* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘primerTree’ ...
** package ‘primerTree’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.3.0-1) 13.3.0’
make[1]: Entering directory '/tmp/RtmpobKIGv/R.INSTALL23204e39a52eba/primerTree/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG   -I/usr/local/include -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c read_dna.c -o read_dna.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o primerTree.so init.o read_dna.o -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpobKIGv/R.INSTALL23204e39a52eba/primerTree/src'
make[1]: Entering directory '/tmp/RtmpobKIGv/R.INSTALL23204e39a52eba/primerTree/src'
make[1]: Leaving directory '/tmp/RtmpobKIGv/R.INSTALL23204e39a52eba/primerTree/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-primerTree/00new/primerTree/libs
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘primerTree’
    finding HTML links ... done
    accession2taxid                         html  
    bryophytes_trnL                         html  
    calc_rank_dist_ave                      html  
    clustalo                                html  
    filter_seqs                             html  
    get_sequence                            html  
    finding level-2 HTML links ... done

    get_sequences                           html  
    get_taxonomy                            html  
    identify.primerTree_plot                html  
    layout_tree_ape                         html  
    mammals_16S                             html  
    parse_primer_hits                       html  
    plot.primerTree                         html  
    plot_tree                               html  
    plot_tree_ranks                         html  
    primerTree                              html  
    primer_search                           html  
    search_primer_pair                      html  
    seq_lengths                             html  
    seq_lengths.primerTree                  html  
    summary.primerTree                      html  
    tree_from_alignment                     html  
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (primerTree)