downloading reverse dependencies ...
downloading africamonitor_0.2.4.tar.gz ... ok
downloading BETS_0.4.9.tar.gz ... ok
downloading biolink_0.1.8.tar.gz ... ok
downloading childesr_0.2.3.tar.gz ... ok
downloading gmDatabase_0.5.0.tar.gz ... ok
downloading ipanema_1.1.0.tar.gz ... ok
downloading MDMAPR_0.2.3.tar.gz ... ok
downloading MetaIntegrator_2.1.3.tar.gz ... ok
downloading NetSimR_0.1.5.tar.gz ... ok
downloading PheCAP_1.2.1.tar.gz ... ok
downloading samadb_0.3.0.tar.gz ... ok
downloading ugatsdb_0.2.3.tar.gz ... ok
downloading dbx_0.3.2.tar.gz ... ok
downloading dplyr_1.1.4.tar.gz ... ok
downloading etl_0.4.1.tar.gz ... ok
downloading octopus_0.4.2.tar.gz ... ok
downloading pointblank_0.12.1.tar.gz ... ok
downloading pool_1.0.3.tar.gz ... ok
downloading ProjectTemplate_0.11.0.tar.gz ... ok
downloading quantmod_0.4.26.tar.gz ... ok
downloading RSQL_0.2.2.tar.gz ... ok
downloading sqldf_0.4-11.tar.gz ... ok
downloading twitteR_1.1.9.tar.gz ... ok
downloading vismeteor_1.8.5.tar.gz ... ok

installing dependencies ‘blastula’, ‘COCONUT’, ‘crch’, ‘dittodb’,
  ‘feather’, ‘GEOmetadb’, ‘grnn’, ‘HGNChelper’, ‘log4r’, ‘manhattanly’,
  ‘mFilter’, ‘Pareto’, ‘RH2’, ‘Rmisc’, ‘RMySQL’, ‘snplist’, ‘writexl’

begin installing package ‘mFilter’
begin installing package ‘grnn’
begin installing package ‘GEOmetadb’
begin installing package ‘Rmisc’
begin installing package ‘COCONUT’
begin installing package ‘manhattanly’
begin installing package ‘HGNChelper’
begin installing package ‘snplist’
begin installing package ‘crch’
begin installing package ‘Pareto’
begin installing package ‘log4r’
begin installing package ‘blastula’
begin installing package ‘dittodb’
begin installing package ‘feather’
begin installing package ‘RH2’
begin installing package ‘RMySQL’
begin installing package ‘writexl’
* installing *source* package ‘grnn’ ...
** package ‘grnn’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (grnn)
* installing *source* package ‘COCONUT’ ...
** package ‘COCONUT’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (COCONUT)
* installing *source* package ‘log4r’ ...
** package ‘log4r’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmpz0CLRQ/R.INSTALL2ef6137ca48389/log4r/src'
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c log4r.c -o log4r.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c logfmt.c -o logfmt.o
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o log4r.so log4r.o logfmt.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmpz0CLRQ/R.INSTALL2ef6137ca48389/log4r/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-log4r/00new/log4r/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** 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 (log4r)
* installing *source* package ‘Rmisc’ ...
** package ‘Rmisc’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Rmisc)
* installing *source* package ‘mFilter’ ...
** package ‘mFilter’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (mFilter)
* installing *source* package ‘manhattanly’ ...
** package ‘manhattanly’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (manhattanly)
* installing *source* package ‘blastula’ ...
** package ‘blastula’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (blastula)
* installing *source* package ‘dittodb’ ...
** package ‘dittodb’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (dittodb)
* installing *source* package ‘RH2’ ...
** package ‘RH2’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (RH2)
* installing *source* package ‘HGNChelper’ ...
** package ‘HGNChelper’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (HGNChelper)
* installing *source* package ‘RMySQL’ ...
** using staged installation
Found mysql_config cflags and libs!
Using PKG_CFLAGS=-I/usr/include/mariadb -I/usr/include/mariadb/mysql
Using PKG_LIBS=-L/usr/lib/x86_64-linux-gnu/ -lmariadb
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpPpNtDK/R.INSTALL2ef62430411433/RMySQL/src'
rm -f RMySQL.so RMySQL-init.o connection.o db-apply.o driver.o exception.o fields.o result.o utils.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c RMySQL-init.c -o RMySQL-init.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c connection.c -o connection.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c db-apply.c -o db-apply.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c driver.c -o driver.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c exception.c -o exception.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c fields.c -o fields.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c result.c -o result.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I/usr/include/mariadb -I/usr/include/mariadb/mysql  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c utils.c -o utils.o
utils.c: In function ‘RS_DBI_newEntry’:
utils.c:132:3: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  132 |   for(i = 0; i < length; i++)
      |   ^~~
utils.c:137:5: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  137 |     return indx;
      |     ^~~~~~
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o RMySQL.so RMySQL-init.o connection.o db-apply.o driver.o exception.o fields.o result.o utils.o -L/usr/lib/x86_64-linux-gnu/ -lmariadb -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpPpNtDK/R.INSTALL2ef62430411433/RMySQL/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-RMySQL/00new/RMySQL/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (RMySQL)
* installing *source* package ‘Pareto’ ...
** package ‘Pareto’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Pareto)
* installing *source* package ‘crch’ ...
** package ‘crch’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpDyLusr/R.INSTALL2ef6163ebcd656/crch/src'
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c clogis.c -o clogis.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c cnorm.c -o cnorm.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c ct.c -o ct.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c mycov.c -o mycov.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c tlogis.c -o tlogis.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c tnorm.c -o tnorm.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c tt.c -o tt.o
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o crch.so clogis.o cnorm.o ct.o init.o mycov.o tlogis.o tnorm.o tt.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpDyLusr/R.INSTALL2ef6163ebcd656/crch/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-crch/00new/crch/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** 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 (crch)
make: *** [Makefile:21: GEOmetadb.ts] Error 1
* installing *source* package ‘writexl’ ...
** package ‘writexl’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpI30FXw/R.INSTALL2ef6222451fcd1/writexl/src'
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c write_xlsx.c -o write_xlsx.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/app.c -o libxlsxwriter/app.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/format.c -o libxlsxwriter/format.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/theme.c -o libxlsxwriter/theme.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/chart.c -o libxlsxwriter/chart.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/hash_table.c -o libxlsxwriter/hash_table.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/utility.c -o libxlsxwriter/utility.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/content_types.c -o libxlsxwriter/content_types.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/packager.c -o libxlsxwriter/packager.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/workbook.c -o libxlsxwriter/workbook.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/core.c -o libxlsxwriter/core.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/relationships.c -o libxlsxwriter/relationships.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/worksheet.c -o libxlsxwriter/worksheet.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/custom.c -o libxlsxwriter/custom.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/shared_strings.c -o libxlsxwriter/shared_strings.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/xmlwriter.c -o libxlsxwriter/xmlwriter.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/drawing.c -o libxlsxwriter/drawing.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/styles.c -o libxlsxwriter/styles.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c tmpfileplus/tmpfileplus.c -o tmpfileplus/tmpfileplus.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/chartsheet.c -o libxlsxwriter/chartsheet.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c minizip/ioapi.c -o minizip/ioapi.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c minizip/zip.c -o minizip/zip.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/metadata.c -o libxlsxwriter/metadata.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/comment.c -o libxlsxwriter/comment.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/vml.c -o libxlsxwriter/vml.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c md5/md5.c -o md5/md5.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -Iinclude -DUSE_R_LANG  -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3  -fvisibility=hidden -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c libxlsxwriter/table.c -o libxlsxwriter/table.o
ar rcs libxlsxwriter/libstatxlsxwriter.a libxlsxwriter/app.o libxlsxwriter/format.o libxlsxwriter/theme.o libxlsxwriter/chart.o libxlsxwriter/hash_table.o libxlsxwriter/utility.o libxlsxwriter/content_types.o libxlsxwriter/packager.o libxlsxwriter/workbook.o libxlsxwriter/core.o libxlsxwriter/relationships.o libxlsxwriter/worksheet.o libxlsxwriter/custom.o libxlsxwriter/shared_strings.o libxlsxwriter/xmlwriter.o libxlsxwriter/drawing.o libxlsxwriter/styles.o tmpfileplus/tmpfileplus.o libxlsxwriter/chartsheet.o minizip/ioapi.o minizip/zip.o libxlsxwriter/metadata.o libxlsxwriter/comment.o libxlsxwriter/vml.o md5/md5.o libxlsxwriter/table.o 
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o writexl.so write_xlsx.o -Llibxlsxwriter -lstatxlsxwriter -lz -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpI30FXw/R.INSTALL2ef6222451fcd1/writexl/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-writexl/00new/writexl/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (writexl)
* installing *source* package ‘snplist’ ...
** package ‘snplist’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’
using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/Rtmp2KZuet/R.INSTALL2ef60620d1f09a/snplist/src'
g++-14  -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c exportPLINKSet.cpp -o exportPLINKSet.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG  -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o snplist.so exportPLINKSet.o init.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/Rtmp2KZuet/R.INSTALL2ef60620d1f09a/snplist/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-snplist/00new/snplist/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** 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 (snplist)
* installing *source* package ‘feather’ ...
** package ‘feather’ successfully unpacked and MD5 sums checked
** using staged installation
Platform is little endian. Good.
** libs
using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’
using C++11
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpCG4Sl8/R.INSTALL2ef6196e33e741/feather/src'
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c RcppExports.cpp -o RcppExports.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather-read.cpp -o feather-read.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather-types.cpp -o feather-types.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather-write.cpp -o feather-write.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/buffer.cc -o feather/buffer.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/feather-c.cc -o feather/feather-c.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/io.cc -o feather/io.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/metadata.cc -o feather/metadata.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/reader.cc -o feather/reader.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/status.cc -o feather/status.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/types.cc -o feather/types.o
g++-14  -std=gnu++11 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I. -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -pedantic -mtune=native   -c feather/writer.cc -o feather/writer.o
ar rcs libfeather.a feather/buffer.o feather/feather-c.o feather/io.o feather/metadata.o feather/reader.o feather/status.o feather/types.o feather/writer.o
g++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o feather.so RcppExports.o feather-read.o feather-types.o feather-write.o -L. -lfeather -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpCG4Sl8/R.INSTALL2ef6196e33e741/feather/src'
installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-feather/00new/feather/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (feather)
make: Target 'all' not remade because of errors.
* installing *source* package ‘GEOmetadb’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Error: object ‘gunzip’ is not exported by 'namespace:GEOquery'
Execution halted
ERROR: lazy loading failed for package ‘GEOmetadb’
* removing ‘/home/hornik/tmp/CRAN_recheck/Library/GEOmetadb’
Warning in (function (pkgs, lib, repos = getOption("repos"), contriburl = contrib.url(repos,  :
  installation of package ‘GEOmetadb’ failed
Calls: <Anonymous> -> do.call -> <Anonymous>

checking RMySQL_0.10.29.tar.gz ...
checking africamonitor_0.2.4.tar.gz ...
checking BETS_0.4.9.tar.gz ...
checking biolink_0.1.8.tar.gz ...
checking childesr_0.2.3.tar.gz ...
checking gmDatabase_0.5.0.tar.gz ...
checking ipanema_1.1.0.tar.gz ...
checking MDMAPR_0.2.3.tar.gz ...
checking MetaIntegrator_2.1.3.tar.gz ...
checking NetSimR_0.1.5.tar.gz ...
checking PheCAP_1.2.1.tar.gz ...
checking samadb_0.3.0.tar.gz ...
checking ugatsdb_0.2.3.tar.gz ...
checking dbx_0.3.2.tar.gz ...
checking dplyr_1.1.4.tar.gz ...
checking etl_0.4.1.tar.gz ...
checking octopus_0.4.2.tar.gz ...
checking pointblank_0.12.1.tar.gz ...
checking pool_1.0.3.tar.gz ...
checking ProjectTemplate_0.11.0.tar.gz ...
checking quantmod_0.4.26.tar.gz ...
checking RSQL_0.2.2.tar.gz ...
checking sqldf_0.4-11.tar.gz ...
checking twitteR_1.1.9.tar.gz ...
checking vismeteor_1.8.5.tar.gz ...

Depends:
Package: RMySQL
  Depends: R (>= 2.8.0), DBI (>= 0.4)
  Imports: methods

Timings:
         user system elapsed
RMySQL 33.586  4.392  39.888

Results:
Check status summary:
                  ERROR NOTE OK
  Source packages     0    1  0
  Reverse depends     2    7 15

Check results summary:
RMySQL ... NOTE
* checking CRAN incoming feasibility ... [8s/9s] NOTE
rdepends_africamonitor ... OK
rdepends_BETS ... NOTE
* checking Rd files ... [0s/0s] NOTE
rdepends_biolink ... OK
rdepends_childesr ... OK
rdepends_dbx ... OK
rdepends_dplyr ... NOTE
* checking compiled code ... NOTE
rdepends_etl ... NOTE
* checking Rd cross-references ... NOTE
rdepends_gmDatabase ... NOTE
* checking Rd files ... [1s/1s] NOTE
* checking Rd cross-references ... NOTE
rdepends_ipanema ... OK
rdepends_MDMAPR ... OK
rdepends_MetaIntegrator ... ERROR
* checking package dependencies ... ERROR
rdepends_NetSimR ... OK
rdepends_octopus ... OK
rdepends_PheCAP ... OK
rdepends_pointblank ... OK
rdepends_pool ... ERROR
* checking examples ... [2s/2s] ERROR
* checking re-building of vignette outputs ... [1s/1s] ERROR
rdepends_ProjectTemplate ... OK
rdepends_quantmod ... NOTE
* checking R code for possible problems ... [22s/22s] NOTE
rdepends_RSQL ... OK
rdepends_samadb ... OK
rdepends_sqldf ... NOTE
* checking Rd files ... [0s/0s] NOTE
rdepends_twitteR ... NOTE
* checking Rd cross-references ... NOTE
rdepends_ugatsdb ... OK
rdepends_vismeteor ... OK