From mboxrd@z Thu Jan 1 00:00:00 1970 Received: from eggs.gnu.org ([2001:4830:134:3::10]:53807) by lists.gnu.org with esmtp (Exim 4.71) (envelope-from ) id 1fxYMx-0001a7-KB for guix-patches@gnu.org; Wed, 05 Sep 2018 10:01:33 -0400 Received: from Debian-exim by eggs.gnu.org with spam-scanned (Exim 4.71) (envelope-from ) id 1fxYMk-0004VS-WF for guix-patches@gnu.org; Wed, 05 Sep 2018 10:01:16 -0400 Received: from debbugs.gnu.org ([208.118.235.43]:42274) by eggs.gnu.org with esmtps (TLS1.0:RSA_AES_128_CBC_SHA1:16) (Exim 4.71) (envelope-from ) id 1fxYMk-0004Tw-MJ for guix-patches@gnu.org; Wed, 05 Sep 2018 10:01:06 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1fxYMk-0005Bx-IR for guix-patches@gnu.org; Wed, 05 Sep 2018 10:01:06 -0400 Subject: [bug#32642] [PATCH 12/16] gnu: Add python-pypairix. Resent-Message-ID: From: Ricardo Wurmus Date: Wed, 5 Sep 2018 16:00:02 +0200 Message-ID: <20180905140006.10783-7-ricardo.wurmus@mdc-berlin.de> In-Reply-To: <20180905140006.10783-1-ricardo.wurmus@mdc-berlin.de> References: <20180905140006.10783-1-ricardo.wurmus@mdc-berlin.de> MIME-Version: 1.0 Content-Type: text/plain List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+kyle=kyleam.com@gnu.org Sender: "Guix-patches" To: 32642@debbugs.gnu.org Cc: Ricardo Wurmus * gnu/packages/bioinformatics.scm (python-pypairix): New variable. --- gnu/packages/bioinformatics.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 963715b43..466e40242 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -13579,3 +13579,27 @@ range envelopment. This library was designed to allow tagging text and time intervals, where the intervals include the lower bound but not the upper bound.") (license license:asl2.0))) + +(define-public python-pypairix + (package + (name "python-pypairix") + (version "0.3.6") + (source + (origin + (method url-fetch) + (uri (pypi-uri "pypairix" version)) + (sha256 + (base32 + "0zs92b74s5v4xy2h16s15f3z6l4nnbw8x8zyif7xx5xpafjn0xss")))) + (build-system python-build-system) + ;; FIXME: the tests fail because test.support cannot be loaded: + ;; ImportError: cannot import name 'support' + (arguments '(#:tests? #f)) + (inputs + `(("zlib" ,zlib))) + (home-page "https://github.com/4dn-dcic/pairix") + (synopsis "Support for querying pairix-indexed bgzipped text files") + (description + "Pypairix is a Python module for fast querying on a pairix-indexed +bgzipped text file that contains a pair of genomic coordinates per line.") + (license license:expat))) -- 2.18.0