• using R version 4.4.3 (2025-02-28)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-14 (Debian 14.2.0-16) 14.2.0     GNU Fortran (Debian 14.2.0-16) 14.2.0
• running under: Debian GNU/Linux trixie/sid
• using session charset: UTF-8
• checking for file ‘disprose/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘disprose’ version ‘0.1.6’
• 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 ‘disprose’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [0s/1s] OK
• checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the package can be unloaded cleanly ... [0s/0s] OK
• checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
• checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
• checking loading without being on the library search path ... [0s/0s] 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 ... [10s/12s] OK
• checking Rd files ... [1s/1s] NOTE checkRd: (-1) store_in_DB.Rd:89: Lost braces     89 | link{read_from_DB} function. Those parameters define rows and columns that will be returned.        | ^ checkRd: (-1) unite_two_DF.Rd:46: Lost braces; missing escapes or markup?     46 | \code{data1.shared.var} and {data2.shared.var} must contain unique values within its own data frame.        | ^
• 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... [0s/0s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking examples ... [1s/22s] ERROR Running examples in ‘disprose-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: cut_probes > ### Title: Cut probes > ### Aliases: cut_probes > > ### ** Examples > > path <- tempdir() > dir.create (path) > # download and save as FASTA "Chlamydia pneumoniae B21 contig00001, > # whole genome shotgun sequence" (GI = 737435910) > if (!requireNamespace("rentrez", quietly = TRUE)) { + stop("Package \"rentrez\" needed for this function to work. Please install it.", call. = FALSE)} > reference.string <- rentrez::entrez_fetch(db = "nucleotide", id = 737435910, + rettype="fasta") Error in curl::curl_fetch_memory(url, handle = handle) :   Timeout was reached [eutils.ncbi.nlm.nih.gov]: Resolving timed out after 10000 milliseconds Calls: <Anonymous> ... request_fetch.write_memory -> <Anonymous> -> raise_libcurl_error Execution halted
• checking PDF version of manual ... [5s/8s] OK
• checking HTML version of manual ... [2s/3s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR, 1 NOTE