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Re: [PATCH 2/3] gnu: Add python-pyxb.
From: |
Marius Bakke |
Subject: |
Re: [PATCH 2/3] gnu: Add python-pyxb. |
Date: |
Fri, 23 Sep 2016 16:56:03 +0100 |
Ben Woodcroft <address@hidden> writes:
>>
>>> Also, I notice that pysam bundles htslib, bcftools and samtools C code.
>>> Hopefully it should be straightforward enough to remove htslib as there
>>> are install instructions, I'm not sure about the other two. This
>>> shouldn't block the patch here, but would you mind taking a look?
>>> http://pysam.readthedocs.io/en/latest/installation.html#installation
>> I had a go at this, and also enabled tests since I was reading the build
>> system anyway. Samtools and bcftools does not seem possible to un-bundle
>> at this time, but htslib was straightforward.
> OK. I don't think it needs to be propagated though, right? Also, would
> you mind separating the change to modify-phases syntax and unbundling of
> htslib into two patches please? Other than that this whole series LGTM.
Modify-phases is now a separate patch. Htslib is propagated because it
is included by the installed samtools and bcftools headers; at least one
of pysams dependencies failed to build when it was a regular input.
I added some comments and other cosmetic changes. Updated patch below.
Cheers!
pysam-and-pbcore-update.patch
Description: Text Data
- [PATCH 0/3] gnu: python2-pbcore: Update to 1.2.10., Marius Bakke, 2016/09/17
- [PATCH 1/3] gnu: python-pysam: Update to 0.9.1.4., Marius Bakke, 2016/09/17
- [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/17
- Message not available
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/20
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/20
- Re: [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/21
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/21
- Re: [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/22
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/22
- Re: [PATCH 2/3] gnu: Add python-pyxb.,
Marius Bakke <=
- Re: [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/23
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/23
- Re: [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/23
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/26
- Re: [PATCH 2/3] gnu: Add python-pyxb., Marius Bakke, 2016/09/26
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ben Woodcroft, 2016/09/27
- Re: [PATCH 2/3] gnu: Add python-pyxb., Ludovic Courtès, 2016/09/30
[PATCH 3/3] gnu: python2-pbcore: Update to 1.2.10., Marius Bakke, 2016/09/17