Bug#557553: geneweb: Search and navigaition fails
Hi, after upgrading to kubuntu lucid lynx last weekend, this bug bit me, too. Are there any news on the subject? Regards Mara -- Suspicion always haunts the guilty mind. -- Wm. Shakespeare -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Quoting Mara Raram (marara...@googlemail.com): Hi, after upgrading to kubuntu lucid lynx last weekend, this bug bit me, too. Are there any news on the subject? I'm afraid there aren't any. The bug has been sent upstream and I just can wait...not being a wizard in Ocaml programming. signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
Wolfgang Rohdewald a écrit : the original bug submitter posted a simple way how to reproduce the bug: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=557553#15 could you please try that on a 64bit distribution? I was able to reproduce the bug on an amd64 box. Here is a backtrace: Wserver: uncaught exception: End_of_file Raised by primitive operation at file , line 0, characters 0-0 Called from file some.ml, line 664, characters 14-44 Called from file some.ml, line 688, characters 7-46 Called from file request.ml, line 734, characters 17-35 Called from file request.ml, line 754, characters 12-39 Re-raised at file request.ml, line 755, characters 38-41 Called from file gwd.ml, line 1467, characters 23-116 Called from file gwd.ml, line 1635, characters 12-95 Called from file wserver.ml, line 338, characters 6-51 Cheers, -- Stéphane -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Stéphane Glondu a écrit :
I was able to reproduce the bug on an amd64 box. Here is a backtrace:
Wserver: uncaught exception: End_of_file
Raised by primitive operation at file , line 0, characters 0-0
Called from file some.ml, line 664, characters 14-44
Called from file some.ml, line 688, characters 7-46
Called from file request.ml, line 734, characters 17-35
Called from file request.ml, line 754, characters 12-39
Re-raised at file request.ml, line 755, characters 38-41
Called from file gwd.ml, line 1467, characters 23-116
Called from file gwd.ml, line 1635, characters 12-95
Called from file wserver.ml, line 338, characters 6-51
More precisely, in database.ml, around line 441:
if Sys.file_exists fname_inx_acc then
let ic_inx_acc = Secure.open_in_bin fname_inx_acc in
do {
seek_in ic_inx_acc (Iovalue.sizeof_long * (table_size + i));
let pos = input_binary_int ic_inx_acc in
close_in ic_inx_acc;
seek_in ic_inx pos;
(Iovalue.input ic_inx : array dsk_istr)
}
else (* compatibility *)
where:
- fname_inx_acc = /var/lib/geneweb/test.gwb/names.acc
- size of fname_inx_acc = 131064
- Iovalue.sizeof_long * (table_size + i) = 131864
Obviously, Iovalue.sizeof_long is too big. Dividing it by two makes the
original query work (it seems). But I cannot give any guarantee that it
doesn't break something else.
Has the upstream author been contacted about this issue?
Cheers,
--
Stéphane
--
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Bug#557553: geneweb: Search and navigaition fails
Quoting Stéphane Glondu (glo...@debian.org):
Stéphane Glondu a écrit :
I was able to reproduce the bug on an amd64 box. Here is a backtrace:
Wserver: uncaught exception: End_of_file
Raised by primitive operation at file , line 0, characters 0-0
Called from file some.ml, line 664, characters 14-44
Called from file some.ml, line 688, characters 7-46
Called from file request.ml, line 734, characters 17-35
Called from file request.ml, line 754, characters 12-39
Re-raised at file request.ml, line 755, characters 38-41
Called from file gwd.ml, line 1467, characters 23-116
Called from file gwd.ml, line 1635, characters 12-95
Called from file wserver.ml, line 338, characters 6-51
More precisely, in database.ml, around line 441:
if Sys.file_exists fname_inx_acc then
let ic_inx_acc = Secure.open_in_bin fname_inx_acc in
do {
seek_in ic_inx_acc (Iovalue.sizeof_long * (table_size + i));
let pos = input_binary_int ic_inx_acc in
close_in ic_inx_acc;
seek_in ic_inx pos;
(Iovalue.input ic_inx : array dsk_istr)
}
else (* compatibility *)
where:
- fname_inx_acc = /var/lib/geneweb/test.gwb/names.acc
- size of fname_inx_acc = 131064
- Iovalue.sizeof_long * (table_size + i) = 131864
Obviously, Iovalue.sizeof_long is too big. Dividing it by two makes the
original query work (it seems). But I cannot give any guarantee that it
doesn't break something else.
Has the upstream author been contacted about this issue?
Not until now (we hadn't enough information, imho).
As you guys did a lot of good investigation, I think it is now OK to
get in touch with Daniel about this bug.
Daniel, the whole story is at:
http://bugs.debian.org/557553
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Bug#557553: geneweb: Search and navigaition fails
Hi, Obviously, Iovalue.sizeof_long is too big. Dividing it by two makes the original query work (it seems). But I cannot give any guarantee that it doesn't break something else. Which version (ident src/iovalue.ml)? I indeed found bugs for 64 bits architectures. In src/iovalue.ml, sizeof_long is now defined as (line 14 of that file): value sizeof_long = Sys.word_size / 8; -- Daniel de Rauglaudre http://pauillac.inria.fr/~ddr/ -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Daniel de Rauglaudre a écrit : Which version (ident src/iovalue.ml)? I indeed found bugs for 64 bits architectures. In src/iovalue.ml, sizeof_long is now defined as (line 14 of that file): value sizeof_long = Sys.word_size / 8; (* $Id: iovalue.ml,v 5.9 2009-03-10 21:10:29 ddr Exp $ *) [...] value sizeof_long = Sys.word_size / 8; Cheers, -- Stéphane -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
On Mon, Apr 05, 2010 at 07:57:02PM +0200, Christian PERRIER wrote: I bet that I'll need to do another CVS snapshot..:-) For iovalue.ml, latest version is indeed 5.9, therefore ok. Perhaps another error indeed. -- Daniel de Rauglaudre http://pauillac.inria.fr/~ddr/ -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Quoting Daniel de Rauglaudre (daniel.de_rauglau...@inria.fr): Hi, Obviously, Iovalue.sizeof_long is too big. Dividing it by two makes the original query work (it seems). But I cannot give any guarantee that it doesn't break something else. Which version (ident src/iovalue.ml)? I indeed found bugs for 64 bits architectures. In src/iovalue.ml, sizeof_long is now defined as (line 14 of that file): value sizeof_long = Sys.word_size / 8; The overall version is a CVS snapshot as of Oct. 31 2009. iovalue.ml is: (* $Id: iovalue.ml,v 5.9 2009-03-10 21:10:29 ddr Exp $ *) I bet that I'll need to do another CVS snapshot..:-) signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
On Samstag 03 April 2010, Sylvain Le Gall wrote: If you are able to create a simple script that set everything up and generates the bug, I can try to see if I can get the backtrace and be more precise than a simple End_of_file error. the original bug submitter posted a simple way how to reproduce the bug: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=557553#15 could you please try that on a 64bit distribution? -- Wolfgang -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
[Ce message a aussi été publié sur gmane.linux.debian.devel.ocaml.] On 02-04-2010, Christian PERRIER bubu...@debian.org wrote: --GYaKytDE8aa4+VVK Content-Type: text/plain; charset=us-ascii Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Quoting Wolfgang Rohdewald (wolfg...@rohdewald.de): I now have the same bug after migrating from ubuntu 9.10 32bit to ubuntu 10.4 64bit. =20 Did anybody already find a solution for this? As of now, no. As already mentioned in the bug history, I need help =66rom Ocaml gurus for this. You must start by getting a backtrace for this. However, this can be quite hard to get. If you are able to create a simple script that set everything up and generates the bug, I can try to see if I can get the backtrace and be more precise than a simple End_of_file error. Regards Sylvain Le Gall -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Quoting Sylvain Le Gall (gil...@debian.org): If you are able to create a simple script that set everything up and generates the bug, I can try to see if I can get the backtrace and be more precise than a simple End_of_file error. *I* can't get the backtrace as all my machines having geneweb are using i386. Maybe the original bug submitter of Wolfgang who just followed up to this bug may help in getting this? signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
I now have the same bug after migrating from ubuntu 9.10 32bit to ubuntu 10.4 64bit. Did anybody already find a solution for this? -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Quoting Wolfgang Rohdewald (wolfg...@rohdewald.de): I now have the same bug after migrating from ubuntu 9.10 32bit to ubuntu 10.4 64bit. Did anybody already find a solution for this? As of now, no. As already mentioned in the bug history, I need help from Ocaml gurus for this. signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
Christian Perrier wrote: Quoting Pär-Ola Nilsson (p...@home.se): I then add a family consisting of father john doe and mother jane do which succed. I then go to the front page and try to navigate - by the list of all surnames by alphabetic order I then select either long or short display end then click on doe and then I get the failure: 2009-11-23 19:35:14 (26034) test?m=N;v=doe;t=A From: localhost Agent: Mozilla/5.0 (X11; U; Linux x86_64; en-US) AppleWebKit/532.5 (KHTML, like Gecko) Chrome/4.0.245.1 Safari/532.5 Referer: http://localhost:2317/test?m=N;tri=S;o=A;k= #accesses 59 (#welcome 7) since 23/11/2009 Wserver: uncaught exception: End_of_file Hmm, I just did the exact same sequence after adding your test database to my local tree and.got no error. Could you send the output of ls -lR /var/lib/geneweb? Are you using unstable or testing? It's a mishmash but mostly unstable, some testing and some select experimental. Tried the same thing on a i386 box mostly testing with some unstable and that works. Tried the same on another amd64 box mostly unstable and some testing, failes Another i386 box at work mostly unstable and some testing, works Seems its amd64 boxes that fail. Attached ls-lR Regards Pär-Ola /var/lib/geneweb: total 4 drwxrws--- 2 root geneweb 50 23 nov 13.15 cnt drwxrws--- 2 root geneweb6 8 nov 19.09 etc drwxrws--- 2 root geneweb6 8 nov 19.09 images drwxrwsr-x 2 peje geneweb 4096 23 nov 19.28 test.gwb -rw-rw-rw- 1 peje geneweb0 23 nov 19.26 test.lck /var/lib/geneweb/cnt: total 4 -rw-rw-rw- 1 geneweb geneweb 0 23 nov 13.14 gwd.lck -rw-rw-rw- 1 geneweb geneweb 0 23 nov 13.15 test.lck -rw-rw 1 geneweb geneweb 23 23 nov 19.38 test.txt /var/lib/geneweb/etc: total 0 /var/lib/geneweb/images: total 0 /var/lib/geneweb/test.gwb: total 196 -rw-rw-r-- 1 pejegeneweb219 23 nov 19.26 base -rw-rw-r-- 1 pejegeneweb 8 23 nov 19.26 base.acc -rw-rw-r-- 1 pejegeneweb 12 23 nov 19.26 command.txt -rw-rw-r-- 1 pejegeneweb 0 23 nov 19.26 fnames.dat -rw-rw-r-- 1 pejegeneweb 21 23 nov 19.26 fnames.inx -rw-rw-r-- 1 pejegeneweb 131064 23 nov 19.26 names.acc -rw-rw-r-- 1 pejegeneweb 32820 23 nov 19.26 names.inx -rw-rw-r-- 1 pejegeneweb118 23 nov 19.26 particles.txt -rw-rw 1 geneweb geneweb241 23 nov 19.28 patches -rw-rw-r-- 1 pejegeneweb 0 23 nov 19.26 snames.dat -rw-rw-r-- 1 pejegeneweb 21 23 nov 19.26 snames.inx -rw-rw-r-- 1 pejegeneweb154 23 nov 19.26 strings.inx
Bug#557553: geneweb: Search and navigaition fails
tags 557553 help thanks Quoting Pär-Ola Nilsson (p...@home.se): Hmm, I just did the exact same sequence after adding your test database to my local tree and.got no error. Could you send the output of ls -lR /var/lib/geneweb? Are you using unstable or testing? It's a mishmash but mostly unstable, some testing and some select experimental. Tried the same thing on a i386 box mostly testing with some unstable and that works. Tried the same on another amd64 box mostly unstable and some testing, failes Another i386 box at work mostly unstable and some testing, works Seems its amd64 boxes that fail. Oh, nice catch. So, we apparently have something that fails on amd64 but not i386. I might need some help by the Ocaml team to track this down. It is more and more likely that this goes far beyond my own skills. Ocaml folks, would you mind looking at this bug report that apparently shows up only on amd64, for geneweb? signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
Quoting Pär-Ola Nilsson (p...@home.se): I then add a family consisting of father john doe and mother jane do which succed. I then go to the front page and try to navigate - by the list of all surnames by alphabetic order I then select either long or short display end then click on doe and then I get the failure: 2009-11-23 19:35:14 (26034) test?m=N;v=doe;t=A From: localhost Agent: Mozilla/5.0 (X11; U; Linux x86_64; en-US) AppleWebKit/532.5 (KHTML, like Gecko) Chrome/4.0.245.1 Safari/532.5 Referer: http://localhost:2317/test?m=N;tri=S;o=A;k= #accesses 59 (#welcome 7) since 23/11/2009 Wserver: uncaught exception: End_of_file Hmm, I just did the exact same sequence after adding your test database to my local tree and.got no error. Could you send the output of ls -lR /var/lib/geneweb? Are you using unstable or testing? signature.asc Description: Digital signature
Bug#557553: geneweb: Search and navigaition fails
Package: geneweb Version: 5.02~cvs20091031-2 Severity: normal If I search for a person I get a blank page and the following in /etc/log/geneweb.log: 2009-11-22 20:30:26 (29174) anton?m=NGn=Nilssont=N From: localhost Agent: Mozilla/5.0 (X11; U; Linux x86_64; en-US; rv:1.9.1.5) Gecko/20091112 Iceweasel/3.5.5 (like Firefox/3.5.5; Debian-3.5.5-1) Referer: http://localhost:2317/anton #accesses 1,299 (#welcome 44) since 28/10/2008 Wserver: uncaught exception: End_of_file Other ways to navigate to a person get the same results. Downgrading to 5.01-8 bring back functionality. -- System Information: Debian Release: squeeze/sid APT prefers unstable APT policy: (900, 'unstable'), (800, 'testing'), (60, 'stable'), (49, 'experimental') Architecture: amd64 (x86_64) Kernel: Linux 2.6.31-1-amd64 (SMP w/2 CPU cores) Locale: LANG=sv_SE.UTF-8, LC_CTYPE=sv_SE.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/bash Versions of packages geneweb depends on: ii adduser 3.111 add and remove users and groups ii debconf [debconf-2.0] 1.5.28 Debian configuration management sy ii iso-codes 3.11.1-1 ISO language, territory, currency, ii isoquery 0.18-1 Search and display various ISO cod ii libc6 2.10.1-7 GNU C Library: Shared libraries ii lsb-base 3.2-23 Linux Standard Base 3.2 init scrip ii perl-base [perl5-base]5.10.1-7 minimal Perl system geneweb recommends no packages. Versions of packages geneweb suggests: ii gwsetup 5.02~cvs20091031-2 utilities to configure and manipul ii gwtp 5.02~cvs20091031-2 web interface interacting with Gen ii iceweasel [www-brows 3.5.5-1 lightweight web browser based on M ii konqueror [www-brows 4:4.3.2-1 KDE 4's advanced file manager, web ii lynx 2.8.8dev.1-1Text-mode WWW Browser (transitiona ii lynx-cur [www-browse 2.8.8dev.1-1Text-mode WWW Browser with NLS sup ii menu 2.1.42 generates programs menu for all me ii opera [www-browser] 10.01.4682.gcc4.qt3 The Opera Web Browser ii w3m [www-browser]0.5.2-2.1 WWW browsable pager with excellent -- debconf information: geneweb/run_mode: Manual geneweb/remainingdir: geneweb/remove_databases: false geneweb/port: 2316 geneweb/lang: English -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org
Bug#557553: geneweb: Search and navigaition fails
Quoting Par-Ola Nilsson (p...@home.se): Package: geneweb Version: 5.02~cvs20091031-2 Severity: normal If I search for a person I get a blank page and the following in /etc/log/geneweb.log: 2009-11-22 20:30:26 (29174) anton?m=NGn=Nilssont=N From: localhost Agent: Mozilla/5.0 (X11; U; Linux x86_64; en-US; rv:1.9.1.5) Gecko/20091112 Iceweasel/3.5.5 (like Firefox/3.5.5; Debian-3.5.5-1) Referer: http://localhost:2317/anton #accesses 1,299 (#welcome 44) since 28/10/2008 Wserver: uncaught exception: End_of_file Other ways to navigate to a person get the same results. Downgrading to 5.01-8 bring back functionality. I haven't been able to reproduce this with my own database. Can you try the same action on another database? In order to be able to reproduce this, would you mind sending the tarball of your database to this bug report (I understand there may be confidentiality issues)? signature.asc Description: Digital signature
