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### Running command:
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###   /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:MsBackendSql.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings MsBackendSql_1.7.4.tar.gz
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* using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/MsBackendSql.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘MsBackendSql/DESCRIPTION’ ... OK
* this is package ‘MsBackendSql’ version ‘1.7.4’
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘MsBackendSql’ can be installed ... OK
* 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 ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... 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 ... NOTE
filterRt,MsBackendSql: no visible global function definition for
  ‘msLevel’
filterRt,MsBackendSql: no visible global function definition for
  ‘rtime’
Undefined global functions or variables:
  msLevel rtime
* checking Rd files ... OK
* checking Rd metadata ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  > createMsBackendSqlDatabase(mm8_db_blob2, mm8_file, blob = TRUE,
  +                            peaksStorageMode = "blob2")
  Importing data ... 
  
  [==========================================================] 1/1 (100%) in  1s
  Creating indices .... Done
  [1] TRUE
  > mm8_be_blob2 <- backendInitialize(MsBackendSql(), mm8_db_blob2)
  > 
  > mm14_file <- system.file("microtofq", "MM14.mzML", package = "msdata")
  > mm_db <- dbConnect(SQLite(), tempfile())
  > createMsBackendSqlDatabase(mm_db, c(mm8_file, mm14_file), blob = FALSE)
  Importing data ... 
  Error: database or disk is full
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building ‘MsBackendSql.Rmd’ using rmarkdown

Quitting from MsBackendSql.Rmd:66-77 [unnamed-chunk-2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! no such savepoint: dbWriteTable_1989133_kcdgppuqnq
---
Backtrace:
     ▆
  1. └─MsBackendSql::createMsBackendSqlDatabase(con, fls)
  2.   └─MsBackendSql:::.insert_data(...)
  3.     └─MsBackendSql:::.insert_backend_blob2(con, s, index = index)
  4.       ├─DBI::dbWriteTable(...)
  5.       └─RSQLite::dbWriteTable(...)
  6.         └─RSQLite (local) .local(conn, name, value, ...)
  7.           ├─DBI::dbRollback(conn, name = savepoint_id)
  8.           └─RSQLite::dbRollback(conn, name = savepoint_id)
  9.             └─RSQLite (local) .local(conn, ...)
 10.               ├─DBI::dbExecute(conn, paste0("ROLLBACK TO ", name_quoted))
 11.               └─DBI::dbExecute(conn, paste0("ROLLBACK TO ", name_quoted))
 12.                 ├─DBI::dbSendStatement(conn, statement, ...)
 13.                 └─DBI::dbSendStatement(conn, statement, ...)
 14.                   ├─DBI::dbSendQuery(conn, statement, ...)
 15.                   └─RSQLite::dbSendQuery(conn, statement, ...)
 16.                     └─RSQLite (local) .local(conn, statement, ...)
 17.                       ├─methods::new(...)
 18.                       │ ├─methods::initialize(value, ...)
 19.                       │ └─methods::initialize(value, ...)
 20.                       └─RSQLite:::result_create(conn@ptr, statement)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MsBackendSql.Rmd' failed with diagnostics:
no such savepoint: dbWriteTable_1989133_kcdgppuqnq
--- failed re-building ‘MsBackendSql.Rmd’

SUMMARY: processing the following file failed:
  ‘MsBackendSql.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* DONE

Status: 2 ERRORs, 1 NOTE
See
  ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/MsBackendSql.Rcheck/00check.log’
for details.