From h.wickham at gmail.com  Tue May  9 11:19:11 2006
From: h.wickham at gmail.com (hadley wickham)
Date: Tue, 9 May 2006 11:19:11 +0200
Subject: [Rd] Seg fault when installing package from bad repository
In-Reply-To: <f8e6ff050605090206j763a2438n914d6dd8f639cba@mail.gmail.com>
References: <f8e6ff050605090206j763a2438n914d6dd8f639cba@mail.gmail.com>
Message-ID: <f8e6ff050605090219l5819fb2era4209d44ebf17c1e@mail.gmail.com>

It still segfaults even now that I've fixed the access error.  Ah, 
but if I specify type="source", so it must be a problem with having a
mac binary path but no packages in it.  Is there anyway to fall back
to source automatically?

Thanks,

Hadley

On 5/9/06, hadley wickham <h.wickham at gmail.com> wrote:
> > install.packages("rggobi", repos="http://ggobi.org/r/")
> Warning in install.packages("rggobi", repos = "http://ggobi.org/r/") :
>          argument 'lib' is missing: using /Users/hadley/Library/R/library/
> Reading symbols for shared libraries . done
>
> Program received signal EXC_BAD_ACCESS, Could not access memory.
> Reason: KERN_INVALID_ADDRESS at address: 0x5f4d4550
> 0x90002f48 in strlen ()
> (gdb) where
> #0  0x90002f48 in strlen ()
> #1  0x9000d7d0 in __vfprintf$LDBL128 ()
> #2  0x900273cc in vsnprintf$LDBL128 ()
> #3  0x0108ea1c in Rvsnprintf (buf=0xbfff35f4 "B", size=1000,
> format=0x3 <Address 0x3 out of bounds>, ap=0x34 <Address 0x34 out of
> bounds>) at ../../../../R-2.3.0/src/main/errors.c:211
> #4  0x01092e68 in Rf_warning (format=0x3 <Address 0x3 out of bounds>)
> at ../../../../R-2.3.0/src/main/errors.c:223
> #5  0x023c39a8 in in_R_HTTPOpen (url=0x212c930
> "/Library/Frameworks/R.framework/Resources/share/locale/en/LC_MESSAGES/R.mo",
> cacheOK=404) at
> ../../../../../R-2.3.0/src/modules/internet/internet.c:490
> #6  0x023c3f00 in in_do_download (call=0x5f4d4553, op=0xbfff2a03,
> args=0x195d300, env=0x34) at
> ../../../../../R-2.3.0/src/modules/internet/internet.c:320
> #7  0x010b6290 in do_download (call=0x18d0078, op=0x181c2a8,
> args=0x18c3b50, env=0x18cfd64) at
> ../../../../R-2.3.0/src/main/internet.c:99
> #8  0x010cefc4 in do_internal (call=0x18c3b50, op=0xbfff2a03,
> args=0x0, env=0x18cfd64) at ../../../../R-2.3.0/src/main/names.c:1089
> #9  0x0109d798 in Rf_eval (e=0x18d0040, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #10 0x0109f87c in do_set (call=0x18d17b0, op=0x180a190,
> args=0x18d0008, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:1303
> #11 0x0109d798 in Rf_eval (e=0x18d17b0, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #12 0x0109d798 in Rf_eval (e=0x18d16b4, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #13 0x0109f93c in do_begin (call=0x18d1920, op=0x180a0cc,
> args=0x18d1628, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #14 0x0109d798 in Rf_eval (e=0x18d1920, rho=0x18cfd64) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #15 0x010a0d34 in Rf_applyClosure (call=0x18f8cf4, op=0x18d2580,
> arglist=0x18cfb50, rho=0x18f61ac, suppliedenv=0x181d200) at
> ../../../../R-2.3.0/src/main/eval.c:581
> #16 0x0109d634 in Rf_eval (e=0x18f8cf4, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:422
> #17 0x0109d66c in Rf_eval (e=0x18d2894, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:370
> #18 0x0109d938 in Rf_eval (e=0x1826b18, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:357
> #19 0x0109f93c in do_begin (call=0x1a37720, op=0x180a0cc,
> args=0x1a38f2c, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #20 0x0109d798 in Rf_eval (e=0x1a37720, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #21 0x0109d798 in Rf_eval (e=0x1a37800, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #22 0x0109f93c in do_begin (call=0x1a37838, op=0x180a0cc,
> args=0x1a3781c, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #23 0x0109d798 in Rf_eval (e=0x1a37838, rho=0x18d293c) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #24 0x010a0d34 in Rf_applyClosure (call=0x18f8cbc, op=0x1a378c4,
> arglist=0x18d28b0, rho=0x18f61ac, suppliedenv=0x181d200) at
> ../../../../R-2.3.0/src/main/eval.c:581
> #25 0x0109d634 in Rf_eval (e=0x18f8cbc, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:422
> #26 0x0109f87c in do_set (call=0x18f8c68, op=0x180a190,
> args=0x18f8c84, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:1303
> #27 0x0109d798 in Rf_eval (e=0x18f8c68, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #28 0x0109f93c in do_begin (call=0x18f88e8, op=0x180a0cc,
> args=0x18f8c4c, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #29 0x0109d798 in Rf_eval (e=0x18f88e8, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #30 0x0109d798 in Rf_eval (e=0x18f9724, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #31 0x0109f93c in do_begin (call=0x18f94d8, op=0x180a0cc,
> args=0x18f9708, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #32 0x0109d798 in Rf_eval (e=0x18f94d8, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #33 0x0109d798 in Rf_eval (e=0x18fa350, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #34 0x0109f93c in do_begin (call=0x18fa174, op=0x180a0cc,
> args=0x18fa334, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #35 0x0109d798 in Rf_eval (e=0x18fa174, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #36 0x010a0074 in do_for (call=0x18fa104, op=0x1808958,
> args=0x18fa120, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:963
> #37 0x0109d798 in Rf_eval (e=0x18fa104, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #38 0x0109f93c in do_begin (call=0x18fb2fc, op=0x180a0cc,
> args=0x18fa0e8, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #39 0x0109d798 in Rf_eval (e=0x18fb2fc, rho=0x18f61ac) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #40 0x010a0d34 in Rf_applyClosure (call=0x1910b18, op=0x18fbf5c,
> arglist=0x18f6120, rho=0x190c0cc, suppliedenv=0x181d200) at
> ../../../../R-2.3.0/src/main/eval.c:581
> #41 0x0109d634 in Rf_eval (e=0x1910b18, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:422
> #42 0x0109f87c in do_set (call=0x1910ac4, op=0x180a190,
> args=0x1910ae0, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:1303
> #43 0x0109d798 in Rf_eval (e=0x1910ac4, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #44 0x0109d798 in Rf_eval (e=0x1910a38, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #45 0x0109f93c in do_begin (call=0x19161ac, op=0x180a0cc,
> args=0x1910a00, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #46 0x0109d798 in Rf_eval (e=0x19161ac, rho=0x190c0cc) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #47 0x010a0d34 in Rf_applyClosure (call=0x19376ec, op=0x1916c30,
> arglist=0x190cd2c, rho=0x192e698, suppliedenv=0x181d200) at
> ../../../../R-2.3.0/src/main/eval.c:581
> #48 0x0109d634 in Rf_eval (e=0x19376ec, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:422
> #49 0x0109f93c in do_begin (call=0x19374bc, op=0x180a0cc,
> args=0x19376d0, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #50 0x0109d798 in Rf_eval (e=0x19374bc, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #51 0x0109d798 in Rf_eval (e=0x1937414, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #52 0x0109f93c in do_begin (call=0x19373dc, op=0x180a0cc,
> args=0x19373f8, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #53 0x0109d798 in Rf_eval (e=0x19373dc, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #54 0x0109d798 in Rf_eval (e=0x1938eb4, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #55 0x0109f93c in do_begin (call=0x193ceec, op=0x180a0cc,
> args=0x1938e98, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:1067
> #56 0x0109d798 in Rf_eval (e=0x193ceec, rho=0x192e698) at
> ../../../../R-2.3.0/src/main/eval.c:391
> #57 0x010a0d34 in Rf_applyClosure (call=0x193dd64, op=0x193c85c,
> arglist=0x192e4d8, rho=0x181d1e4, suppliedenv=0x181d200) at
> ../../../../R-2.3.0/src/main/eval.c:581
> #58 0x0109d634 in Rf_eval (e=0x193dd64, rho=0x181d1e4) at
> ../../../../R-2.3.0/src/main/eval.c:422
> #59 0x010bcdac in Rf_ReplIteration (rho=0x181d1e4, savestack=0,
> browselevel=18992200, state=0xbffff068) at
> ../../../../R-2.3.0/src/main/main.c:254
> #60 0x010bd0e0 in R_ReplConsole (rho=0x181d1e4, savestack=0,
> browselevel=0) at ../../../../R-2.3.0/src/main/main.c:302
> #61 0x010bd3f8 in run_Rmainloop () at ../../../../R-2.3.0/src/main/main.c:905
> #62 0x00002cd8 in main (ac=1598899539, av=0xbfff2a03) at
> ../../../../R-2.3.0/src/main/Rmain.c:33
>
> platform       powerpc-apple-darwin8.6.0
> arch           powerpc
> os             darwin8.6.0
> system         powerpc, darwin8.6.0
> status
> major          2
> minor          3.0
> year           2006
> month          04
> day            24
> svn rev        37909
> language       R
> version.string Version 2.3.0 (2006-04-24)
>
> http://ggobi.org/r/ is currently returning a 403 Forbidden header, but
> it shouldn't segfault (not a high priority either, though)
>
> Regards,
>
> Hadley
>



[Rd] Seg fault when installing package from bad repository
hadley wickham