Debian Bug report logs - #845429
grass: v.net.iso - Segmentation fault

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Message #5 received at submit@bugs.debian.org (full text, mbox, reply):

From: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

To: submit@bugs.debian.org

Subject: grass: v.net.iso - Segmentation fault

Date: Wed, 23 Nov 2016 11:33:25 +0100

Package: grass
Version: 7.0.5-2
Severity: normal
Tags: newcomer

Dear Maintainer,

It happened to me that the use of v.net.iso command results in a
segmentation fault. I could replicate the error in two different
machines, with my own data and with both examples shown in the online
manual ( https://grass.osgeo.org/grass70/manuals/v.net.iso.html )
using the Spearfish dataset for GRASS 7.

After consultation in the GRASS-user list, it seems that this is
specific of the pre-compiled package (installed via apt-get), as the
error does not appear when GRASS 7.0 is compiled from source in the
same machine.

Greetings,

Eduardo Corbelle

-- System Information:
Debian Release: stretch/sid
  APT prefers testing
  APT policy: (500, 'testing')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 4.8.0-1-amd64 (SMP w/1 CPU core)
Locale: LANG=gl_ES.UTF-8, LC_CTYPE=gl_ES.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)

Versions of packages grass depends on:
ii  grass-core  7.0.5-2+b1
ii  grass-gui   7.0.5-2+b1

Versions of packages grass recommends:
ii  grass-doc  7.0.5-2

Versions of packages grass suggests:
pn  grass-dev  <none>

-- no debconf information

Message #10 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Bas Couwenberg <sebastic@xs4all.nl>

To: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>, 845429@bugs.debian.org

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Wed, 23 Nov 2016 11:44:34 +0100

Control: tags -1 moreinfo


On 2016-11-23 11:33, Eduardo Corbelle Rico wrote:
> It happened to me that the use of v.net.iso command results in a
> segmentation fault. I could replicate the error in two different
> machines, with my own data and with both examples shown in the online
> manual ( https://grass.osgeo.org/grass70/manuals/v.net.iso.html )
> using the Spearfish dataset for GRASS 7.

Please provide the steps to reproduce the issue.

Kind Regards,

Bas

Message #17 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

To: Bas Couwenberg <sebastic@xs4all.nl>, 845429@bugs.debian.org

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Wed, 23 Nov 2016 19:09:14 +0100

O Mér, 23-11-2016 ás 11:44 +0100, Bas Couwenberg escribiu:
> Control: tags -1 moreinfo
> 
> 
> On 2016-11-23 11:33, Eduardo Corbelle Rico wrote:
> > It happened to me that the use of v.net.iso command results in a
> > segmentation fault. I could replicate the error in two different
> > machines, with my own data and with both examples shown in the
> > online
> > manual ( https://grass.osgeo.org/grass70/manuals/v.net.iso.html )
> > using the Spearfish dataset for GRASS 7.
> 
> Please provide the steps to reproduce the issue.
> 
> Kind Regards,
> 
> Bas



O Mér, 23-11-2016 ás 11:44 +0100, Bas Couwenberg escribiu:
> Control: tags -1 moreinfo
> 
> 
> On 2016-11-23 11:33, Eduardo Corbelle Rico wrote:
> > It happened to me that the use of v.net.iso command results in a
> > segmentation fault. I could replicate the error in two different
> > machines, with my own data and with both examples shown in the
> > online
> > manual ( https://grass.osgeo.org/grass70/manuals/v.net.iso.html )
> > using the Spearfish dataset for GRASS 7.
> 
> Please provide the steps to reproduce the issue.
> 
> Kind Regards,
> 
> Bas

I copied below the commands and the output. The error is in the final
step.

Greetings,

Eduardo

__________________

GRASS 7.0.5 (spearfish60_grass7):~ > # Spearfish
GRASS 7.0.5 (spearfish60_grass7):~ > 
GRASS 7.0.5 (spearfish60_grass7):~ > # start node:
GRASS 7.0.5 (spearfish60_grass7):~ > echo "591280.5|4926396.0|1" |
v.in.ascii in=- out=startnode
Scanning input for column types...
Number of columns: 3
Number of rows: 1
Importing points...
 100%
Populating table...
Building topology for vector map <startnode@vnetiso>...
Registering primitives...
One primitive registered
One vertex registered
Building areas...
 100%
0 areas built
0 isles built
Attaching islands...
Attaching centroids...
 100%
Number of nodes: 0
Number of primitives: 1
Number of points: 1
Number of lines: 0
Number of boundaries: 0
Number of centroids: 0
Number of areas: 0
Number of isles: 0
GRASS 7.0.5 (spearfish60_grass7):~ > g.copy vect=roads,myroads
Copy vector <roads@PERMANENT> to current mapset as <myroads>
GRASS 7.0.5 (spearfish60_grass7):~ > 
GRASS 7.0.5 (spearfish60_grass7):~ > # connect point to network
GRASS 7.0.5 (spearfish60_grass7):~ > v.net myroads points=startnode
out=myroads_net op=connect thresh=200
Copying features...
 100%
Building topology for vector map <myroads_net@vnetiso>...
Registering primitives...
825 primitives registered
5468 vertices registered
Number of nodes: 676
Number of primitives: 825
Number of points: 0
Number of lines: 825
Number of boundaries: 0
Number of centroids: 0
Number of areas: -
Number of isles: -
Copying attributes...
Building topology for vector map <myroads_net@vnetiso>...
Registering primitives...
828 primitives registered
5473 vertices registered
Building areas...
 100%
0 areas built
0 isles built
Attaching islands...
Attaching centroids...
 100%
Number of nodes: 678
Number of primitives: 828
Number of points: 1
Number of lines: 827
Number of boundaries: 0
Number of centroids: 0
Number of areas: 0
Number of isles: 0
v.net complete. 2 lines (network arcs) written to output.
GRASS 7.0.5 (spearfish60_grass7):~ > 
GRASS 7.0.5 (spearfish60_grass7):~ > # define iso networks using
distance:
GRASS 7.0.5 (spearfish60_grass7):~ > v.net.iso input=myroads_net
output=myroads_net_iso center_cats=1-100000 costs=1000,2000,5000
Building graph...
Registering arcs...
Fallo de segmento

Message #22 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Sebastiaan Couwenberg <sebastic@xs4all.nl>

To: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>, 845429@bugs.debian.org

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Wed, 23 Nov 2016 19:18:49 +0100

Thanks for the steps to reproduce, that doesn't get us closer to fixing it.

Which version of grass did you build yourself? The 7.0.5 tarball, SVN or
something else? Can send the build log?

Without those I cannot determine the differences between your build and
that of the Debian package assuming you're using the same version. If
you built from SVN the issue was probably fixed in the mean time but not
released yet.

Kind Regards,

Bas

-- 
 GPG Key ID: 4096R/6750F10AE88D4AF1
Fingerprint: 8182 DE41 7056 408D 6146  50D1 6750 F10A E88D 4AF1

Message #27 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

To: Sebastiaan Couwenberg <sebastic@xs4all.nl>

Cc: 845429 <845429@bugs.debian.org>

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Fri, 25 Nov 2016 10:32:19 +0100

[Message part 1 (text/plain, inline)]

Dear Bas,

You are right... I did not realize the missing information. Sorry!

The version I built was the 7.0.5 tarball. Attached to this mail I
included the output of the make command. Is that the build log you
referred to? Please let me know if I can improve my answer.

Best,

Eduardo


O Mér, 23-11-2016 ás 19:18 +0100, Sebastiaan Couwenberg escribiu:
> Thanks for the steps to reproduce, that doesn't get us closer to
> fixing it.
> 
> Which version of grass did you build yourself? The 7.0.5 tarball, SVN
> or
> something else? Can send the build log?
> 
> Without those I cannot determine the differences between your build
> and
> that of the Debian package assuming you're using the same version. If
> you built from SVN the issue was probably fixed in the mean time but
> not
> released yet.
> 
> Kind Regards,
> 
> Bas
> 

[make.txt (text/plain, attachment)]

Message #32 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Sebastiaan Couwenberg <sebastic@xs4all.nl>

To: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

Cc: 845429 <845429@bugs.debian.org>

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Fri, 25 Nov 2016 10:52:20 +0100

On 11/25/2016 10:32 AM, Eduardo Corbelle Rico wrote:
> You are right... I did not realize the missing information. Sorry!

Thanks for the additional information.

> The version I built was the 7.0.5 tarball. Attached to this mail I
> included the output of the make command. Is that the build log you
> referred to? Please let me know if I can improve my answer.

Yes, but your build log is missing the configure and build steps. Your
build probably doesn't use the same configure options as the Debian
package which will help to determine the differences to pinpoint the
cause of the segfault.

If you can send the full build log including the configure and build
steps, that would be helpful.

Kind Regards,

Bas

-- 
 GPG Key ID: 4096R/6750F10AE88D4AF1
Fingerprint: 8182 DE41 7056 408D 6146  50D1 6750 F10A E88D 4AF1

Message #39 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

To: Sebastiaan Couwenberg <sebastic@xs4all.nl>

Cc: 845429 <845429@bugs.debian.org>

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Wed, 30 Nov 2016 12:28:30 +0100

[Message part 1 (text/plain, inline)]

Dear Bas,

In the txt file attached to this mail you will find the configure
options I used along with the output of the make command. Please let me
know if I could still add some more useful information.

Best regards,

Eduardo


O Ven, 25-11-2016 ás 10:52 +0100, Sebastiaan Couwenberg escribiu:
> On 11/25/2016 10:32 AM, Eduardo Corbelle Rico wrote:
> > You are right... I did not realize the missing information. Sorry!
> 
> Thanks for the additional information.
> 
> > The version I built was the 7.0.5 tarball. Attached to this mail I
> > included the output of the make command. Is that the build log you
> > referred to? Please let me know if I can improve my answer.
> 
> Yes, but your build log is missing the configure and build steps.
> Your
> build probably doesn't use the same configure options as the Debian
> package which will help to determine the differences to pinpoint the
> cause of the segfault.
> 
> If you can send the full build log including the configure and build
> steps, that would be helpful.
> 
> Kind Regards,
> 
> Bas
> 

[make.txt (text/plain, attachment)]

Message #44 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Sebastiaan Couwenberg <sebastic@xs4all.nl>

To: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

Cc: 845429 <845429@bugs.debian.org>

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Wed, 30 Nov 2016 18:46:20 +0100

Control: tags -1 + fixed-upstream
Control: tags -1 - moreinfo

Hi Eduardo,

On 11/30/2016 12:28 PM, Eduardo Corbelle Rico wrote:
> In the txt file attached to this mail you will find the configure
> options I used along with the output of the make command. Please let me
> know if I could still add some more useful information.

Thanks for the log. In the mean I've forwarded this issue upstream,
where it could be reproduced too. The fix should be included in the
upcoming 7.2.0 release.

 https://trac.osgeo.org/grass/ticket/3213#comment:3

Kind Regards,

Bas

-- 
 GPG Key ID: 4096R/6750F10AE88D4AF1
Fingerprint: 8182 DE41 7056 408D 6146  50D1 6750 F10A E88D 4AF1

Message #53 received at 845429-close@bugs.debian.org (full text, mbox, reply):

From: Bas Couwenberg <sebastic@debian.org>

To: 845429-close@bugs.debian.org

Subject: Bug#845429: fixed in grass 7.0.5-3

Date: Thu, 01 Dec 2016 19:49:12 +0000

Source: grass
Source-Version: 7.0.5-3

We believe that the bug you reported is fixed in the latest version of
grass, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 845429@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Bas Couwenberg <sebastic@debian.org> (supplier of updated grass package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmaster@ftp-master.debian.org)


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Hash: SHA512

Format: 1.8
Date: Thu, 01 Dec 2016 20:05:05 +0100
Source: grass
Binary: grass grass-core grass-gui grass-doc grass-dev-doc grass-dev
Architecture: source amd64 all
Version: 7.0.5-3
Distribution: unstable
Urgency: medium
Maintainer: Debian GIS Project <pkg-grass-devel@lists.alioth.debian.org>
Changed-By: Bas Couwenberg <sebastic@debian.org>
Description:
 grass      - Geographic Resources Analysis Support System (GRASS GIS)
 grass-core - GRASS GIS core components
 grass-dev  - GRASS GIS development files
 grass-dev-doc - GRASS GIS Programmers' Manual
 grass-doc  - GRASS GIS user documentation
 grass-gui  - GRASS GIS graphical user interfaces
Closes: 845429
Changes:
 grass (7.0.5-3) unstable; urgency=medium
 .
   * Add patch to fix v.net.iso segmentation fault.
     (closes: #845429)
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Message #58 received at 845429@bugs.debian.org (full text, mbox, reply):

From: Sebastiaan Couwenberg <sebastic@xs4all.nl>

To: Eduardo Corbelle Rico <eduardo.corbelle@gmx.net>

Cc: 845429@bugs.debian.org

Subject: Re: Bug#845429: grass: v.net.iso - Segmentation fault

Date: Thu, 1 Dec 2016 21:37:40 +0100

Control: tags -1 pending

On 11/30/2016 06:46 PM, Sebastiaan Couwenberg wrote:
> On 11/30/2016 12:28 PM, Eduardo Corbelle Rico wrote:
>> In the txt file attached to this mail you will find the configure
>> options I used along with the output of the make command. Please let me
>> know if I could still add some more useful information.
> 
> Thanks for the log. In the mean I've forwarded this issue upstream,
> where it could be reproduced too. The fix should be included in the
> upcoming 7.2.0 release.
> 
>  https://trac.osgeo.org/grass/ticket/3213#comment:3

Since the new GRASS release will taken longer than I'd like, I've
included the changes from upstream as a patch in the 7.0.5 package to
fix this issue in the mean time.

Kind Regards,

Bas

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