GNU bug report logs - #55424
[PATCH 000/602] Purge Python 2 packages

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Message #110 received at 55424 <at> debbugs.gnu.org (full text, mbox):

From: Maxim Cournoyer <maxim.cournoyer <at> gmail.com>
To: 55424 <at> debbugs.gnu.org
Cc: Maxim Cournoyer <maxim.cournoyer <at> gmail.com>
Subject: [PATCH 025/602] gnu: Remove poretools.
Date: Sun, 15 May 2022 00:36:52 -0400

* gnu/packages/bioinformatics.scm (poretools): Delete variable.
---
 gnu/packages/bioinformatics.scm | 36 ---------------------------------
 1 file changed, 36 deletions(-)

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index cb3328cc1c..c70b9e3aa7 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -12855,42 +12855,6 @@ (define-public porechop
 Barcoding Kit or Rapid Barcoding Kit.")
       (license license:gpl3+))))
 
-(define-public poretools
-  ;; The latest release was in 2016 and the latest commit is from 2017
-  ;; the recommended way to install is to clone the git repository
-  ;; https://poretools.readthedocs.io/en/latest/content/installation.html
-  (let ((commit "e426b1f09e86ac259a00c261c79df91510777407")
-        (revision "1"))
-    (package
-      (name "poretools")
-      (version (git-version "0.6.0" revision commit))
-      (source
-       (origin
-         (method git-fetch)
-         (uri (git-reference
-               (url "https://github.com/arq5x/poretools")
-               (commit commit)))
-         (file-name (git-file-name name version))
-         (sha256
-          (base32 "0bglj833wxpp3cq430p1d3xp085ls221js2y90w7ir2x5ay8l7am"))))
-      (build-system python-build-system)
-      ;; requires python >=2.7, <3.0, and the same for python dependencies
-      (arguments `(#:python ,python-2))
-      (inputs
-       (list hdf5))
-      (propagated-inputs
-       (list python2-dateutil python2-h5py python2-matplotlib
-             python2-pandas python2-seaborn))
-      (home-page "https://poretools.readthedocs.io")
-      (synopsis "Toolkit for working with nanopore sequencing data")
-      (description
-       "The MinION from Oxford Nanopore Technologies is a nanopore sequencer.
-This @code{poretools} package is a flexible toolkit for exploring datasets
-generated by nanopore sequencing devices for the purposes of quality control and
-downstream analysis.  Poretools operates directly on the native FAST5, a variant
-of the Hierarchical Data Format (HDF5) standard.")
-      (license license:expat))))
-
 (define-public jamm
   (package
     (name "jamm")
-- 
2.36.0

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