Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Santiago Vila]

severity 854341 important
thanks

On Tue, Feb 21, 2017 at 06:25:05PM +0100, Andreas Tille wrote:

> I'm tempted to set the severity to this bug to normal/minor.  Could you
> please try again whether we can even close it?

I'm making this bug not RC in the meantime.

My current theory is that this is an artifact of the setup used by
Chris to build packages.

In my own setup, I use sbuild + eatmydata + overlayfs.

I can build most packages with such setup, but sometimes I get some
strange build failures which disappear when I stop using eatmydata or
overlayfs. An example:

https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=842786

So I always have to disable those addons and try again after a build
failure to be sure that the build failure is real.

I believe that this build failure could be similar, because AFAIK
docker uses overlayfs internally.

But of course, I could be wrong.

Thanks.

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Andreas Tille]

Hi Chris,s

I'm tempted to set the severity to this bug to normal/minor.  Could you
please try again whether we can even close it?

Kind regards

   Andreas.

On Thu, Feb 16, 2017 at 01:55:53AM +0100, Santiago Vila wrote:
> Hi.
> 
> It builds ok for me on eight different autobuilders,
> using sbuild on a sid chroot.
> 
> Chris, I would try with sbuild and without docker.
> 
> Thanks.
> 
> 

-- 
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Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Santiago Vila]

Hi.

It builds ok for me on eight different autobuilders,
using sbuild on a sid chroot.

Chris, I would try with sbuild and without docker.

Thanks.

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Chris Lamb]

Andreas Tille wrote:

> tags 854341 unreproducible
> thanks
> 
> I can confirm that it now also builds for me again.  I'm tempted to
> close this bug again which seems to have been a temporary issue of some
> Build-Dependency.

Still doesn't build for me, alas. Same error.


Regards,

-- 
  ,''`.
 : :'  : Chris Lamb
 `. `'`  la...@debian.org / chris-lamb.co.uk
   `-

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Andreas Tille]

tags 854341 unreproducible
thanks

I can confirm that it now also builds for me again.  I'm tempted to
close this bug again which seems to have been a temporary issue of some
Build-Dependency.

Chris, what do you think?

Kind regards

 Andreas.

On Tue, Feb 14, 2017 at 08:47:32PM +0100, gregor herrmann wrote:
> On Tue, 14 Feb 2017 09:46:23 +, olivier sallou wrote:
> 
> > > I admit I have no idea how to fix this.  Help from people with
> > > Perl background would be really appreciated.
> > I just made a build attempt (1-31-3) with pbuilder, updated right before
> > build, based on latest svn source and it built fine
> > Onyl difference is make -j4 for you and make -j1 for me (automatic update
> > by debhelper?)
> 
> Builds for me as well (both from svn and from the archive, both with
> -j1 and -j4). cowbuilder sid amd64.
> 
> (BZW: svn seems to miss the tag for 1.31-3. Or my svn foo has
> deteriorated too much.)
>  
> Cheers,
> gregor



-- 
http://fam-tille.de

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[gregor herrmann]

On Tue, 14 Feb 2017 09:46:23 +, olivier sallou wrote:

> > I admit I have no idea how to fix this.  Help from people with
> > Perl background would be really appreciated.
> I just made a build attempt (1-31-3) with pbuilder, updated right before
> build, based on latest svn source and it built fine
> Onyl difference is make -j4 for you and make -j1 for me (automatic update
> by debhelper?)

Builds for me as well (both from svn and from the archive, both with
-j1 and -j4). cowbuilder sid amd64.

(BZW: svn seems to miss the tag for 1.31-3. Or my svn foo has
deteriorated too much.)
 
Cheers,
gregor

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Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[olivier sallou]

Le mar. 14 févr. 2017 à 08:36, Andreas Tille  a écrit :

> tags 854341 help
> thanks
>
> Hi,
>
> I admit I have no idea how to fix this.  Help from people with
> Perl background would be really appreciated.
>

I just made a build attempt (1-31-3) with pbuilder, updated right before
build, based on latest svn source and it built fine
Onyl difference is make -j4 for you and make -j1 for me (automatic update
by debhelper?)

Olivier

>
> On Mon, Feb 06, 2017 at 03:40:09PM +0100, Andreas Tille wrote:
> > ...
> >
> > I'm running later into
> >
> > ...
> >dh_auto_install -O--buildsystem=perl_makemaker
> > make -j4 install DESTDIR=/build/libchado-perl-1.31/debian/tmp
> AM_UPDATE_INFO_DIR=no PREFIX=/usr
> > make[1]: Entering directory '/build/libchado-perl-1.31'
> > "/usr/bin/perl" "/build/libchado-perl-1.31/install_util/conf_install.pl"
> 'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado'
> 'VERSION=1.31'
> > "/usr/bin/perl" "/build/libchado-perl-1.31/install_util/src_install.pl"
> 'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado'
> > couldn't open
> /build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf
> directory for reading:No such file or directory
> > Makefile:1222: recipe for target 'src_install' failed
> >
> >
> > which is pretty strange since
> >
> > # ls -l
> /build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf
> > total 8
> > -rw-r--r-- 1 pbuilder pbuilder 221 Feb  6 11:06 gmod-chado.conf
> > -rw-r--r-- 1 pbuilder pbuilder 167 Feb  6 11:06 gmod.conf
> >
> >
> >
> > > Glancing quickly at Makefile.PL and debian/rules it looks like the
> > > variable names have changed (eg. was DBUSER, etc.).
> >
> > The variable names have not changed in any recent upload and as you can
> > see DBUSER etc are used.
> >
> > Does anybody else have some idea?
>
> Kind regards
>
>Andreas.
>
> --
> http://fam-tille.de
>

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Andreas Tille]

tags 854341 help
thanks

Hi,

I admit I have no idea how to fix this.  Help from people with
Perl background would be really appreciated.

On Mon, Feb 06, 2017 at 03:40:09PM +0100, Andreas Tille wrote:
> ...
> 
> I'm running later into
> 
> ...
>dh_auto_install -O--buildsystem=perl_makemaker
> make -j4 install DESTDIR=/build/libchado-perl-1.31/debian/tmp 
> AM_UPDATE_INFO_DIR=no PREFIX=/usr
> make[1]: Entering directory '/build/libchado-perl-1.31'
> "/usr/bin/perl" "/build/libchado-perl-1.31/install_util/conf_install.pl" 
> 'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado'
>  'VERSION=1.31'
> "/usr/bin/perl" "/build/libchado-perl-1.31/install_util/src_install.pl" 
> 'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado'
> couldn't open 
> /build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf 
> directory for reading:No such file or directory
> Makefile:1222: recipe for target 'src_install' failed
> 
> 
> which is pretty strange since
> 
> # ls -l 
> /build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf
> total 8
> -rw-r--r-- 1 pbuilder pbuilder 221 Feb  6 11:06 gmod-chado.conf
> -rw-r--r-- 1 pbuilder pbuilder 167 Feb  6 11:06 gmod.conf
> 
> 
> 
> > Glancing quickly at Makefile.PL and debian/rules it looks like the
> > variable names have changed (eg. was DBUSER, etc.).
> 
> The variable names have not changed in any recent upload and as you can
> see DBUSER etc are used.
> 
> Does anybody else have some idea?

Kind regards

   Andreas. 

-- 
http://fam-tille.de

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Andreas Tille]

Hi Chris,

On Mon, Feb 06, 2017 at 10:31:18PM +1300, Chris Lamb wrote:
> > I tried to build the package in an unstable chroot but can not
> > reproduce the issue described below.
> 
> How up-to-date? :) My chroot is completely and I can still reproduce.

You catched me - after recreating my chroot I also get a FTBFS - however
different from yours.  While the step you reported looks pretty normal:

...
make[1]: Entering directory '/build/libchado-perl-1.31'
perl Makefile.PL INSTALL_BASE=/usr  DBNAME=gmod-chado DBUSER=chado DBPASS=chado 
DBHOST=localhost DBPORT=5432 
GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado 
DBDRIVER=PostgreSQL RECONFIGURE=1 SIMPLE=Y 
LOCAL_TMP=/build/libchado-perl-1.31/debian/libchado-perl/tmp

Building with the following database options:
  GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado
  DBDRIVER=PostgreSQL
  DBNAME=gmod-chado
  DBUSER=chado
  DBPASS=chado
  DBHOST=localhost
  DBPORT=5432
  SCHEMA=
  LOCAL_TMP=/build/libchado-perl-1.31/debian/libchado-perl/tmp
  DBORGANISM=
  DEFAULT=
  VERSION=1.31

Extracting /build/libchado-perl-1.31/bin/../lib/Bio/Chado/AutoDBI.pm (with 
variable substitutions)
initializing load scripts...
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'Chado' version '1.31'
Building Chado
Checking if your kit is complete...
Looks good
Warning: prerequisite Bio::Chado::Schema 0 not found.
Generating a Unix-style Makefile
Writing Makefile for chado
Writing MYMETA.yml and MYMETA.json
...


I'm running later into

...
   dh_auto_install -O--buildsystem=perl_makemaker
make -j4 install DESTDIR=/build/libchado-perl-1.31/debian/tmp 
AM_UPDATE_INFO_DIR=no PREFIX=/usr
make[1]: Entering directory '/build/libchado-perl-1.31'
"/usr/bin/perl" "/build/libchado-perl-1.31/install_util/conf_install.pl" 
'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado' 
'VERSION=1.31'
"/usr/bin/perl" "/build/libchado-perl-1.31/install_util/src_install.pl" 
'GMOD_ROOT=/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado'
couldn't open 
/build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf 
directory for reading:No such file or directory
Makefile:1222: recipe for target 'src_install' failed


which is pretty strange since

# ls -l /build/libchado-perl-1.31/debian/libchado-perl/usr/share/gmod/chado/conf
total 8
-rw-r--r-- 1 pbuilder pbuilder 221 Feb  6 11:06 gmod-chado.conf
-rw-r--r-- 1 pbuilder pbuilder 167 Feb  6 11:06 gmod.conf



> Glancing quickly at Makefile.PL and debian/rules it looks like the
> variable names have changed (eg. was DBUSER, etc.).

The variable names have not changed in any recent upload and as you can
see DBUSER etc are used.

Does anybody else have some idea?

Kind regards

   Andreas.

-- 
http://fam-tille.de

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Chris Lamb]

Andreas Tille wrote:

> I tried to build the package in an unstable chroot but can not
> reproduce the issue described below.

How up-to-date? :) My chroot is completely and I can still reproduce.

Glancing quickly at Makefile.PL and debian/rules it looks like the
variable names have changed (eg. was DBUSER, etc.).


Regards,

-- 
  ,''`.
 : :'  : Chris Lamb
 `. `'`  la...@debian.org / chris-lamb.co.uk
   `-

Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Andreas Tille]

tag -1 moreinfo, unreproducible
thanks

Hi,

I tried to build the package in an unstable chroot but can not
reproduce the issue described below.

Kind regards

  Andreas.

On Mon, Feb 06, 2017 at 09:26:27PM +1300, Chris Lamb wrote:
> Source: libchado-perl
> Version: 1.31-3
> Severity: serious
> Justification: fails to build from source
> User: reproducible-bui...@lists.alioth.debian.org
> Usertags: ftbfs
> X-Debbugs-Cc: reproducible-b...@lists.alioth.debian.org
> 
> Dear Maintainer,
> 
> libchado-perl fails to build from source in unstable/amd64:
> 
>   […]
> 
>  debian/rules override_dh_auto_configure
>   make[1]: Entering directory '«BUILDDIR»'
>   perl Makefile.PL INSTALL_BASE=/usr  DBNAME=gmod-chado DBUSER=chado 
> DBPASS=chado DBHOST=localhost DBPORT=5432 
> GMOD_ROOT=«BUILDDIR»/debian/libchado-perl/usr/share/gmod/chado 
> DBDRIVER=PostgreSQL RECONFIGURE=1 SIMPLE=Y 
> LOCAL_TMP=/home/lamby/temp/cdt.20170206205949.aBowZ3MRr8.db.libchado-perl/libchado-perl-1.31/debian/libchado-perl/tmp
>   
>   The following enviroment variables not detected:
> CHADO_DB_USERNAME
>   Please read the INSTALL document and set required environment variables.
>   
>   debian/rules:15: recipe for target 'override_dh_auto_configure' failed
>   make[1]: *** [override_dh_auto_configure] Error 2
>   make[1]: Leaving directory '«BUILDDIR»'
>   debian/rules:12: recipe for target 'build' failed
>   make: *** [build] Error 2
>   dpkg-buildpackage: error: debian/rules build gave error exit status 2
> 
>   […]
> 
> The full build log is attached.
> 
> 
> Regards,
> 
> -- 
>   ,''`.
>  : :'  : Chris Lamb
>  `. `'`  la...@debian.org / chris-lamb.co.uk
>`-


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Bug#854341: libchado-perl: FTBFS: The following enviroment variables not detected: CHADO_DB_USERNAME

[Chris Lamb]

Source: libchado-perl
Version: 1.31-3
Severity: serious
Justification: fails to build from source
User: reproducible-bui...@lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-b...@lists.alioth.debian.org

Dear Maintainer,

libchado-perl fails to build from source in unstable/amd64:

  […]

 debian/rules override_dh_auto_configure
  make[1]: Entering directory '«BUILDDIR»'
  perl Makefile.PL INSTALL_BASE=/usr  DBNAME=gmod-chado DBUSER=chado 
DBPASS=chado DBHOST=localhost DBPORT=5432 
GMOD_ROOT=«BUILDDIR»/debian/libchado-perl/usr/share/gmod/chado 
DBDRIVER=PostgreSQL RECONFIGURE=1 SIMPLE=Y 
LOCAL_TMP=/home/lamby/temp/cdt.20170206205949.aBowZ3MRr8.db.libchado-perl/libchado-perl-1.31/debian/libchado-perl/tmp
  
  The following enviroment variables not detected:
CHADO_DB_USERNAME
  Please read the INSTALL document and set required environment variables.
  
  debian/rules:15: recipe for target 'override_dh_auto_configure' failed
  make[1]: *** [override_dh_auto_configure] Error 2
  make[1]: Leaving directory '«BUILDDIR»'
  debian/rules:12: recipe for target 'build' failed
  make: *** [build] Error 2
  dpkg-buildpackage: error: debian/rules build gave error exit status 2

  […]

The full build log is attached.


Regards,

-- 
  ,''`.
 : :'  : Chris Lamb
 `. `'`  la...@debian.org / chris-lamb.co.uk
   `-


libchado-perl.1.31-3.unstable.amd64.log.txt.gz
Description: Binary data