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Resent-From: Efraim Flashner Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Sun, 29 Jan 2023 13:13:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 61148 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 61148@debbugs.gnu.org Cc: Efraim Flashner Received: via spool by 61148-submit@debbugs.gnu.org id=B61148.167499797613729 (code B ref 61148); Sun, 29 Jan 2023 13:13:03 +0000 Received: (at 61148) by debbugs.gnu.org; 29 Jan 2023 13:12:56 +0000 Received: from localhost ([127.0.0.1]:42432 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pM7UO-0003ZD-7F for submit@debbugs.gnu.org; Sun, 29 Jan 2023 08:12:56 -0500 Received: from mail-ej1-f52.google.com ([209.85.218.52]:46854) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pM7UL-0003YO-Ee for 61148@debbugs.gnu.org; Sun, 29 Jan 2023 08:12:53 -0500 Received: by mail-ej1-f52.google.com with SMTP id p26so13718091ejx.13 for <61148@debbugs.gnu.org>; Sun, 29 Jan 2023 05:12:53 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=content-transfer-encoding:mime-version:references:in-reply-to :message-id:date:subject:cc:to:from:sender:from:to:cc:subject:date :message-id:reply-to; bh=dErTZnoju/vml+vpg9fT3B03qn4kYx3UtyCFlIYd62c=; b=iTnrX8noQnP++aWOd4pGucNovFSutSh1FOn6lNXuqB6foMVVKQNr726Wbl+xYn/TLn QQOvyXxmCPxViuYoJb0s8dOGovDUghvYrQxECIXOz3Ab5WItBEnDqpACeC+0D/2RsYCb LYkB6Zp9QzZkDWE5Md5hDa5u3Na2T5SPNg12ASdDEQZWS+V4F8rS6pvEyAlN4NNp+QX0 XlVl2HIM2e2XMD2wCeJKJiu8T/bI7Ox7ZoMh76zgDxDbk1AkWzNosBVy6ThZ0atjO5x6 Bti1JYy+ZCi5qoAFaIJ+fKrIZmL66dARxzrrxu7Z0nG+Nwth9FFl5yn5ioHn9hT+eAMc 39EQ== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=content-transfer-encoding:mime-version:references:in-reply-to :message-id:date:subject:cc:to:from:sender:x-gm-message-state:from :to:cc:subject:date:message-id:reply-to; bh=dErTZnoju/vml+vpg9fT3B03qn4kYx3UtyCFlIYd62c=; b=W5x7t7/dJNipKaZw0OFGpe/+j4uEMhdR4lJ/tuGU2A8/wga2XCE2Mtxi6FwedPKGJX xTLD/sm1t5nYIJCzrsqlEzj3PdM0JHGqpDAueAeBqbcDbDVkzzBx4YQBUJNxTX3cT2lz Al+Cds2+3YYm7TJrU598iUD54GnmUwhhUeg4hXBEnOwovKywbF6q491W6e/8U3t9ddlJ AU/nRlXDJ5CFby4g1FGa2B2VQzifav0n/Y9w1b970ioYgkH82zQKVTDnvJvF0KT9BQVE 4d72yzyIVducNijiNqJ5GkpVSPrZgwINQWSEkVGAt5woLstgCee6/K7Dl1MwikOnRqIa 8Opg== X-Gm-Message-State: AFqh2kqK5/pKOCFM7xFJNc6Bkn5zAsmmTS8lJvATLyGiUvYRYhYqxNl9 SOj3jWLPXXMnyeGpBo3eRryg6cWncRQ+Hw== X-Google-Smtp-Source: AMrXdXvkb28eEBxZRIT/9v0zqfNCm6/VOm80JJQgzGbFy2g8E4Sml7vvkBCuQVWWj+tAwDbY73n+zw== X-Received: by 2002:a17:907:9b06:b0:872:f259:a7ea with SMTP id kn6-20020a1709079b0600b00872f259a7eamr48964691ejc.53.1674997967912; Sun, 29 Jan 2023 05:12:47 -0800 (PST) Received: from localhost ([141.226.15.115]) by smtp.gmail.com with ESMTPSA id p7-20020a170906b20700b0088478517830sm1758219ejz.83.2023.01.29.05.12.47 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Sun, 29 Jan 2023 05:12:47 -0800 (PST) From: Efraim Flashner Date: Sun, 29 Jan 2023 15:12:37 +0200 Message-Id: <9625ac451fe44ad7e2ea707e999cdc94d1389fce.1674997469.git.efraim@flashner.co.il> X-Mailer: git-send-email 2.39.1 In-Reply-To: References: MIME-Version: 1.0 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 (libvcfh): New variable. --- gnu/packages/bioinformatics.scm | 37 +++++++++++++++++++++++++++++++++ 1 file changed, 37 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7b5d5c5e8c..05a07af7f3 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -15744,6 +15744,43 @@ (define-public wfa2-lib architectures without adapting the code.") (license license:expat)))) +(define-public libvcfh + (let ((commit "44b6580639a216a484fd96de75a839091f25768a") + (revision "1")) + (package + (name "libvcfh") + (version (git-version "0.0.0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/edawson/libVCFH.git") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0jjqnzvai0849czh1hi5inm6y0228cw2s97i76f3vhyxj21mzvwm")))) + (build-system gnu-build-system) + (arguments + (list + #:phases + #~(modify-phases %standard-phases + (delete 'configure) ; No configure script + (replace 'check + (lambda* (#:key tests? make-flags #:allow-other-keys) + (when tests? + (apply invoke "make" "test" make-flags) + (invoke "./test")))) + (replace 'install + (lambda* (#:key outputs #:allow-other-keys) + (let ((out (assoc-ref outputs "out"))) + (install-file "libvcfh.a" (string-append out "/lib")) + (install-file "vcfheader.hpp" + (string-append out "/include/libvcfh")))))))) + (home-page "https://github.com/edawson/libVCFH") + (synopsis "Library for generating VCF headers") + (description "@code{libVCFH} is a set of data structures you can populate +to print a VCf header. It should be in spec with VCF4.1/4.2.") + (license license:expat)))) + (define-public smithwaterman (let ((commit "2610e259611ae4cde8f03c72499d28f03f6d38a7")) (package