Hi, cbind() doesn't seem to like raw vectors: > df <- cbind(a=integer(4000), b=raw(4000)) > df *** glibc detected *** /home/hpages/R-2.13.1/bin/exec/R: malloc(): memory corruption: 0x0000000002d73ca0 *** ======= Backtrace: ========/lib/x86_64-linux-gnu/libc.so.6(+0x79d7a)[0x7f3592b91d7a] /lib/x86_64-linux-gnu/libc.so.6(__libc_malloc+0x6e)[0x7f3592b9431e] /lib/libreadline.so.5(xmalloc+0x6)[0x7f3592620ab6] /lib/libreadline.so.5(add_history+0xbe)[0x7f359262136e] /home/hpages/R-2.13.1/lib/libR.so(+0x1b6538)[0x7f35936bd538] /lib/libreadline.so.5(rl_callback_read_char+0x8c)[0x7f359261cb1c] /home/hpages/R-2.13.1/lib/libR.so(+0x1b6f74)[0x7f35936bdf74] /home/hpages/R-2.13.1/lib/libR.so(Rf_ReplIteration+0xe7)[0x7f3593610eb7] /home/hpages/R-2.13.1/lib/libR.so(+0x10a260)[0x7f3593611260] /home/hpages/R-2.13.1/lib/libR.so(run_Rmainloop+0x50)[0x7f3593611780] /home/hpages/R-2.13.1/bin/exec/R(main+0x1b)[0x40085b] /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xff)[0x7f3592b36eff] /home/hpages/R-2.13.1/bin/exec/R[0x400779] ======= Memory map: =======00400000-00401000 r-xp 00000000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R 00600000-00601000 r--p 00000000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R 00601000-00602000 rw-p 00001000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R 02583000-03b16000 rw-p 00000000 00:00 0 [heap] 7f358c000000-7f358c021000 rw-p 00000000 00:00 0 7f358c021000-7f3590000000 ---p 00000000 00:00 0 7f3590342000-7f3590357000 r-xp 00000000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f3590357000-7f3590556000 ---p 00015000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f3590556000-7f3590557000 r--p 00014000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f3590557000-7f3590558000 rw-p 00015000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 7f3590558000-7f35905c4000 r-xp 00000000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so 7f35905c4000-7f35907c3000 ---p 0006c000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so 7f35907c3000-7f35907c5000 r--p 0006b000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so 7f35907c5000-7f35907c7000 rw-p 0006d000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so 7f35907c7000-7f359083a000 rw-p 00000000 00:00 0 7f359083a000-7f359085c000 r-xp 00000000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so 7f359085c000-7f3590a5b000 ---p 00022000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so 7f3590a5b000-7f3590a5c000 r--p 00021000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so 7f3590a5c000-7f3590a5d000 rw-p 00022000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so 7f3590b61000-7f3590b63000 r-xp 00000000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so 7f3590b63000-7f3590d62000 ---p 00002000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so 7f3590d62000-7f3590d63000 r--p 00001000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so 7f3590d63000-7f3590d64000 rw-p 00002000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so 7f3590d64000-7f3590de6000 rw-p 00000000 00:00 0 7f3590de6000-7f3590ded000 r-xp 00000000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so 7f3590ded000-7f3590fec000 ---p 00007000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so 7f3590fec000-7f3590fed000 r--p 00006000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so 7f3590fed000-7f3590fee000 rw-p 00007000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so 7f3590fee000-7f3590ffa000 r-xp 00000000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so 7f3590ffa000-7f35911f9000 ---p 0000c000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so 7f35911f9000-7f35911fa000 r--p 0000b000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so 7f35911fa000-7f35911fb000 rw-p 0000c000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so 7f35911fb000-7f3591206000 r-xp 00000000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so 7f3591206000-7f3591405000 ---p 0000b000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so 7f3591405000-7f3591406000 r--p 0000a000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so 7f3591406000-7f3591407000 rw-p 0000b000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so 7f3591407000-7f359141e000 r-xp 00000000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so 7f359141e000-7f359161d000 ---p 00017000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so 7f359161d000-7f359161e000 r--p 00016000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so 7f359161e000-7f359161f000 rw-p 00017000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so 7f359161f000-7f3591621000 rw-p 00000000 00:00 0 7f3591621000-7f3591629000 r-xp 00000000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so 7f3591629000-7f3591828000 ---p 00008000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so 7f3591828000-7f3591829000 r--p 00007000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so 7f3591829000-7f359182a000 rw-p 00008000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so 7f359182a000-7f3591d21000 r--p 00000000 08:07 590549 /usr/lib/locale/locale-archive 7f3591d21000-7f3591d61000 r-xp 00000000 08:06 8139 /lib/libncurses.so.5.7 7f3591d61000-7f3591f60000 ---p 00040000 08:06 8139 /lib/libncurses.so.5.7 7f3591f60000-7f3591f64000 r--p 0003f000 08:06 8139 /lib/libncurses.so.5.7 7f3591f64000-7f3591f65000 rw-p 00043000 08:06 8139 /lib/libncurses.so.5.7 7f3591f65000-7f3591f6c000 r-xp 00000000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.so 7f3591f6c000-7f359216b000 ---p 00007000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.so 7f359216b000-7f359216c000 r--p 00006000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.soAborted This is with R 2.13.1 but it also crashes recent R devel. Thanks, H. > sessionInfo() R version 2.13.1 (2011-07-08) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_CA.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_CA.UTF-8 LC_COLLATE=en_CA.UTF-8 [5] LC_MONETARY=C LC_MESSAGES=en_CA.UTF-8 [7] LC_PAPER=en_CA.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_CA.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base -- Herv? Pag?s Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319
On 09/23/2011 01:46 PM, Herv? Pag?s wrote:> Hi, > > cbind() doesn't seem to like raw vectors: > > > df <- cbind(a=integer(4000), b=raw(4000)) > > df > *** glibc detected *** /home/hpages/R-2.13.1/bin/exec/R: malloc(): > memory corruption: 0x0000000002d73ca0 ***For what it's worth, under valgrind R -d valgrind -e "df <- cbind(a=integer(4000), b=raw(4000)) " ==19446== Memcheck, a memory error detector ==19446== Copyright (C) 2002-2009, and GNU GPL'd, by Julian Seward et al. ==19446== Using Valgrind-3.5.0 and LibVEX; rerun with -h for copyright info ==19446== Command: /home/mtmorgan/bin/R-devel/bin/exec/R --no-save --quiet -e df~+~\<-~+~cbind(a=integer(4000),~+~b=raw(4000))~+~ ==19446= > df <- cbind(a=integer(4000), b=raw(4000)) ==19446== Invalid write of size 8 ==19446== at 0x4E8C488: cbind (bind.c:1318) ==19446== by 0x4E8B910: do_bind (bind.c:1117) ==19446== by 0x4F77460: do_internal (names.c:1229) ==19446== by 0x4F14543: Rf_eval (eval.c:469) ==19446== by 0x4F154EC: Rf_applyClosure (eval.c:838) ==19446== by 0x4F14856: Rf_eval (eval.c:513) ==19446== by 0x4F17F19: do_set (eval.c:1724) ==19446== by 0x4F14543: Rf_eval (eval.c:469) ==19446== by 0x4F5D0A8: Rf_ReplIteration (main.c:255) ==19446== by 0x4F5D295: R_ReplConsole (main.c:304) ==19446== by 0x4F5E8F4: run_Rmainloop (main.c:985) ==19446== by 0x4F5E909: Rf_mainloop (main.c:992) ==19446== Address 0x8253298 is 0 bytes after a block of size 32,040 alloc'd ==19446== at 0x4C26C3A: malloc (in /usr/lib64/valgrind/vgpreload_memcheck-amd64-linux.so) and at bind.c:1306:1319 if (TYPEOF(u) <= INTSXP) { if (mode <= INTSXP) { for (i = 0; i < idx; i++) INTEGER(result)[n++] = INTEGER(u)[i % k]; } else { for (i = 0; i < idx; i++) REAL(result)[n++] = (INTEGER(u)[i % k]) == NA_INTEGER ? NA_REAL : INTEGER(u)[i % k]; } } else { for (i = 0; i < idx; i++) REAL(result)[n++] = REAL(u)[i % k]; } we end up writing REAL(result)[n++] = REAL(u)[i % k] even though (gdb) p TYPEOF(u) $15 = 24 i.e., RAWSXP (gdb) p TYPEOF(result) $16 = 13 i.e., INTSXP it's because the test TYPEOF(u) <= INTSXP fails bind.c:1306. Martin sessionInfo() R Under development (unstable) (2011-09-19 r57030) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=C LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base> ======= Backtrace: ========> /lib/x86_64-linux-gnu/libc.so.6(+0x79d7a)[0x7f3592b91d7a] > /lib/x86_64-linux-gnu/libc.so.6(__libc_malloc+0x6e)[0x7f3592b9431e] > /lib/libreadline.so.5(xmalloc+0x6)[0x7f3592620ab6] > /lib/libreadline.so.5(add_history+0xbe)[0x7f359262136e] > /home/hpages/R-2.13.1/lib/libR.so(+0x1b6538)[0x7f35936bd538] > /lib/libreadline.so.5(rl_callback_read_char+0x8c)[0x7f359261cb1c] > /home/hpages/R-2.13.1/lib/libR.so(+0x1b6f74)[0x7f35936bdf74] > /home/hpages/R-2.13.1/lib/libR.so(Rf_ReplIteration+0xe7)[0x7f3593610eb7] > /home/hpages/R-2.13.1/lib/libR.so(+0x10a260)[0x7f3593611260] > /home/hpages/R-2.13.1/lib/libR.so(run_Rmainloop+0x50)[0x7f3593611780] > /home/hpages/R-2.13.1/bin/exec/R(main+0x1b)[0x40085b] > /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xff)[0x7f3592b36eff] > /home/hpages/R-2.13.1/bin/exec/R[0x400779] > ======= Memory map: =======> 00400000-00401000 r-xp 00000000 08:01 3811201 > /home/hpages/R-2.13.1/bin/exec/R > 00600000-00601000 r--p 00000000 08:01 3811201 > /home/hpages/R-2.13.1/bin/exec/R > 00601000-00602000 rw-p 00001000 08:01 3811201 > /home/hpages/R-2.13.1/bin/exec/R > 02583000-03b16000 rw-p 00000000 00:00 0 [heap] > 7f358c000000-7f358c021000 rw-p 00000000 00:00 0 > 7f358c021000-7f3590000000 ---p 00000000 00:00 0 > 7f3590342000-7f3590357000 r-xp 00000000 08:06 8155 > /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590357000-7f3590556000 ---p 00015000 08:06 8155 > /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590556000-7f3590557000 r--p 00014000 08:06 8155 > /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590557000-7f3590558000 rw-p 00015000 08:06 8155 > /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590558000-7f35905c4000 r-xp 00000000 08:01 3818237 > /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35905c4000-7f35907c3000 ---p 0006c000 08:01 3818237 > /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c3000-7f35907c5000 r--p 0006b000 08:01 3818237 > /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c5000-7f35907c7000 rw-p 0006d000 08:01 3818237 > /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c7000-7f359083a000 rw-p 00000000 00:00 0 > 7f359083a000-7f359085c000 r-xp 00000000 08:01 3817784 > /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f359085c000-7f3590a5b000 ---p 00022000 08:01 3817784 > /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590a5b000-7f3590a5c000 r--p 00021000 08:01 3817784 > /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590a5c000-7f3590a5d000 rw-p 00022000 08:01 3817784 > /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590b61000-7f3590b63000 r-xp 00000000 08:07 671027 > /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590b63000-7f3590d62000 ---p 00002000 08:07 671027 > /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d62000-7f3590d63000 r--p 00001000 08:07 671027 > /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d63000-7f3590d64000 rw-p 00002000 08:07 671027 > /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d64000-7f3590de6000 rw-p 00000000 00:00 0 > 7f3590de6000-7f3590ded000 r-xp 00000000 08:01 3818288 > /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590ded000-7f3590fec000 ---p 00007000 08:01 3818288 > /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fec000-7f3590fed000 r--p 00006000 08:01 3818288 > /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fed000-7f3590fee000 rw-p 00007000 08:01 3818288 > /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fee000-7f3590ffa000 r-xp 00000000 08:06 8319 > /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f3590ffa000-7f35911f9000 ---p 0000c000 08:06 8319 > /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911f9000-7f35911fa000 r--p 0000b000 08:06 8319 > /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911fa000-7f35911fb000 rw-p 0000c000 08:06 8319 > /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911fb000-7f3591206000 r-xp 00000000 08:06 8321 > /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591206000-7f3591405000 ---p 0000b000 08:06 8321 > /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591405000-7f3591406000 r--p 0000a000 08:06 8321 > /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591406000-7f3591407000 rw-p 0000b000 08:06 8321 > /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591407000-7f359141e000 r-xp 00000000 08:06 8316 > /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359141e000-7f359161d000 ---p 00017000 08:06 8316 > /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161d000-7f359161e000 r--p 00016000 08:06 8316 > /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161e000-7f359161f000 rw-p 00017000 08:06 8316 > /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161f000-7f3591621000 rw-p 00000000 00:00 0 > 7f3591621000-7f3591629000 r-xp 00000000 08:06 8317 > /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591629000-7f3591828000 ---p 00008000 08:06 8317 > /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591828000-7f3591829000 r--p 00007000 08:06 8317 > /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591829000-7f359182a000 rw-p 00008000 08:06 8317 > /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f359182a000-7f3591d21000 r--p 00000000 08:07 590549 > /usr/lib/locale/locale-archive > 7f3591d21000-7f3591d61000 r-xp 00000000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591d61000-7f3591f60000 ---p 00040000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f60000-7f3591f64000 r--p 0003f000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f64000-7f3591f65000 rw-p 00043000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f65000-7f3591f6c000 r-xp 00000000 08:06 8326 > /lib/x86_64-linux-gnu/librt-2.13.so > 7f3591f6c000-7f359216b000 ---p 00007000 08:06 8326 > /lib/x86_64-linux-gnu/librt-2.13.so > 7f359216b000-7f359216c000 r--p 00006000 08:06 8326 > /lib/x86_64-linux-gnu/librt-2.13.soAborted > > This is with R 2.13.1 but it also crashes recent R devel. > > Thanks, > H. > > > sessionInfo() > R version 2.13.1 (2011-07-08) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_CA.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_CA.UTF-8 LC_COLLATE=en_CA.UTF-8 > [5] LC_MONETARY=C LC_MESSAGES=en_CA.UTF-8 > [7] LC_PAPER=en_CA.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_CA.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base >-- Computational Biology Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: M1-B861 Telephone: 206 667-2793
Thanks, now fixed. Simon On Sep 23, 2011, at 4:46 PM, Herv? Pag?s wrote:> Hi, > > cbind() doesn't seem to like raw vectors: > > > df <- cbind(a=integer(4000), b=raw(4000)) > > df > *** glibc detected *** /home/hpages/R-2.13.1/bin/exec/R: malloc(): memory corruption: 0x0000000002d73ca0 *** > ======= Backtrace: ========> /lib/x86_64-linux-gnu/libc.so.6(+0x79d7a)[0x7f3592b91d7a] > /lib/x86_64-linux-gnu/libc.so.6(__libc_malloc+0x6e)[0x7f3592b9431e] > /lib/libreadline.so.5(xmalloc+0x6)[0x7f3592620ab6] > /lib/libreadline.so.5(add_history+0xbe)[0x7f359262136e] > /home/hpages/R-2.13.1/lib/libR.so(+0x1b6538)[0x7f35936bd538] > /lib/libreadline.so.5(rl_callback_read_char+0x8c)[0x7f359261cb1c] > /home/hpages/R-2.13.1/lib/libR.so(+0x1b6f74)[0x7f35936bdf74] > /home/hpages/R-2.13.1/lib/libR.so(Rf_ReplIteration+0xe7)[0x7f3593610eb7] > /home/hpages/R-2.13.1/lib/libR.so(+0x10a260)[0x7f3593611260] > /home/hpages/R-2.13.1/lib/libR.so(run_Rmainloop+0x50)[0x7f3593611780] > /home/hpages/R-2.13.1/bin/exec/R(main+0x1b)[0x40085b] > /lib/x86_64-linux-gnu/libc.so.6(__libc_start_main+0xff)[0x7f3592b36eff] > /home/hpages/R-2.13.1/bin/exec/R[0x400779] > ======= Memory map: =======> 00400000-00401000 r-xp 00000000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R > 00600000-00601000 r--p 00000000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R > 00601000-00602000 rw-p 00001000 08:01 3811201 /home/hpages/R-2.13.1/bin/exec/R > 02583000-03b16000 rw-p 00000000 00:00 0 [heap] > 7f358c000000-7f358c021000 rw-p 00000000 00:00 0 > 7f358c021000-7f3590000000 ---p 00000000 00:00 0 > 7f3590342000-7f3590357000 r-xp 00000000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590357000-7f3590556000 ---p 00015000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590556000-7f3590557000 r--p 00014000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590557000-7f3590558000 rw-p 00015000 08:06 8155 /lib/x86_64-linux-gnu/libgcc_s.so.1 > 7f3590558000-7f35905c4000 r-xp 00000000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35905c4000-7f35907c3000 ---p 0006c000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c3000-7f35907c5000 r--p 0006b000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c5000-7f35907c7000 rw-p 0006d000 08:01 3818237 /home/hpages/R-2.13.1/library/stats/libs/stats.so > 7f35907c7000-7f359083a000 rw-p 00000000 00:00 0 > 7f359083a000-7f359085c000 r-xp 00000000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f359085c000-7f3590a5b000 ---p 00022000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590a5b000-7f3590a5c000 r--p 00021000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590a5c000-7f3590a5d000 rw-p 00022000 08:01 3817784 /home/hpages/R-2.13.1/library/grDevices/libs/grDevices.so > 7f3590b61000-7f3590b63000 r-xp 00000000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590b63000-7f3590d62000 ---p 00002000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d62000-7f3590d63000 r--p 00001000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d63000-7f3590d64000 rw-p 00002000 08:07 671027 /usr/lib/x86_64-linux-gnu/gconv/ISO8859-1.so > 7f3590d64000-7f3590de6000 rw-p 00000000 00:00 0 > 7f3590de6000-7f3590ded000 r-xp 00000000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590ded000-7f3590fec000 ---p 00007000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fec000-7f3590fed000 r--p 00006000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fed000-7f3590fee000 rw-p 00007000 08:01 3818288 /home/hpages/R-2.13.1/library/methods/libs/methods.so > 7f3590fee000-7f3590ffa000 r-xp 00000000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f3590ffa000-7f35911f9000 ---p 0000c000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911f9000-7f35911fa000 r--p 0000b000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911fa000-7f35911fb000 rw-p 0000c000 08:06 8319 /lib/x86_64-linux-gnu/libnss_files-2.13.so > 7f35911fb000-7f3591206000 r-xp 00000000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591206000-7f3591405000 ---p 0000b000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591405000-7f3591406000 r--p 0000a000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591406000-7f3591407000 rw-p 0000b000 08:06 8321 /lib/x86_64-linux-gnu/libnss_nis-2.13.so > 7f3591407000-7f359141e000 r-xp 00000000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359141e000-7f359161d000 ---p 00017000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161d000-7f359161e000 r--p 00016000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161e000-7f359161f000 rw-p 00017000 08:06 8316 /lib/x86_64-linux-gnu/libnsl-2.13.so > 7f359161f000-7f3591621000 rw-p 00000000 00:00 0 > 7f3591621000-7f3591629000 r-xp 00000000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591629000-7f3591828000 ---p 00008000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591828000-7f3591829000 r--p 00007000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f3591829000-7f359182a000 rw-p 00008000 08:06 8317 /lib/x86_64-linux-gnu/libnss_compat-2.13.so > 7f359182a000-7f3591d21000 r--p 00000000 08:07 590549 /usr/lib/locale/locale-archive > 7f3591d21000-7f3591d61000 r-xp 00000000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591d61000-7f3591f60000 ---p 00040000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f60000-7f3591f64000 r--p 0003f000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f64000-7f3591f65000 rw-p 00043000 08:06 8139 /lib/libncurses.so.5.7 > 7f3591f65000-7f3591f6c000 r-xp 00000000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.so > 7f3591f6c000-7f359216b000 ---p 00007000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.so > 7f359216b000-7f359216c000 r--p 00006000 08:06 8326 /lib/x86_64-linux-gnu/librt-2.13.soAborted > > This is with R 2.13.1 but it also crashes recent R devel. > > Thanks, > H. > > > sessionInfo() > R version 2.13.1 (2011-07-08) > Platform: x86_64-unknown-linux-gnu (64-bit) > > locale: > [1] LC_CTYPE=en_CA.UTF-8 LC_NUMERIC=C > [3] LC_TIME=en_CA.UTF-8 LC_COLLATE=en_CA.UTF-8 > [5] LC_MONETARY=C LC_MESSAGES=en_CA.UTF-8 > [7] LC_PAPER=en_CA.UTF-8 LC_NAME=C > [9] LC_ADDRESS=C LC_TELEPHONE=C > [11] LC_MEASUREMENT=en_CA.UTF-8 LC_IDENTIFICATION=C > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > -- > Herv? Pag?s > > Program in Computational Biology > Division of Public Health Sciences > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N, M1-B514 > P.O. Box 19024 > Seattle, WA 98109-1024 > > E-mail: hpages at fhcrc.org > Phone: (206) 667-5791 > Fax: (206) 667-1319 > > ______________________________________________ > R-devel at r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/r-devel > >