new DPMT / PAPT admin

2018-04-05 Thread Piotr Ożarowski
Hi,

We don't have a procedure to select a new admin (or terms / rotations
unfortunately) so if you want to blame current admins for this, Ondřej
Nový will share the blame now :)
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Re: Please add me on Salsa

2018-04-05 Thread Piotr Ożarowski
[Nikolaus Rath, 2018-04-05]
> Huh? I have been member of the team for a few years already, I'm just
> not registered on Salsa yet (as far as I know Alioth memberships don't
> transfer automatically).

ah, sorry, I didn't check alioth. You're now also a member on salsa.

BTW, there's no need to send an email to the mailing list, if someone
was a member on alioth, just send me private email or a message on IRC.
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Re: Please add me on Salsa

2018-04-05 Thread Nikolaus Rath
On Apr 05 2018, Piotr Ożarowski  wrote:
> Hi Nikolaus,
>
> [Nikolaus Rath, 2018-04-03]
>> Could someone please add me to the DPMT and DPAP teams on Salsa? My
>> Alioth and Salsa username is nikratio-guest.
>
> what do you think about our policy and on which packages do you want to
> work with us?

Huh? I have been member of the team for a few years already, I'm just
not registered on Salsa yet (as far as I know Alioth memberships don't
transfer automatically).

But yeah, I am still committed to abide by the policy, and I am
maintaining the python-llfuse and python-dugong packages.


Best,
-Nikolaus

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Re: Strange encoding problem in setup.py of biopython 1.71

2018-04-05 Thread Peter Cock
Confirmed - not sure if my earlier email made it?

https://github.com/biopython/biopython/commit/6421d365a511c0de71748737ba6e1cd8518658ac

Can you pull in that commit as a patch for the Biopython 1.71 package?

Peter

On Thu, Apr 5, 2018 at 3:39 PM, Klaus Zimmermann
 wrote:
> Hi Andreas,
>
> here, the culprit is
> U+2019 : RIGHT SINGLE QUOTATION MARK {single comma quotation mark}
> that is used as an apostrophe in two places in "Apple's".
>
> I found this by looking for 0xe2 (from your error message) in an hexdump
> (od -A d -xc README.rst |less ) at the named position (7116).
>
> Cheers
> Klaus
>
>
> On 05/04/18 16:34, Andreas Tille wrote:
>> Hi Olivier,
>>
>> On Thu, Apr 05, 2018 at 04:19:37PM +0200, Olivier Sallou wrote:
>>>
>>> On 04/05/2018 04:10 PM, Andreas Tille wrote:
 (maybe?) setup.py:


 ...
 dh_auto_clean
 pybuild --clean -i python{version} -p 2.7
 I: pybuild base:217: python2.7 setup.py clean
 running clean
 removing 
 '/home/andreas/debian-maintain/salsa/med-team/build-area/python-biopython-1.71+dfsg/.pybuild/cpython2_2.7/build'
  (and everything under it)
 'build/bdist.linux-x86_64' does not exist -- can't clean it
 'build/scripts-2.7' does not exist -- can't clean it
 pybuild --clean -i python{version} -p 3.6
 I: pybuild base:217: python3.6 setup.py clean
 Traceback (most recent call last):
   File "setup.py", line 435, in 
 readme_rst = handle.read()
   File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
 return codecs.ascii_decode(input, self.errors)[0]
 UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 7116: 
 ordinal not in range(128)
 E: pybuild pybuild:336: clean: plugin distutils failed with: exit code=1: 
 python3.6 setup.py clean
 dh_auto_clean: pybuild --clean -i python{version} -p 3.6 returned exit 
 code 13
>>> this is usually related to non ascii characters in file (readme.rst?) ,
>>> if you find some, you can patch file to remove them.
>>
>> Is there any efficient method to seek for this kind of non-ascii
>> characters?
>>
>> Kind regards
>>
>>   Andreas.
>>
>
>



Re: Requesting team membership for DPMT on Salsa

2018-04-05 Thread Piotr Ożarowski
[Andreas Tille, 2018-04-05]
> On Thu, Apr 05, 2018 at 04:40:44PM +0200, Piotr Ożarowski wrote:
> > [Andreas Tille, 2018-03-28]
> > > I failed to find a button to ask for membership in the Salsa web
> > 
> > let me know if you find it (bonus points for also letting me know how to
> > disable it)
> 
> May be it is just disabled?

FTR (if it wasn't clear) I want it disabled!
I want all join requests to go to this list so that other team members
can raise their concerns.
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Re: Requesting team membership for DPMT on Salsa

2018-04-05 Thread Georg Faerber
On 18-04-05 16:53:36, Andreas Tille wrote:
> On Thu, Apr 05, 2018 at 04:40:44PM +0200, Piotr Ożarowski wrote:
> > [Andreas Tille, 2018-03-28]
> > > I failed to find a button to ask for membership in the Salsa web
> > 
> > let me know if you find it (bonus points for also letting me know how to
> > disable it)
> 
> May be it is just disabled?

If you want to make sure: Check the group settings, especially "Allow
users to request access."

Cheers,
Georg


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Re: Requesting team membership for DPMT on Salsa

2018-04-05 Thread Andreas Tille
On Thu, Apr 05, 2018 at 04:40:44PM +0200, Piotr Ożarowski wrote:
> [Andreas Tille, 2018-03-28]
> > I failed to find a button to ask for membership in the Salsa web
> 
> let me know if you find it (bonus points for also letting me know how to
> disable it)

May be it is just disabled?
 
> > interface for DPMT.  Please add me since I contributed to some python-*
> > packages in the past and would like to keep on contributing. :-)
> > 
> > It would be nice if the permissions would enable me creating new
> > projects.
> 
> done :)

Thanks

 Andreas.

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Re: packages that use dh_python{2,3} but don't depend on dh-python

2018-04-05 Thread Andreas Tille
On Mon, Mar 26, 2018 at 01:32:10PM +0200, Piotr Ożarowski wrote:
> http://people.debian.org/~piotr/dh_python3_without_dh-python.ddlist

I've fixed

 Andreas Tille 
   iva (U)
   kissplice (U)
   python-biopython (U)  [ only in Git due to some other issues ]
   python-csb (U)
   sphinxcontrib-autoprogram (U)


> http://people.debian.org/~piotr/dh_python2_without_dh-python.ddlist

I'll work on this step by step to safe you from filing bug reports.

Kind regards

  Andreas. 

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Re: Please add me on Salsa

2018-04-05 Thread Piotr Ożarowski
Hi Nikolaus,

[Nikolaus Rath, 2018-04-03]
> Could someone please add me to the DPMT and DPAP teams on Salsa? My
> Alioth and Salsa username is nikratio-guest.

what do you think about our policy and on which packages do you want to
work with us?
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Re: Strange encoding problem in setup.py of biopython 1.71

2018-04-05 Thread Klaus Zimmermann
Hi Andreas,

here, the culprit is
U+2019 : RIGHT SINGLE QUOTATION MARK {single comma quotation mark}
that is used as an apostrophe in two places in "Apple's".

I found this by looking for 0xe2 (from your error message) in an hexdump
(od -A d -xc README.rst |less ) at the named position (7116).

Cheers
Klaus


On 05/04/18 16:34, Andreas Tille wrote:
> Hi Olivier,
> 
> On Thu, Apr 05, 2018 at 04:19:37PM +0200, Olivier Sallou wrote:
>>
>> On 04/05/2018 04:10 PM, Andreas Tille wrote:
>>> (maybe?) setup.py:
>>>
>>>
>>> ...
>>> dh_auto_clean
>>> pybuild --clean -i python{version} -p 2.7
>>> I: pybuild base:217: python2.7 setup.py clean 
>>> running clean
>>> removing 
>>> '/home/andreas/debian-maintain/salsa/med-team/build-area/python-biopython-1.71+dfsg/.pybuild/cpython2_2.7/build'
>>>  (and everything under it)
>>> 'build/bdist.linux-x86_64' does not exist -- can't clean it
>>> 'build/scripts-2.7' does not exist -- can't clean it
>>> pybuild --clean -i python{version} -p 3.6
>>> I: pybuild base:217: python3.6 setup.py clean 
>>> Traceback (most recent call last):
>>>   File "setup.py", line 435, in 
>>> readme_rst = handle.read()
>>>   File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
>>> return codecs.ascii_decode(input, self.errors)[0]
>>> UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 7116: 
>>> ordinal not in range(128)
>>> E: pybuild pybuild:336: clean: plugin distutils failed with: exit code=1: 
>>> python3.6 setup.py clean 
>>> dh_auto_clean: pybuild --clean -i python{version} -p 3.6 returned exit code 
>>> 13
>> this is usually related to non ascii characters in file (readme.rst?) ,
>> if you find some, you can patch file to remove them.
> 
> Is there any efficient method to seek for this kind of non-ascii
> characters?
> 
> Kind regards
> 
>   Andreas.
> 



Re: Strange encoding problem in setup.py of biopython 1.71

2018-04-05 Thread Piotr Ożarowski
[Andreas Tille, 2018-04-05]
> Traceback (most recent call last):
>   File "setup.py", line 435, in 
> readme_rst = handle.read()
>   File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
> return codecs.ascii_decode(input, self.errors)[0]
> UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 7116: 
> ordinal not in range(128)
> E: pybuild pybuild:336: clean: plugin distutils failed with: exit code=1: 
> python3.6 setup.py clean 
> dh_auto_clean: pybuild --clean -i python{version} -p 3.6 returned exit code 13
> ...

in setup.py, if you decide to keep supporting Python 2, change lines 434-435 
into:

  with open("README.rst", 'rb') as handle:
  readme_rst = handle.read().decode('UTF-8')

or if you finally let it go, change only line 434:

  with open("README.rst", encoding='UTF-8') as handle:
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Re: Strange encoding problem in setup.py of biopython 1.71

2018-04-05 Thread Andreas Tille
Hi Olivier,

On Thu, Apr 05, 2018 at 04:19:37PM +0200, Olivier Sallou wrote:
> 
> On 04/05/2018 04:10 PM, Andreas Tille wrote:
> > (maybe?) setup.py:
> >
> >
> > ...
> > dh_auto_clean
> > pybuild --clean -i python{version} -p 2.7
> > I: pybuild base:217: python2.7 setup.py clean 
> > running clean
> > removing 
> > '/home/andreas/debian-maintain/salsa/med-team/build-area/python-biopython-1.71+dfsg/.pybuild/cpython2_2.7/build'
> >  (and everything under it)
> > 'build/bdist.linux-x86_64' does not exist -- can't clean it
> > 'build/scripts-2.7' does not exist -- can't clean it
> > pybuild --clean -i python{version} -p 3.6
> > I: pybuild base:217: python3.6 setup.py clean 
> > Traceback (most recent call last):
> >   File "setup.py", line 435, in 
> > readme_rst = handle.read()
> >   File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
> > return codecs.ascii_decode(input, self.errors)[0]
> > UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 7116: 
> > ordinal not in range(128)
> > E: pybuild pybuild:336: clean: plugin distutils failed with: exit code=1: 
> > python3.6 setup.py clean 
> > dh_auto_clean: pybuild --clean -i python{version} -p 3.6 returned exit code 
> > 13
> this is usually related to non ascii characters in file (readme.rst?) ,
> if you find some, you can patch file to remove them.

Is there any efficient method to seek for this kind of non-ascii
characters?

Kind regards

  Andreas.

-- 
http://fam-tille.de



Strange encoding problem in setup.py of biopython 1.71

2018-04-05 Thread Andreas Tille
Hi,

I imported BioPython version 1.71 into the packaging Git[1] and tried to
build it.  Unfortunately I'm stumbling upon some encoding problem in
(maybe?) setup.py:


...
dh_auto_clean
pybuild --clean -i python{version} -p 2.7
I: pybuild base:217: python2.7 setup.py clean 
running clean
removing 
'/home/andreas/debian-maintain/salsa/med-team/build-area/python-biopython-1.71+dfsg/.pybuild/cpython2_2.7/build'
 (and everything under it)
'build/bdist.linux-x86_64' does not exist -- can't clean it
'build/scripts-2.7' does not exist -- can't clean it
pybuild --clean -i python{version} -p 3.6
I: pybuild base:217: python3.6 setup.py clean 
Traceback (most recent call last):
  File "setup.py", line 435, in 
readme_rst = handle.read()
  File "/usr/lib/python3.6/encodings/ascii.py", line 26, in decode
return codecs.ascii_decode(input, self.errors)[0]
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe2 in position 7116: 
ordinal not in range(128)
E: pybuild pybuild:336: clean: plugin distutils failed with: exit code=1: 
python3.6 setup.py clean 
dh_auto_clean: pybuild --clean -i python{version} -p 3.6 returned exit code 13
...


I admit I have no idea how to fix this.  Any idea?

Kind regards

Andreas.


[1] https://salsa.debian.org/med-team/python-biopython

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Re: setup.py sdist permissions

2018-04-05 Thread Brian May
Robert Collins  writes:

> Yah, packaging permissions are an installation problem, and setup.py
> is (no longer) intended for installation.

Thanks, that is what I thought too.

Have followed up in the bug report.
-- 
Brian May