSendStatement(conn, statement, ...) 16: dbExecute(con, "INSTALL fts; LOAD fts;") 17: dbExecute(con, "INSTALL fts; LOAD fts;") 18: ragnar_store_build_index_v2(store, type) 19: ragnar_store_build_index(store) An irrecoverable exception occurred. R is aborting now ... * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [13s/43s] OK Running ‘testthat.R’ [12s/42s] * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... [10s/24s] OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR