From nobody Sat Nov 04 13:15:27 2023 X-Original-To: dev-commits-ports-all@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id 4SMylg3N4Fz50Plm; Sat, 4 Nov 2023 13:15:27 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4SMylg2wSCz4KSq; Sat, 4 Nov 2023 13:15:27 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1699103727; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=nQRmy/q0FZpFqPQ0UUt43SmOhNRHNoTWuqat08NOuZ8=; b=mln2Od69WD18jK8pFzlNCG5V2mogEpSbpotLro8bqglYQVVM9WCs4DqmaySoJzqaAuVgbh 0b7ecbTF24K4J5RTeFEjU4eWdOz4pFXD1ciQAxFxk0TNU7mvKnkT0HhNjLSFz//4m4q7h5 73dUp3sAkEsKZ6L130MbS3ONcKEik1cJJazT/4aar8knTdAHBgXOg7pqw8jOcO6gI/fV13 UWqz0zONk+jzCWkAr2LOh+b1Z9DjVP8coroU5ZpAn0HhuVtIDF2vog7jFpr0AyOncU/mnb Qhs/K5gPzvbXNqM5+qNJN08WpkhqLfahxFfGFu2CHXUxWb5UoTvq0nOIi0edNg== ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1699103727; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=nQRmy/q0FZpFqPQ0UUt43SmOhNRHNoTWuqat08NOuZ8=; b=QwdExAcrtUrj4M9baf8+vuWjx+X9qekAeEFqTYx/jbMNUYhb/IdyxWCPBmv/MFdX/+41KJ 5qsTZwoIyne4x9g19nJ0mrvk1ArEWDNialH7OdkhdRbLCikqd0CuScWBwnCIoHUxfczr55 hPS8qkf1tRK+HkrdCiCYbMdPrRQrUHBUCzYWK5jALsDoEbleojqOtFWLfKBHTOk0BVj6Ef X1LgQljalkqJhF3GK2MD4fJeYK33zIfwlHX3O1soG7n687lSrFop+ckI9NRzymg6DyiU4h v2k5mAft5etlw0nugk9fMhUvvxlD0J75em/j77TqNu++++jhjGSB2nDzhQvrFA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1699103727; a=rsa-sha256; cv=none; b=edgKArM86ecgZBLSyo+yIoZmXBXPMmAYMxn0xU6Zv/cNZ9GOd+tPzg4OBsNJlWHZZ46Cz5 s/ld/LeTy8RE446pPPBIzTKiAJBM1Rn0RjhWeiwrZj+Y7qz6Eff+trEftVKPh17uHB73bc pcv5KVE3n/ixXlhty3Qtdl4P9+aj7K2a2ubeTeBJL6KMMs6PpmRl8Wfz5ahJLBMYUaEYtn ggLUmtsfuBxi6FLw4c1xW21xYj7e/RyttGZ73yOX/Dr4WMYOCpHB2o8HsA+wxV3oUk8rWD lvZ2ga4UPQI6xN60nWY9a6+LTdaP0mneAH77Ny7yWdzrEv9guBUDFxtjULWD6g== Received: from gitrepo.freebsd.org (gitrepo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:5]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 4SMylg1zFbzyyV; Sat, 4 Nov 2023 13:15:27 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from gitrepo.freebsd.org ([127.0.1.44]) by gitrepo.freebsd.org (8.17.1/8.17.1) with ESMTP id 3A4DFRO4002483; Sat, 4 Nov 2023 13:15:27 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.17.1/8.17.1/Submit) id 3A4DFRfw002480; Sat, 4 Nov 2023 13:15:27 GMT (envelope-from git) Date: Sat, 4 Nov 2023 13:15:27 GMT Message-Id: <202311041315.3A4DFRfw002480@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: "Jason W. Bacon" Subject: git: 8a2deaeb09da - main - biology/kallisto: Update to 0.50.1,1 List-Id: Commit messages for all branches of the ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-all List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-all@freebsd.org X-BeenThere: dev-commits-ports-all@freebsd.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: jwb X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: 8a2deaeb09da2b11c7061bd7120c9078717157ee Auto-Submitted: auto-generated The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=8a2deaeb09da2b11c7061bd7120c9078717157ee commit 8a2deaeb09da2b11c7061bd7120c9078717157ee Author: Jason W. Bacon AuthorDate: 2023-11-04 13:12:42 +0000 Commit: Jason W. Bacon CommitDate: 2023-11-04 13:15:25 +0000 biology/kallisto: Update to 0.50.1,1 Update kallisto index version to 13 A few other new features Changes: https://github.com/pachterlab/kallisto/releases Reported by: portscout --- biology/kallisto/Makefile | 3 +-- biology/kallisto/distinfo | 6 +++--- biology/kallisto/files/patch-src_main.cpp | 10 ++++++++++ 3 files changed, 14 insertions(+), 5 deletions(-) diff --git a/biology/kallisto/Makefile b/biology/kallisto/Makefile index 4ae2b8bd94ec..8774208d9097 100644 --- a/biology/kallisto/Makefile +++ b/biology/kallisto/Makefile @@ -1,7 +1,6 @@ PORTNAME= kallisto DISTVERSIONPREFIX= v -DISTVERSION= 0.50.0 -PORTREVISION= 2 +DISTVERSION= 0.50.1 PORTEPOCH= 1 CATEGORIES= biology diff --git a/biology/kallisto/distinfo b/biology/kallisto/distinfo index e216bb4ae394..f01c0d8e6e1c 100644 --- a/biology/kallisto/distinfo +++ b/biology/kallisto/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1688395958 -SHA256 (pachterlab-kallisto-v0.50.0_GH0.tar.gz) = f9cc0058d08206cb6dde4a4dcaf8a778df5a939a6e021508eea9b00b0d6d5368 -SIZE (pachterlab-kallisto-v0.50.0_GH0.tar.gz) = 5939018 +TIMESTAMP = 1698923323 +SHA256 (pachterlab-kallisto-v0.50.1_GH0.tar.gz) = 030752bab3b0e33cd3f23f6d8feddd74194e5513532ffbf23519e84db2a86d34 +SIZE (pachterlab-kallisto-v0.50.1_GH0.tar.gz) = 5947303 diff --git a/biology/kallisto/files/patch-src_main.cpp b/biology/kallisto/files/patch-src_main.cpp new file mode 100644 index 000000000000..2eadc428781c --- /dev/null +++ b/biology/kallisto/files/patch-src_main.cpp @@ -0,0 +1,10 @@ +--- src/main.cpp.orig 2023-11-02 11:38:09 UTC ++++ src/main.cpp +@@ -11,6 +11,7 @@ + #include + + #include ++#include // rmdir() + + #include "common.h" + #include "ProcessReads.h"