On Mon, 14 Jan 2019 at 10:58, Glen MacLachlan <macl...@gwu.edu> wrote: > > Hello, > > Not sure if this is the right list of if this is a gdal/sf issue so I > apologize but recently I've been seeing errors that crash R/3.5.1 and throw > a double-linked list error (see below). Has anyone else come across this > issue and if so is there a fix?
R-sig-geo is probably a better place for this. Also, a reproducible example and/or the output from valgrind would be helpful. Iñaki > > > > > rwhole <- st_transform(rwhole,st_crs(ele.map)) > *** Error in `/usr/local/lib64/R/bin/exec/R': corrupted double-linked list: > 0x0000000082787a00 *** > ======= Backtrace: ========= > /lib64/libc.so.6(+0x80aef)[0x7f774ceceaef] > /lib64/libc.so.6(+0x8137e)[0x7f774cecf37e] > /usr/local/lib/libproj.so.13(pj_dealloc+0xe)[0x7f773f13ddee] > /usr/local/lib/libgdal.so.20(_ZN10OGRProj4CTD1Ev+0x77)[0x7f773f75a2f7] > /usr/local/lib/libgdal.so.20(_ZN10OGRProj4CTD0Ev+0x9)[0x7f773f75a3f9] > /usr/local/lib64/R > /library/sf/libs/sf.so(_Z13CPL_transformN4Rcpp6VectorILi19ENS_15PreserveStorageEEENS0_ILi16ES1_EE+0x1e2)[0x7f7738566582] > /usr/local/lib64/R > /library/sf/libs/sf.so(_sf_CPL_transform+0x72)[0x7f7738556472] > /usr/local/lib64/R/lib/libR.so(+0xf58ed)[0x7f774d97f8ed] > /usr/local/lib64/R/lib/libR.so(+0x131b36)[0x7f774d9bbb36] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x136e17)[0x7f774d9c0e17] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x1416c6)[0x7f774d9cb6c6] > /usr/local/lib64/R/lib/libR.so(+0x13d89c)[0x7f774d9c789c] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x136e17)[0x7f774d9c0e17] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x17f7b4)[0x7f774da097b4] > /usr/local/lib64/R/lib/libR.so(+0x17fba7)[0x7f774da09ba7] > /usr/local/lib64/R/lib/libR.so(+0x17ff93)[0x7f774da09f93] > /usr/local/lib64/R/lib/libR.so(+0x130109)[0x7f774d9ba109] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x136e17)[0x7f774d9c0e17] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x17f7b4)[0x7f774da097b4] > /usr/local/lib64/R/lib/libR.so(+0x17fc28)[0x7f774da09c28] > /usr/local/lib64/R/lib/libR.so(+0x17ff93)[0x7f774da09f93] > /usr/local/lib64/R/lib/libR.so(+0x130109)[0x7f774d9ba109] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x2fc)[0x7f774d9caf2c] > /usr/local/lib64/R/lib/libR.so(+0x144e76)[0x7f774d9cee76] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x55d)[0x7f774d9cb18d] > /usr/local/lib64/R/lib/libR.so(+0x14655b)[0x7f774d9d055b] > /usr/local/lib64/R/lib/libR.so(+0x131b36)[0x7f774d9bbb36] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x136e17)[0x7f774d9c0e17] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x1416c6)[0x7f774d9cb6c6] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x800)[0x7f774d9cb430] > /usr/local/lib64/R/lib/libR.so(+0x146841)[0x7f774d9d0841] > /usr/local/lib64/R/lib/libR.so(+0x17d7f9)[0x7f774da077f9] > /usr/local/lib64/R/lib/libR.so(+0x130109)[0x7f774d9ba109] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(+0x136e17)[0x7f774d9c0e17] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x348)[0x7f774d9caf78] > /usr/local/lib64/R/lib/libR.so(+0x14256b)[0x7f774d9cc56b] > /usr/local/lib64/R/lib/libR.so(Rf_eval+0x2fc)[0x7f774d9caf2c] > /usr/local/lib64/R/lib/libR.so(Rf_ReplIteration+0x232)[0x7f774d9fada2] > /usr/local/lib64/R/lib/libR.so(+0x171191)[0x7f774d9fb191] > /usr/local/lib64/R/lib/libR.so(run_Rmainloop+0x4f)[0x7f774d9fb22f] > /usr/local/lib64/R/bin/exec/R(main+0x1b)[0x40075b] > /lib64/libc.so.6(__libc_start_main+0xf5)[0x7f774ce70445] > /usr/local/lib64/R/bin/exec/R[0x40078b] > ======= Memory map: ======== > 00400000-00401000 r-xp 00000000 07:01 70665 > /usr/local/lib64/R/bin/exec/R > 00600000-00601000 r--p 00000000 07:01 70665 > /usr/local/lib64/R/bin/exec/R > 00601000-00602000 rw-p 00001000 07:01 70665 > /usr/local/lib64/R/bin/exec/R > 019c6000-a7898000 rw-p 00000000 00:00 0 > [heap] > 7f7738530000-7f77385ae000 r-xp 00000000 07:01 68 > /usr/local/lib64/R/library/sf/libs/sf.so > 7f77385ae000-7f77387ad000 ---p 0007e000 07:01 68 > /usr/local/lib64/R/library/sf/libs/sf.so > 7f77387ad000-7f77387af000 r--p 0007d000 07:01 68 > /usr/local/lib64/R/library/sf/libs/sf.so > 7f77387af000-7f77387b1000 rw-p 0007f000 07:01 68 > /usr/local/lib64/R/library/sf/libs/sf.so > 7f77387b1000-7f77387b3000 rw-p 00000000 00:00 0 > 7f77387b3000-7f77387cd000 r-xp 00000000 07:01 139267 > /usr/local/lib/libudunits2.so.0.1.0 > 7f77387cd000-7f77389cc000 ---p 0001a000 07:01 139267 > /usr/local/lib/libudunits2.so.0.1.0 > 7f77389cc000-7f77389cd000 r--p 00019000 07:01 139267 > /usr/local/lib/libudunits2.so.0.1.0 > 7f77389cd000-7f77389ce000 rw-p 0001a000 07:01 139267 > /usr/local/lib/libudunits2.so.0.1.0 > 7f77389ce000-7f77389e7000 r-xp 00000000 07:01 115212 > /usr/local/lib64/R/library/units/libs/units.so > 7f77389e7000-7f7738be7000 ---p 00019000 07:01 115212 > /usr/local/lib64/R/library/units/libs/units.so > 7f7738be7000-7f7738be8000 r--p 00019000 07:01 115212 > /usr/local/lib64/R/library/units/libs/units.so > 7f7738be8000-7f7738be9000 rw-p 0001a000 07:01 115212 > /usr/local/lib64/R/library/units/libs/units.so > 7f7738be9000-7f7738bfd000 r-xp 00000000 07:01 204 > /usr/local/lib64/R/library/tools/libs/tools.so > 7f7738bfd000-7f7738dfd000 ---p 00014000 07:01 204 > /usr/local/lib64/R/library/tools/libs/tools.so > 7f7738dfd000-7f7738dfe000 r--p 00014000 07:01 204 > /usr/local/lib64/R/library/tools/libs/tools.so > 7f7738dfe000-7f7738dff000 rw-p 00015000 07:01 204 > /usr/local/lib64/R/library/tools/libs/tools.so > 7f7738dff000-7f7738e00000 r-xp 00000000 07:01 107834 > /usr/local/lib64/R/library/classInt/libs/classInt.so > 7f7738e00000-7f7738fff000 ---p 00001000 07:01 107834 > /usr/local/lib64/R/library/classInt/libs/classInt.so > 7f7738fff000-7f7739000000 r--p 00000000 07:01 107834 > /usr/local/lib64/R/library/classInt/libs/classInt.so > 7f7739000000-7f7739001000 rw-p 00001000 07:01 107834 > /usr/local/lib64/R/library/classInt/libs/classInt.so > 7f7739001000-7f7739013000 r-xp 00000000 07:01 106999 > /usr/local/lib64/R/library/e1071/libs/e1071.so > 7f7739013000-7f7739213000 ---p 00012000 07:01 106999 > /usr/local/lib64/R/library/e1071/libs/e1071.so > 7f7739213000-7f7739214000 r--p 00012000 07:01 106999 > /usr/local/lib64/R/library/e1071/libs/e1071.so > 7f7739214000-7f7739215000 rw-p 00013000 07:01 106999 > /usr/local/lib64/R/library/e1071/libs/e1071.so > 7f7739215000-7f7739218000 r-xp 00000000 07:01 106908 > /usr/local/lib64/R/library/class/libs/class.soAborted (core dumped) > > Best, > Glen > > ========================================== > Glen MacLachlan, PhD > *Senior High Performance Computing Specialist * > > *Adjunct Faculty, Data Sciences* > > Office of Technology Services > The George Washington University > Washington, DC 20052 > > ========================================== > > [[alternative HTML version deleted]] > > ______________________________________________ > R-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel -- Iñaki Úcar ______________________________________________ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
