[Rd] Memory crash

From: Göran Broström <gb_at_stat.umu.se>
Date: Fri, 03 Oct 2008 11:32:03 +0200


Hello,

I get a segfault when running glmmboot in my own package glmmML. Has happened many time before, but this time I get no hint of where in my C functions the error might be. I give the output below. Can this be an R bug? I suspect it has to do with repeated calls to 'vmmin' like this:

            for (...){
                 vmax = vmaxget();
		vmmin(*p, b, &Fmin,
		      bfun, bfun_gr, *maxit, *trace,
		      mask, abstol, reltol, nREPORT,
		      ext, &fncount, &grcount, &fail);
		vmaxset(vmax);
                 ...
            }

but I am only guessing. Any suggestions?

Ubuntu 8.04, R-2.7.2.

Göran



  > glmmboot(y ~ x, cluster = cluster, data = res$dat, family = binomial, boot = 400)

Program received signal SIGSEGV, Segmentation fault. 0x000000000041a817 in R_gc_internal (size_needed=3000) at memory.c:1317 1317 PROCESS_NODES();
(gdb) where
#0 0x000000000041a817 in R_gc_internal (size_needed=3000) at memory.c:1317
#1 0x000000000041c31c in Rf_allocVector (type=14, length=3000)

     at memory.c:1968
#2 0x000000000052a647 in duplicate1 (s=0x20cb4a0) at duplicate.c:214
#3 0x00000000004e1775 in do_makelist (call=<value optimized out>,

     op=<value optimized out>, args=0x1e18238, rho=<value optimized out>)
     at builtin.c:645

#4 0x000000000054697a in Rf_eval (e=0x10685a0, rho=0x1c557e0) at eval.c:492
#5 0x000000000054a7ef in do_set (call=0x10684f8, op=0x936188,
args=0x1068530,

     rho=0x1c557e0) at eval.c:1424
#6 0x0000000000546896 in Rf_eval (e=0x10684f8, rho=0x1c557e0) at eval.c:463
#7 0x00000000005474c0 in do_begin (call=0x1089ab0, op=0x936ef8,

     args=0x10684c0, rho=0x1c557e0) at eval.c:1176
#8 0x0000000000546896 in Rf_eval (e=0x1089ab0, rho=0x1c557e0) at eval.c:463
#9 0x0000000000546896 in Rf_eval (e=0x1089960, rho=0x1c557e0) at eval.c:463
#10 0x00000000005474c0 in do_begin (call=0x10fa1c0, op=0x936ef8,

     args=0x10898f0, rho=0x1c557e0) at eval.c:1176
#11 0x0000000000546896 in Rf_eval (e=0x10fa1c0, rho=0x1c557e0) at eval.c:463
#12 0x0000000000548a4c in Rf_applyClosure (call=0x13714e8, op=0x10fa4e8,

     arglist=0x1c551c0, rho=0x1e06538, suppliedenv=0x959c50) at eval.c:669
#13 0x00000000005467b8 in Rf_eval (e=0x13714e8, rho=0x1e06538) at eval.c:507
#14 0x000000000054a7ef in do_set (call=0x1371440, op=0x936188,
args=0x1371478,

     rho=0x1e06538) at eval.c:1424
#15 0x0000000000546896 in Rf_eval (e=0x1371440, rho=0x1e06538) at eval.c:463
#16 0x00000000005474c0 in do_begin (call=0x137e938, op=0x936ef8,

     args=0x1371408, rho=0x1e06538) at eval.c:1176
#17 0x0000000000546896 in Rf_eval (e=0x137e938, rho=0x1e06538) at eval.c:463
#18 0x0000000000548a4c in Rf_applyClosure (call=0x1e05ff8, op=0x137ef08,

     arglist=0x1e060a0, rho=0x959c18, suppliedenv=0x959c50) at eval.c:669
#19 0x00000000005467b8 in Rf_eval (e=0x1e05ff8, rho=0x959c18) at eval.c:507
#20 0x0000000000416b95 in Rf_ReplIteration (rho=0x959c18, savestack=0,

     browselevel=0, state=0x7fffca277fa0) at main.c:257
#21 0x0000000000416e60 in R_ReplConsole (rho=0x959c18, savestack=0,

     browselevel=0) at main.c:306
#22 0x0000000000417140 in run_Rmainloop () at main.c:967
#23 0x0000000000414c08 in main (ac=<value optimized out>,

     av=<value optimized out>) at Rmain.c:35
#24 0x00007f10c116a1c4 in __libc_start_main () from /lib/libc.so.6
#25 0x0000000000414b29 in _start ()

-- 
Göran Broström               phone: 46 90 786 5223; 46 705 197 507
Department of Statistics     fax: 46 90 786 6614
Umeå University              email: gb_at_stat.umu.se
SE-90187 Umeå, Sweden        http://www.stat.umu.se/personal/goran.brostrom

______________________________________________
R-devel_at_r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Received on Fri 03 Oct 2008 - 09:33:57 GMT

Archive maintained by Robert King, hosted by the discipline of statistics at the University of Newcastle, Australia.
Archive generated by hypermail 2.2.0, at Fri 03 Oct 2008 - 11:30:16 GMT.

Mailing list information is available at https://stat.ethz.ch/mailman/listinfo/r-devel. Please read the posting guide before posting to the list.

list of date sections of archive