[Biopython-dev] Biopython 1.70 release

[Mateusz Korycinski]

In the meantime I also managed to run them on Mac. Now I will do it for Linux.
Tests on Mac in virtualenv with no site packages:
Python2.7: https://pastebin.com/G5WiU1yX
Python3.6: https://pastebin.com/JDMq9uib
Everything seems to work fine with Python 2.7, except of wrappers depending on site programs (e.g. MUSCLE, BLAST+).
In Python 3.6 I experienced some errors (see link above). Perhaps it's something wrong with my environment? To create environment I did:
virtualenv ~/virt_env/test3 --no-site-packages -p python3.6
source ~/virt_env/test3/bin/activate

Best regards,
Mateusz Korycinski
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> -------- Original Message --------
> Subject: Re: [Biopython-dev] Biopython 1.70 release
> Local Time: July 11, 2017 10:06 AM
> UTC Time: July 11, 2017 8:06 AM
> From: mkorycinski at protonmail.ch
> To: Peter Cock <p.j.a.cock at googlemail.com>
> Biopython-Dev Mailing List <biopython-dev at mailman.open-bio.org>
> Hi,
> I can also test that on both Mac and Linux.
>
> Best regards,
> Mateusz Korycinski
> Sent with [ProtonMail](https://protonmail.com) Secure Email.
>
>> -------- Original Message --------
>> Subject: Re: [Biopython-dev] Biopython 1.70 release
>> Local Time: July 10, 2017 6:56 PM
>> UTC Time: July 10, 2017 4:56 PM
>> From: p.j.a.cock at googlemail.com
>> To: Sourav Singh <ssouravsingh12 at gmail.com>
>> Biopython-Dev Mailing List <biopython-dev at mailman.open-bio.org>
>>
>> Thanks for the offer Sourav, but Ben Fulton is happy to do
>> the Windows installers again for Biopython 1.70.
>> It would however be great if you could download the zip file
>> (or tar-ball), and attempt to installing it from source and run
>> the tests (on Windows, Linux or Mac).
>> e.g.
>> wget http://biopython.org/DIST/biopython-1.70.zip
>> unzip biopython-1.70.zip
>> cd biopython-1.70
>> pip install .
>> cd Tests
>> python run_tests.py
>> Thanks,
>> Peter
>>
>> On Mon, Jul 10, 2017 at 5:47 PM, Sourav Singh <ssouravsingh12 at gmail.com> wrote:
>>
>>> Hello,
>>> I can help with the testing of the gzipped code and creation of Windows installers for Biopython 1.70.
>>> Regards,
>>> Sourav
>>>
>>> On Jul 10, 2017 9:59 PM, "Peter Cock" <p.j.a.cock at googlemail.com> wrote:
>>>
>>>> Hi Ben,
>>>> While in the not too distant future I am hoping to adopt the
>>>> NumPy approach to building wheels (and installers?) [1],
>>>> it would be much appreciated if you could make all the
>>>> Windows installers for Biopython 1.70.
>>>> (In particular Python 3.6, but if possible also Python 2.7,
>>>> 3.4 and 3.5 - we no longer support Python 3.3)
>>>> Now that we have Windows-based continuous integration
>>>> up and running on AppVeyor [2], I didn't feel it necessary
>>>> to bother you in advance about running the unit tests.
>>>> Much obliged,
>>>> Peter
>>>> [1] http://mailman.open-bio.org/pipermail/biopython-dev/2017-July/021817.html
>>>> [2] http://mailman.open-bio.org/pipermail/biopython-dev/2017-June/021797.html
>>>> https://ci.appveyor.com/project/biopython/biopython/history
>>>> On Mon, Jul 10, 2017 at 4:43 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
>>>>> Hello all,
>>>>>
>>>>> I'd like to delay the PyPI upload and official release announcement until
>>>>> someone else has confirmed they could install this - any volunteers?
>>>>>
>>>>> http://biopython.org/DIST/biopython-1.70.tar.gz
>>>>> http://biopython.org/DIST/biopython-1.70.zip
>>>>> Checksums:
>>>>>
>>>>> $ md5sum biopython-1.70.*
>>>>> feff7a3e2777e43f9b13039b344e06ff biopython-1.70.tar.gz
>>>>> 6307ab27c257fe69b9dae4bfc3052f49 biopython-1.70.zip
>>>>>
>>>>> $ sha256sum biopython-1.70.*
>>>>> 4a7c5298f03d1a45523f32bae1fffcff323ea9dce007fb1241af092f5ab2e45b
>>>>> biopython-1.70.tar.gz
>>>>> 34312ce899f6c3fc9dea77ca997f9a8c228043d05284a0653577594aeb119d4f
>>>>> biopython-1.70.zip
>>>>>
>>>>> These are from this tagged commit on the main repository:
>>>>>
>>>>> https://github.com/biopython/biopython/tree/biopython-170
>>>>> https://github.com/biopython/biopython/commit/4d01a84f0aa8f91863075f7f0f074b4b69e53959
>>>>>
>>>>> The revised documentation is already live:
>>>>>
>>>>> http://biopython.org/DIST/docs/api/
>>>>> http://biopython.org/DIST/docs/tutorial/Tutorial.pdf
>>>>> http://biopython.org/DIST/docs/tutorial/Tutorial.html
>>>>> etc
>>>>>
>>>>> Peter
>>>>>
>>>>> On Mon, Jul 10, 2017 at 2:19 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
>>>>>> Thanks everyone who helped recently with resolving
>>>>>> open issues and pull requests - especially Eric who
>>>>>> did lots last week.
>>>>>>
>>>>>> I'm going to try the release this afternoon, so please
>>>>>> consider the mast branch frozen for the time being.
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> Peter
>>>> _______________________________________________
>>>> Biopython-dev mailing list
>>>> Biopython-dev at mailman.open-bio.org
>>>> http://mailman.open-bio.org/mailman/listinfo/biopython-dev
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