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Resent-From: Andreas Enge Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 01 Apr 2025 22:53:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 77442 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 77442@debbugs.gnu.org Cc: Andreas Enge Received: via spool by 77442-submit@debbugs.gnu.org id=B77442.174354793631129 (code B ref 77442); Tue, 01 Apr 2025 22:53:02 +0000 Received: (at 77442) by debbugs.gnu.org; 1 Apr 2025 22:52:16 +0000 Received: from localhost ([127.0.0.1]:52197 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tzkSs-00085k-5Z for submit@debbugs.gnu.org; Tue, 01 Apr 2025 18:52:16 -0400 Received: from hera.aquilenet.fr ([185.233.100.1]:60748) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from ) id 1tzkSp-00084g-7v for 77442@debbugs.gnu.org; Tue, 01 Apr 2025 18:52:12 -0400 Received: from localhost (localhost [127.0.0.1]) by hera.aquilenet.fr (Postfix) with ESMTP id 252B22FF; Wed, 2 Apr 2025 00:52:05 +0200 (CEST) Authentication-Results: hera.aquilenet.fr; none X-Virus-Scanned: Debian amavis at hera.aquilenet.fr Received: from hera.aquilenet.fr ([127.0.0.1]) by localhost (hera.aquilenet.fr [127.0.0.1]) (amavis, port 10024) with ESMTP id 24pijB8CH4KB; Wed, 2 Apr 2025 00:52:04 +0200 (CEST) Received: from jurong.lan (176-179-191-150.abo.bbox.fr [176.179.191.150]) by hera.aquilenet.fr (Postfix) with ESMTPSA id 8A492BF; Wed, 2 Apr 2025 00:51:57 +0200 (CEST) From: Andreas Enge Date: Wed, 2 Apr 2025 00:51:39 +0200 Message-ID: X-Mailer: git-send-email 2.49.0 In-Reply-To: References: MIME-Version: 1.0 X-Rspamd-Queue-Id: 252B22FF X-Spamd-Result: default: False [-3.60 / 15.00]; REPLY(-4.00)[]; BAYES_HAM(-3.00)[100.00%]; FORGED_RECIPIENTS(2.00)[m:andreas@enge.fr,s:andreas.enge@aquilenet.fr]; MID_CONTAINS_FROM(1.00)[]; R_MISSING_CHARSET(0.50)[]; MIME_GOOD(-0.10)[text/plain]; RCVD_TLS_ALL(0.00)[]; RCVD_COUNT_TWO(0.00)[2]; MIME_TRACE(0.00)[0:+]; FROM_EQ_ENVFROM(0.00)[]; TO_MATCH_ENVRCPT_SOME(0.00)[]; TO_DN_SOME(0.00)[]; RCPT_COUNT_TWO(0.00)[2]; RCVD_VIA_SMTP_AUTH(0.00)[]; FROM_HAS_DN(0.00)[]; ARC_NA(0.00)[] X-Rspamd-Action: no action X-Spamd-Bar: --- X-Rspamd-Server: hera 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 The package has not been updated since 2019 and depends on the deprecated r-h5. * gnu/packages/bioinformatics.scm (r-velocyto): Delete variable. Change-Id: I9783c67c92b5351647b964364c281a0d40319949 --- gnu/packages/bioinformatics.scm | 44 --------------------------------- 1 file changed, 44 deletions(-) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 8fd7789028..226594d8ed 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -22632,50 +22632,6 @@ (define-public r-imagearray (description "@code{DelayedArray} based image operations.") (license license:expat)))) -(define-public r-velocyto - (let ((commit "d7790346cb99f49ab9c2b23ba70dcf9d2c9fc350") - (revision "1")) - (package - (name "r-velocyto") - (version (git-version "0.6" revision commit)) - (source - (origin - (method git-fetch) - (uri (git-reference - (url "https://github.com/velocyto-team/velocyto.R") - (commit commit))) - (file-name (git-file-name name version)) - (sha256 - (base32 - "16wqf70j7rd7pay2q513iyz12i8n9vrpg1bisah4lddbcpx5dz1n")))) - (build-system r-build-system) - (inputs - (list boost)) - (propagated-inputs - (list r-hdf5r - r-mass - r-mgcv - r-pcamethods - r-rcpp - r-rcpparmadillo - ;; Suggested packages - r-rtsne - r-cluster - r-abind - r-h5 - r-biocgenerics - r-genomicalignments - r-rsamtools - r-edger - r-igraph)) - (home-page "https://velocyto.org") - (synopsis "RNA velocity estimation in R") - (description - "This package provides basic routines for estimation of gene-specific -transcriptional derivatives and visualization of the resulting velocity -patterns.") - (license license:gpl3)))) - (define-public r-voltron (let ((commit "21886d82292dc46521da2a03d978d78f3bd7210b") (revision "5"))