The released version of R-1.7.0 builds and checks fine on Mandrake 9.1, but I am
still having trouble with my vignettes and sweave causing segfaults.
Unfortunately the segfaults with the release version are happening in tests
where I have much more difficulty trapping them. I did also build
R-1.7.0beta_2003-04-16 this morning, and for that the segfaults occurred in a
test which is much easier for me to reproduce. Below are gdb bt outputs, the
first without gctorture and the second with it. (I think they are the same.)
Paul
_____
GNU gdb 5.3-22mdk (Mandrake Linux)
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(gdb) run
Starting program:
/home/paul/dse/src/pac/R-test/R-1.7.0beta_2003.04.16/bin/R.bin
R : Copyright 2003, The R Development Core Team
Version 1.7.0 Under development (unstable) (2003-04-16)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type `license()' or `licence()' for distribution details.
R is a collaborative project with many contributors.
Type `contributors()' for more information.
Type `demo()' for some demos, `help()' for on-line help, or
`help.start()' for a HTML browser interface to help.
Type `q()' to quit R.
> library(tools)
> checkVignettes(dir='/home/paul/dse/src/pac/monitor', workdir =
'cur',
keepfiles=TRUE)
Program received signal SIGILL, Illegal instruction.
0x080786ff in file_fgetc (con=0xbfffc830) at connections.c:289
289 this->wpos = ftell(this->fp);
(gdb) bt
#0 0x080786ff in file_fgetc (con=0xbfffc830) at connections.c:289
#1 0x080a9ce1 in con_getc () at /ext/R/cvs/R-devel/src/main/gram.y:1130
#2 0x080a881b in xxgetc () at /ext/R/cvs/R-devel/src/main/gram.y:287
#3 0x080aa947 in SymbolValue (c=255)
at /ext/R/cvs/R-devel/src/main/gram.y:1673
#4 0x080aab01 in token () at /ext/R/cvs/R-devel/src/main/gram.y:1744
#5 0x080aaefa in Rf_yylex () at /ext/R/cvs/R-devel/src/main/gram.y:1886
#6 0x080a87e4 in Rf_yyparse () at
/usr/local/share/bison/bison.simple:595
#7 0x080a98cd in R_Parse1 (status=0x46)
at /ext/R/cvs/R-devel/src/main/gram.y:948
#8 0x080a9bee in R_Parse (n=-1, status=0xbfffcd68)
at /ext/R/cvs/R-devel/src/main/gram.y:1083
#9 0x081175d1 in do_parse (call=0x883d674, op=0x8205024,
args=0x8839138,
env=0x9207e84) at source.c:76
#10 0x080c99e4 in do_internal (call=0x883d5e8, op=0x81fb5e8,
args=0x92088bc,
env=0x9207e84) at names.c:1056
#11 0x080a3b28 in Rf_eval (e=0x883d5e8, rho=0x9207e84) at eval.c:418
#12 0x080a4f62 in do_begin (call=0x883cdc4, op=0x81fba9c,
args=0x883d5cc,
rho=0x9207e84) at eval.c:1072
#13 0x080a3b28 in Rf_eval (e=0x883cdc4, rho=0x9207e84) at eval.c:418
#14 0x080a3db2 in Rf_applyClosure (call=0x8954ae0, op=0x883d4ec,
arglist=0x9207f64, rho=0x9208338, suppliedenv=0x81f65c0) at
eval.c:609
#15 0x080a3937 in Rf_eval (e=0x8954ae0, rho=0x9208338) at eval.c:453
---Type <return> to continue, or q <return> to quit---
#16 0x080a5685 in do_set (call=0x8954a8c, op=0x9208338, args=0x8954aa8,
rho=0x9208338) at eval.c:1283
#17 0x080a3b28 in Rf_eval (e=0x8954a8c, rho=0x9208338) at eval.c:418
#18 0x080a586b in Rf_evalList (el=0x8954a1c, rho=0x9208338) at
eval.c:1372
#19 0x080a3a50 in Rf_eval (e=0x8954a00, rho=0x9208338) at eval.c:439
#20 0x080a5685 in do_set (call=0x89549ac, op=0x9208338, args=0x89549c8,
rho=0x9208338) at eval.c:1283
#21 0x080a3b28 in Rf_eval (e=0x89549ac, rho=0x9208338) at eval.c:418
#22 0x080a4f62 in do_begin (call=0x8953ad0, op=0x81fba9c,
args=0x8954990,
rho=0x9208338) at eval.c:1072
#23 0x080a3b28 in Rf_eval (e=0x8953ad0, rho=0x9208338) at eval.c:418
#24 0x080a3db2 in Rf_applyClosure (call=0x8720f1c, op=0x8958db0,
arglist=0x9208434, rho=0x8e5d4d0, suppliedenv=0x81f65c0) at
eval.c:609
#25 0x080a3937 in Rf_eval (e=0x8720f1c, rho=0x8e5d4d0) at eval.c:453
#26 0x080a3856 in Rf_eval (e=0x9206f1c, rho=0x9206e90) at eval.c:383
#27 0x080a379f in Rf_eval (e=0x826fc38, rho=0x9206e90) at eval.c:360
#28 0x080a4f62 in do_begin (call=0x87d4f84, op=0x81fba9c,
args=0x87d4edc,
rho=0x9206e90) at eval.c:1072
#29 0x080a3b28 in Rf_eval (e=0x87d4f84, rho=0x9206e90) at eval.c:418
#30 0x080a3b28 in Rf_eval (e=0x87d5b7c, rho=0x9206e90) at eval.c:418
#31 0x080a4f62 in do_begin (call=0x87d54c4, op=0x81fba9c,
args=0x87d5b60,
rho=0x9206e90) at eval.c:1072
#32 0x080a3b28 in Rf_eval (e=0x87d54c4, rho=0x9206e90) at eval.c:418
---Type <return> to continue, or q <return> to quit---
#33 0x080a3db2 in Rf_applyClosure (call=0x8721018, op=0x87d5a80,
arglist=0x9206f00, rho=0x8e5d4d0, suppliedenv=0x81f65c0) at
eval.c:609
#34 0x080a3937 in Rf_eval (e=0x8721018, rho=0x8e5d4d0) at eval.c:453
#35 0x080a5685 in do_set (call=0x8721088, op=0x8e5d4d0, args=0x8721050,
rho=0x8e5d4d0) at eval.c:1283
#36 0x080a3b28 in Rf_eval (e=0x8721088, rho=0x8e5d4d0) at eval.c:418
#37 0x080a4f62 in do_begin (call=0x87210a4, op=0x81fba9c,
args=0x87210c0,
rho=0x8e5d4d0) at eval.c:1072
#38 0x080a3b28 in Rf_eval (e=0x87210a4, rho=0x8e5d4d0) at eval.c:418
#39 0x080a495c in do_for (call=0x872089c, op=0x81f5fa0, args=0x8720810,
rho=0x8e5d4d0) at eval.c:968
#40 0x080a3b28 in Rf_eval (e=0x872089c, rho=0x8e5d4d0) at eval.c:418
#41 0x080a4f62 in do_begin (call=0x8720d40, op=0x81fba9c,
args=0x87208b8,
rho=0x8e5d4d0) at eval.c:1072
#42 0x080a3b28 in Rf_eval (e=0x8720d40, rho=0x8e5d4d0) at eval.c:418
#43 0x080a3b28 in Rf_eval (e=0x87209b4, rho=0x8e5d4d0) at eval.c:418
#44 0x080a4f62 in do_begin (call=0x8726138, op=0x81fba9c,
args=0x87209d0,
rho=0x8e5d4d0) at eval.c:1072
#45 0x080a3b28 in Rf_eval (e=0x8726138, rho=0x8e5d4d0) at eval.c:418
#46 0x080a3db2 in Rf_applyClosure (call=0x8e5d690, op=0x86cd684,
arglist=0x8e5d620, rho=0x820ce3c, suppliedenv=0x81f65c0) at
eval.c:609
#47 0x080a3937 in Rf_eval (e=0x8e5d690, rho=0x820ce3c) at eval.c:453
#48 0x080bd784 in Rf_ReplIteration (rho=0x820ce3c, savestack=1,
browselevel=0,
---Type <return> to continue, or q <return> to quit---
state=0xbffff050) at main.c:236
#49 0x080bd942 in R_ReplConsole (rho=0x820ce3c, savestack=0,
browselevel=0)
at main.c:284
#50 0x080be1ff in run_Rmainloop () at main.c:615
#51 0x08124b5c in main (ac=1, av=0xbffff524) at system.c:99
#52 0x400977f7 in __libc_start_main () from /lib/i686/libc.so.6
(gdb)
(gdb)
(gdb) run
The program being debugged has been started already.
Start it from the beginning? (y or n) y
Starting program:
/home/paul/dse/src/pac/R-test/R-1.7.0beta_2003.04.16/bin/R.bin
R : Copyright 2003, The R Development Core Team
Version 1.7.0 Under development (unstable) (2003-04-16)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type `license()' or `licence()' for distribution details.
R is a collaborative project with many contributors.
Type `contributors()' for more information.
Type `demo()' for some demos, `help()' for on-line help, or
`help.start()' for a HTML browser interface to help.
Type `q()' to quit R.
> library(tools)
> gctorture()
> checkVignettes(dir='/home/paul/dse/src/pac/monitor', workdir =
'cur',
keepfiles=TRUE)
Program received signal SIGILL, Illegal instruction.
0x080786ff in file_fgetc (con=0xbfffc830) at connections.c:289
289 this->wpos = ftell(this->fp);
(gdb) bt
#0 0x080786ff in file_fgetc (con=0xbfffc830) at connections.c:289
#1 0x080a9ce1 in con_getc () at /ext/R/cvs/R-devel/src/main/gram.y:1130
#2 0x080a881b in xxgetc () at /ext/R/cvs/R-devel/src/main/gram.y:287
#3 0x080aa947 in SymbolValue (c=255)
at /ext/R/cvs/R-devel/src/main/gram.y:1673
#4 0x080aab01 in token () at /ext/R/cvs/R-devel/src/main/gram.y:1744
#5 0x080aaefa in Rf_yylex () at /ext/R/cvs/R-devel/src/main/gram.y:1886
#6 0x080a87e4 in Rf_yyparse () at
/usr/local/share/bison/bison.simple:595
#7 0x080a98cd in R_Parse1 (status=0x46)
at /ext/R/cvs/R-devel/src/main/gram.y:948
#8 0x080a9bee in R_Parse (n=-1, status=0xbfffcd68)
at /ext/R/cvs/R-devel/src/main/gram.y:1083
#9 0x081175d1 in do_parse (call=0x883d674, op=0x8205024,
args=0x8839138,
env=0x8f403ec) at source.c:76
#10 0x080c99e4 in do_internal (call=0x883d5e8, op=0x81fb5e8,
args=0x8f38248,
env=0x8f403ec) at names.c:1056
#11 0x080a3b28 in Rf_eval (e=0x883d5e8, rho=0x8f403ec) at eval.c:418
#12 0x080a4f62 in do_begin (call=0x883cdc4, op=0x81fba9c,
args=0x883d5cc,
rho=0x8f403ec) at eval.c:1072
#13 0x080a3b28 in Rf_eval (e=0x883cdc4, rho=0x8f403ec) at eval.c:418
#14 0x080a3db2 in Rf_applyClosure (call=0x8954ae0, op=0x883d4ec,
arglist=0x8f38a88, rho=0x8f32c1c, suppliedenv=0x81f65c0) at
eval.c:609
#15 0x080a3937 in Rf_eval (e=0x8954ae0, rho=0x8f32c1c) at eval.c:453
---Type <return> to continue, or q <return> to quit---
#16 0x080a5685 in do_set (call=0x8954a8c, op=0x8f32c1c, args=0x8954aa8,
rho=0x8f32c1c) at eval.c:1283
#17 0x080a3b28 in Rf_eval (e=0x8954a8c, rho=0x8f32c1c) at eval.c:418
#18 0x080a586b in Rf_evalList (el=0x8954a1c, rho=0x8f32c1c) at
eval.c:1372
#19 0x080a3a50 in Rf_eval (e=0x8954a00, rho=0x8f32c1c) at eval.c:439
#20 0x080a5685 in do_set (call=0x89549ac, op=0x8f32c1c, args=0x89549c8,
rho=0x8f32c1c) at eval.c:1283
#21 0x080a3b28 in Rf_eval (e=0x89549ac, rho=0x8f32c1c) at eval.c:418
#22 0x080a4f62 in do_begin (call=0x8953ad0, op=0x81fba9c,
args=0x8954990,
rho=0x8f32c1c) at eval.c:1072
#23 0x080a3b28 in Rf_eval (e=0x8953ad0, rho=0x8f32c1c) at eval.c:418
#24 0x080a3db2 in Rf_applyClosure (call=0x8720f1c, op=0x8958db0,
arglist=0x8f33e5c, rho=0x8f38794, suppliedenv=0x81f65c0) at
eval.c:609
#25 0x080a3937 in Rf_eval (e=0x8720f1c, rho=0x8f38794) at eval.c:453
#26 0x080a3856 in Rf_eval (e=0x8dbce88, rho=0x8f348a0) at eval.c:383
#27 0x080a379f in Rf_eval (e=0x826fc38, rho=0x8f348a0) at eval.c:360
#28 0x080a4f62 in do_begin (call=0x87d4f84, op=0x81fba9c,
args=0x87d4edc,
rho=0x8f348a0) at eval.c:1072
#29 0x080a3b28 in Rf_eval (e=0x87d4f84, rho=0x8f348a0) at eval.c:418
#30 0x080a3b28 in Rf_eval (e=0x87d5b7c, rho=0x8f348a0) at eval.c:418
#31 0x080a4f62 in do_begin (call=0x87d54c4, op=0x81fba9c,
args=0x87d5b60,
rho=0x8f348a0) at eval.c:1072
#32 0x080a3b28 in Rf_eval (e=0x87d54c4, rho=0x8f348a0) at eval.c:418
---Type <return> to continue, or q <return> to quit---
#33 0x080a3db2 in Rf_applyClosure (call=0x8721018, op=0x87d5a80,
arglist=0x8d178e8, rho=0x8f38794, suppliedenv=0x81f65c0) at
eval.c:609
#34 0x080a3937 in Rf_eval (e=0x8721018, rho=0x8f38794) at eval.c:453
#35 0x080a5685 in do_set (call=0x8721088, op=0x8f38794, args=0x8721050,
rho=0x8f38794) at eval.c:1283
#36 0x080a3b28 in Rf_eval (e=0x8721088, rho=0x8f38794) at eval.c:418
#37 0x080a4f62 in do_begin (call=0x87210a4, op=0x81fba9c,
args=0x87210c0,
rho=0x8f38794) at eval.c:1072
#38 0x080a3b28 in Rf_eval (e=0x87210a4, rho=0x8f38794) at eval.c:418
#39 0x080a495c in do_for (call=0x872089c, op=0x81f5fa0, args=0x8720810,
rho=0x8f38794) at eval.c:968
#40 0x080a3b28 in Rf_eval (e=0x872089c, rho=0x8f38794) at eval.c:418
#41 0x080a4f62 in do_begin (call=0x8720d40, op=0x81fba9c,
args=0x87208b8,
rho=0x8f38794) at eval.c:1072
#42 0x080a3b28 in Rf_eval (e=0x8720d40, rho=0x8f38794) at eval.c:418
#43 0x080a3b28 in Rf_eval (e=0x87209b4, rho=0x8f38794) at eval.c:418
#44 0x080a4f62 in do_begin (call=0x8726138, op=0x81fba9c,
args=0x87209d0,
rho=0x8f38794) at eval.c:1072
#45 0x080a3b28 in Rf_eval (e=0x8726138, rho=0x8f38794) at eval.c:418
#46 0x080a3db2 in Rf_applyClosure (call=0x8f387e8, op=0x86cd684,
arglist=0x8f38858, rho=0x820ce3c, suppliedenv=0x81f65c0) at
eval.c:609
#47 0x080a3937 in Rf_eval (e=0x8f387e8, rho=0x820ce3c) at eval.c:453
#48 0x080bd784 in Rf_ReplIteration (rho=0x820ce3c, savestack=1,
browselevel=0,
---Type <return> to continue, or q <return> to quit---
state=0xbffff050) at main.c:236
#49 0x080bd942 in R_ReplConsole (rho=0x820ce3c, savestack=0,
browselevel=0)
at main.c:284
#50 0x080be1ff in run_Rmainloop () at main.c:615
#51 0x08124b5c in main (ac=1, av=0xbffff524) at system.c:99
#52 0x400977f7 in __libc_start_main () from /lib/i686/libc.so.6
(gdb)
