From patchwork Fri Apr 26 16:08:12 2024 Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit X-Patchwork-Submitter: nafkhamdc X-Patchwork-Id: 63411 Return-Path: X-Original-To: patchwork@mira.cbaines.net Delivered-To: patchwork@mira.cbaines.net Received: by mira.cbaines.net (Postfix, from userid 113) id 8BE3B27BBE9; Fri, 26 Apr 2024 17:10:07 +0100 (BST) X-Spam-Checker-Version: SpamAssassin 3.4.6 (2021-04-09) on mira.cbaines.net X-Spam-Level: X-Spam-Status: No, score=-2.7 required=5.0 tests=BAYES_00,DKIM_INVALID, DKIM_SIGNED,MAILING_LIST_MULTI,SPF_HELO_PASS,URIBL_BLOCKED autolearn=unavailable autolearn_force=no version=3.4.6 Received: from lists.gnu.org (lists.gnu.org [209.51.188.17]) by mira.cbaines.net (Postfix) with ESMTPS id D2F3E27BBE2 for ; Fri, 26 Apr 2024 17:10:06 +0100 (BST) Received: from localhost ([::1] helo=lists1p.gnu.org) by lists.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1s0O91-0000I9-9T; Fri, 26 Apr 2024 12:09:51 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1s0O8x-0000Hr-IL for guix-patches@gnu.org; Fri, 26 Apr 2024 12:09:47 -0400 Received: from debbugs.gnu.org ([2001:470:142:5::43]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1s0O8x-0003Du-7R for guix-patches@gnu.org; Fri, 26 Apr 2024 12:09:47 -0400 Received: from Debian-debbugs by debbugs.gnu.org with local (Exim 4.84_2) (envelope-from ) id 1s0O9F-00083U-Df for guix-patches@gnu.org; Fri, 26 Apr 2024 12:10:05 -0400 X-Loop: help-debbugs@gnu.org Subject: [bug#70595] [PATCH] gnu: Add python-pyahocorasick. Resent-From: nafkhamdc Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Fri, 26 Apr 2024 16:10:05 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 70595 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 70595@debbugs.gnu.org Cc: nafkhamdc X-Debbugs-Original-To: Received: via spool by submit@debbugs.gnu.org id=B.171414779930893 (code B ref -1); Fri, 26 Apr 2024 16:10:05 +0000 Received: (at submit) by debbugs.gnu.org; 26 Apr 2024 16:09:59 +0000 Received: from localhost ([127.0.0.1]:38261 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1s0O99-00082D-1O for submit@debbugs.gnu.org; Fri, 26 Apr 2024 12:09:59 -0400 Received: from lists.gnu.org ([2001:470:142::17]:36348) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1s0O96-00081G-9b for submit@debbugs.gnu.org; Fri, 26 Apr 2024 12:09:57 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1s0O8e-0000Ff-Qg for guix-patches@gnu.org; Fri, 26 Apr 2024 12:09:30 -0400 Received: from c2062.mx.srv.dfn.de ([194.95.238.172]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1s0O8b-0003Ai-DH for guix-patches@gnu.org; Fri, 26 Apr 2024 12:09:28 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=mdc-berlin.de; h= content-type:content-type:content-transfer-encoding:mime-version :x-mailer:message-id:date:date:subject:subject:from:from :received; s=mdc; t=1714147752; x=1715962153; bh=7M8bd+yW8cntPgk HwiloZSXIdMkpd14mld/3Q4NHGA8=; b=nK8LVAKSP3shzZ/CFmgR9yeow2mpyfC wRgjhwEgCedXNC/sq4nOJvULrphBVDW0WVQQls1jJGbD+pDh1T6tfqyON9+fq+oZ ej7z+RauGGHBErc8k8JExHOI9gPRCaLQNvsnP4AxnkslTzSkO9IMTc8VzHj7P2w+ ANnLsHRpGn3s= Received: from SW-IT-P-EX4.mdc-berlin.net (mgw4.mdc-berlin.de [141.80.113.62]) by c2062.mx.srv.dfn.de (Postfix) with ESMTPS id A82D730044C for ; Fri, 26 Apr 2024 18:09:12 +0200 (CEST) Received: from localhost (141.80.218.27) by SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) with Microsoft SMTP Server (version=TLS1_2, cipher=TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384) id 15.2.1544.4; Fri, 26 Apr 2024 18:09:12 +0200 From: nafkhamdc Date: Fri, 26 Apr 2024 16:08:12 +0000 Message-ID: X-Mailer: git-send-email 2.34.1 MIME-Version: 1.0 X-Originating-IP: [141.80.218.27] X-ClientProxiedBy: SW-IT-P-EX3.mdc-berlin.net (141.80.113.61) To SW-IT-P-EX4.mdc-berlin.net (141.80.113.62) X-TM-AS-Product-Ver: SMEX-14.0.0.3152-9.1.2019-28346.000 X-TM-AS-Result: No-10--5.157600-5.000000 X-TMASE-MatchedRID: n8dyCgqCzutYhP20o6vOMFY9XYa1m8xAJ3y+iqiko29rIVA3IGfCC6DE DQa+uiKUQpP6/vBOuJPABo6AR1sb2oqKGmXzWdcHju2XlcEx9HRR3UkpERYmZGkcgSWdFe6f//X ooDAENi9x/PQ8RbmEmSPm0XhuHgZh3nPCNtVaqRjlSuHlq6Rvf6CfX1AcCU7M6eOTk8IYERCvKD X50Hs6PObIo6/v7awTyrzRjZhtElOvngkjHjojpBTT3CijgvDY28gAxP/Ts6L1VGQ8lr6yrg9dk +6tnSFLX4OlTtVi7Dr3ZSz2FRccuTxB4qAbAXZo7OqOsfUdfsQ= X-TM-AS-User-Approved-Sender: Yes X-TM-AS-User-Blocked-Sender: No X-TMASE-Result: 10--5.157600-5.000000 X-TMASE-Version: SMEX-14.0.0.3152-9.1.2019-28346.000 X-TM-SNTS-SMTP: A82D30FB3F2D87B5716DBF5F64F11188258CE08634771EDB67689B95CC96A1302000:F Received-SPF: pass client-ip=194.95.238.172; envelope-from=Navid.Afkhami@mdc-berlin.de; helo=c2062.mx.srv.dfn.de X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_MED=-2.3, SPF_HELO_PASS=-0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches * gnu/packages/bioinformatics.scm (python-pyahocorasick): New variable. Change-Id: I468bed450351b49cf81344a328841cd77f67cb4e --- gnu/packages/bioinformatics.scm | 23 +++++++++++++++++++++++ 1 file changed, 23 insertions(+) base-commit: 9593750698394b6fecd73e7fca00409ea1ffa2e3 diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index aa6bce5591..287dad4326 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -6383,6 +6383,29 @@ (define-public python-pyani average nucleotide identity.") (license license:expat))) +(define-public python-pyahocorasick + (package + (name "python-pyahocorasick") + (version "2.1.0") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/WojciechMula/pyahocorasick") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 "1fsnivwcw56q7lwz41c5kbfvxv0v17mmkx43i2a293l49fxj08j8")))) + (build-system pyproject-build-system) + (native-inputs (list python-pytest python-twine python-wheel)) + (home-page "https://github.com/WojciechMula/pyahocorasick") + (synopsis "Library for finding multiple key strings in text") + (description + "Pyahocorasick is a fast, memory-efficient library for multi-pattern string search. +This means that you can find multiple key strings occurrences +at once in some input text.") + (license license:bsd-3))) + (define-public exonerate (package (name "exonerate")