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[bug#44613] [PATCH] Fix build for bedtools
From: |
zimoun |
Subject: |
[bug#44613] [PATCH] Fix build for bedtools |
Date: |
Fri, 13 Nov 2020 13:39:56 +0100 |
Hi Roel,
On Fri, 13 Nov 2020 at 12:01, Roel Janssen <roel@gnu.org> wrote:
> With the following patches, I'd like to add samtools-1.9, htslib-1.9
> (samtools depends on that) to fix this problem with bedtools.
Recently, investigating why the substitute of ’python-pysam’ was not
available, I decided then to give a try at fixing the TODO:
--8<---------------cut here---------------start------------->8---
(snippet '(begin
;; Drop bundled htslib. TODO: Also remove samtools
;; and bcftools.
(delete-file-recursively "htslib")
#t))))
--8<---------------cut here---------------end--------------->8---
And the bundled version is 1.9 (if I remember correctly), therefore
because of:
--8<---------------cut here---------------start------------->8---
(native-inputs
`(("python-cython" ,python-cython)
;; Dependencies below are are for tests only.
("samtools" ,samtools)
("bcftools" ,bcftools)
("python-nose" ,python-nose)))
--8<---------------cut here---------------end--------------->8---
some tests are unhappy.
That’s said, these additions seem fine with me. :-)
All the best,
simon