revdep/new-problems.md

In rstats-db/RSQLite: SQLite Interface for R

DBI

Version: 0.8

Newly broken

• checking examples ... ERROR ``` Running examples in ‘DBI-Ex.R’ failed The error most likely occurred in:

  Name: DBI-package

  Title: DBI: R Database Interface

  Aliases: DBI DBI-package

  ** Examples

  RSQLite::SQLite() Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : namespace ‘DBI’ 0.8 is already loaded, but >= 0.8.0.9001 is required Calls: :: ... tryCatch -> tryCatchList -> tryCatchOne -> Execution halted ```

MonetDBLite

Version: 0.5.1

Newly broken

• checking examples ... ERROR ``` ...

  The following objects are masked from ‘package:stats’:

  filter, lag
  

  The following objects are masked from ‘package:base’:

  intersect, setdiff, setequal, union
  

  To connect to a database first create a src:

  dbdir <- file.path(tempdir(), "dplyrdir") my_db <- MonetDBLite::src_monetdblite(dbdir)

  copy some data to DB

  my_iris <- copy_to(my_db, iris) Warning: Connection is garbage-collected, use dbDisconnect() to avoid this. Error in .local(conn, statement, ...) : Unable to execute statement 'ROLLBACK'. Server says 'Invalid connection'. Calls: copy_to ... dbRollback -> dbRollback -> dbSendQuery -> dbSendQuery -> .local Execution halted ```

DECIPHER

Version: 2.4.0

Newly broken

• checking examples ... ERROR ``` Running examples in ‘DECIPHER-Ex.R’ failed The error most likely occurred in:

  Name: Add2DB

  Title: Add Data to a Database

  Aliases: Add2DB

  ** Examples

  Create a sequence database

  gen <- system.file("extdata", "Bacteria_175seqs.gen", package="DECIPHER") dbConn <- dbConnect(SQLite(), ":memory:") Seqs2DB(gen, "GenBank", dbConn, "Bacteria")

  Reading GenBank file chunk 1Error: field.types must be a named character vector with unique names, or NULL Execution halted ```

• checking running R code from vignettes ... ``` ...

  dbConn <- dbConnect(SQLite(), ":memory:")

  Seqs2DB(gb, "GenBank", dbConn, "Bacteria")

  Reading GenBank file chunk 1 When sourcing ‘DesignProbes.R’: Error: field.types must be a named character vector with unique names, or NULL Execution halted when running code in ‘DesignSignatures.Rnw’ ...

  dbConn <- "<>"

  dbConn <- dbConnect(SQLite(), ":memory:")

  N <- Seqs2DB(fas, "FASTA", dbConn, "")

  Reading FASTA file chunk 1 When sourcing ‘DesignSignatures.R’: Error: field.types must be a named character vector with unique names, or NULL Execution halted ```

rstats-db/RSQLite documentation built on April 20, 2024, 11:56 a.m.