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Resent-From: Arun Isaac Original-Sender: "Debbugs-submit" Resent-CC: arunisaac@systemreboot.net, guix-patches@gnu.org Resent-Date: Mon, 23 Oct 2023 08:11:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 66690 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 66690@debbugs.gnu.org Cc: Arun Isaac , Arun Isaac X-Debbugs-Original-Xcc: Arun Isaac Received: via spool by 66690-submit@debbugs.gnu.org id=B66690.16980486627416 (code B ref 66690); Mon, 23 Oct 2023 08:11:04 +0000 Received: (at 66690) by debbugs.gnu.org; 23 Oct 2023 08:11:02 +0000 Received: from localhost ([127.0.0.1]:48976 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1quq1d-0001vP-P1 for submit@debbugs.gnu.org; Mon, 23 Oct 2023 04:11:02 -0400 Received: from mugam.systemreboot.net ([139.59.75.54]:35692) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1quq1T-0001uW-MZ for 66690@debbugs.gnu.org; Mon, 23 Oct 2023 04:10:52 -0400 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/relaxed; d=systemreboot.net; s=default; h=Content-Transfer-Encoding:MIME-Version: References:In-Reply-To:Message-ID:Date:Subject:Cc:To:From:Sender:Reply-To: Content-Type:Content-ID:Content-Description:Resent-Date:Resent-From: Resent-Sender:Resent-To:Resent-Cc:Resent-Message-ID:List-Id:List-Help: List-Unsubscribe:List-Subscribe:List-Post:List-Owner:List-Archive; bh=S6z1YNrjdMoaMkVg/04HuYL56uFb2So+TXkmKGrgAto=; b=X6uJ2PEpJ+9chwFLpQeaL0hnUS o3fK7OnoVKcWNWI/TB/QlvHhZ2kcgBDNr1etKMXCeM6tTXs7F1WifFCK8OIPJXbkkQpQpH3RABbja pUYCnmexdQFtV68+06jEZoNhFqcE0F3SiQ0BfnT6lXUaSiPISL8Xcawus2RfFdoU/KKFkUHMQqBLa R1aev1NLqWTEpLoMynW6Ho3HmsdWxZhTNs+YWwBiYR1H5+wM+hNQv/j5J2HCJ+ZAsXhUHk186u1JO jhwle6yad9FWksbvNFVYVdNVp3xz13/ZarpzvDYTk5ACEFj2Q3TgJ/9epeAYba0HoJvkcHnnYdBSP ldufn7Nw==; Received: from [192.168.2.1] (port=51852 helo=localhost.localdomain) by systemreboot.net with esmtpsa (TLS1.3) tls TLS_ECDHE_RSA_WITH_AES_256_GCM_SHA384 (Exim 4.96) (envelope-from ) id 1quq0x-001gvg-2V; Mon, 23 Oct 2023 09:10:20 +0100 From: Arun Isaac Date: Mon, 23 Oct 2023 09:09:45 +0100 Message-ID: X-Mailer: git-send-email 2.41.0 In-Reply-To: References: MIME-Version: 1.0 Content-Transfer-Encoding: 8bit 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+larch=yhetil.org@gnu.org Sender: guix-patches-bounces+larch=yhetil.org@gnu.org X-Migadu-Country: US X-Migadu-Flow: FLOW_IN X-Migadu-Spam-Score: 4.40 X-Spam-Score: 4.40 X-Migadu-Queue-Id: 237985E758 X-Migadu-Scanner: mx2.migadu.com X-TUID: HsBsjRc6xKvV * gnu/packages/bioinformatics.scm (python-cwl-utils): New variable. --- gnu/packages/bioinformatics.scm | 43 +++++++++++++++++++++++++++++++++ 1 file changed, 43 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 79dbf0f2e6..2deec5368e 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4537,6 +4537,49 @@ (define-public python-cwl-upgrader and v1.1 to v1.2.") (license license:asl2.0))) +(define-public python-cwl-utils + (package + (name "python-cwl-utils") + (version "0.29") + (source + (origin + (method url-fetch) + (uri (pypi-uri "cwl-utils" version)) + (sha256 + (base32 + "0rfm49wwnn4bcalkfrhvlmn7bhdf6nnwcr8fvx5gqxqyd4b5izf5")))) + (build-system pyproject-build-system) + (arguments + (list + #:test-flags + #~(list "-k" + (string-append "not test_graph_split" + " and not test_load_document_with_remote_uri" + " and not test_remote_packing" + " and not test_remote_packing_github_soft_links" + " and not test_value_from_two_concatenated_expressions")))) + (inputs + (list node)) + (native-inputs + (list python-mypy-extensions + python-pytest + python-pytest-mock + python-pytest-runner)) + (propagated-inputs + (list python-cwl-upgrader + python-cwlformat + python-packaging + python-rdflib + python-requests + python-ruamel.yaml + python-schema-salad)) + (home-page "https://github.com/common-workflow-language/cwl-utils") + (synopsis "Python utilities for CWL") + (description "@code{python-cwl-utils} provides python utilities and +autogenerated classes for loading and parsing CWL v1.0, CWL v1.1, and CWL v1.2 +documents.") + (license license:asl2.0))) + (define-public cwltool (package (name "cwltool") -- 2.41.0