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rgeos log file (check_x86_64_linux)

Tue Jul 18 12:25:06 2023: Checking package rgeos (SVN revision 699) ...
* using log directory ‘/srv/rf/building/build_2023-07-18-12-24/RF_PKG_CHECK/PKGS/rgeos.Rcheck’
* using R version 4.3.1 Patched (2023-07-14 r84692)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Debian 12.2.0-14) 12.2.0
    GNU Fortran (Debian 12.2.0-14) 12.2.0
* running under: Debian GNU/Linux 12 (bookworm)
* using session charset: UTF-8
* using option ‘--as-cran’
* checking for file ‘rgeos/DESCRIPTION’ ... OK
* this is package ‘rgeos’ version ‘0.6-4’
* checking CRAN incoming feasibility ... [6s/19s] Note_to_CRAN_maintainers
Maintainer: ‘Roger Bivand ’
* 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 serialization versions ... OK
* checking whether package ‘rgeos’ can be installed ... [13s/14s] OK
* used C compiler: ‘gcc (Debian 12.2.0-14) 12.2.0’
* used C++ compiler: ‘g++ (Debian 12.2.0-14) 12.2.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... WARNING
A complete check needs the 'checkbashisms' script.
See section ‘Configure and cleanup’ in the ‘Writing R Extensions’
manual.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... [1s/1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [1s/1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
* checking loading without being on the library search path ... [1s/1s] OK
* checking startup messages can be suppressed ... [1s/1s] 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 ... [8s/8s] OK
* checking Rd files ... [1s/1s] 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 line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... [6s/7s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘DP_simplify.R’ [1s/1s]
  Comparing ‘DP_simplify.Rout’ to ‘DP_simplify.Rout.save’ ... OK
  Running ‘leak_by_exception.R’ [1s/1s]
  Comparing ‘leak_by_exception.Rout’ to ‘leak_by_exception.Rout.save’ ...12c12
<   TopologyException: Input geom 0 is invalid: Self-intersection at 5 5
---
>   TopologyException: side location conflict at 5 5. This can occur if the input geometry is invalid.
22c22
<   TopologyException: Input geom 0 is invalid: Self-intersection at 5 5
---
>   TopologyException: side location conflict at 5 5. This can occur if the input geometry is invalid.
32c32
<   TopologyException: Input geom 0 is invalid: Self-intersection at 5 5
---
>   TopologyException: side location conflict at 5 5. This can occur if the input geometry is invalid.
42c42
<   TopologyException: Input geom 0 is invalid: Self-intersection at 5 5
---
>   TopologyException: side location conflict at 5 5. This can occur if the input geometry is invalid.
  Running ‘test-all.R’ [2s/2s]
 [4s/4s] OK
* checking PDF version of manual ... [8s/7s] OK
* checking HTML version of manual ... [0s/0s] NOTE
Skipping checking HTML validation: no command 'tidy' found
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  ‘/srv/rf/building/build_2023-07-18-12-24/RF_PKG_CHECK/PKGS/rgeos.Rcheck/00check.log’
for details.


Run time: 80.81 seconds.