From nobody Wed Oct 13 12:56:28 2021 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 9EBFF17F415C; Wed, 13 Oct 2021 12:56:28 +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 4HTswr447Xz4kQ5; Wed, 13 Oct 2021 12:56:28 +0000 (UTC) (envelope-from git@FreeBSD.org) 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 6BC52280BC; Wed, 13 Oct 2021 12:56:28 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from gitrepo.freebsd.org ([127.0.1.44]) by gitrepo.freebsd.org (8.16.1/8.16.1) with ESMTP id 19DCuS6K050486; Wed, 13 Oct 2021 12:56:28 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 19DCuS1Q050485; Wed, 13 Oct 2021 12:56:28 GMT (envelope-from git) Date: Wed, 13 Oct 2021 12:56:28 GMT Message-Id: <202110131256.19DCuS1Q050485@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: d92344039b43 - main - biology/py-py2bit: Python interface for 2bit packed nucleotide files 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: d92344039b4350674d959be16d5a2cfe07f87172 Auto-Submitted: auto-generated X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=d92344039b4350674d959be16d5a2cfe07f87172 commit d92344039b4350674d959be16d5a2cfe07f87172 Author: Jason W. Bacon AuthorDate: 2021-10-13 12:53:09 +0000 Commit: Jason W. Bacon CommitDate: 2021-10-13 12:53:53 +0000 biology/py-py2bit: Python interface for 2bit packed nucleotide files py2bit is a python extension, written in C, for quick access to 2bit files for randomly accessible, packed nucleotide sequences. The extension uses lib2bit for file access. --- biology/Makefile | 1 + biology/py-py2bit/Makefile | 16 ++++++++++++++++ biology/py-py2bit/distinfo | 3 +++ biology/py-py2bit/pkg-descr | 5 +++++ 4 files changed, 25 insertions(+) diff --git a/biology/Makefile b/biology/Makefile index c779368ef1d2..3f2fb1f06f13 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -159,6 +159,7 @@ SUBDIR += py-orange3-bioinformatics SUBDIR += py-orange3-single-cell SUBDIR += py-pandas-charm + SUBDIR += py-py2bit SUBDIR += py-pyfaidx SUBDIR += py-pysam SUBDIR += py-python-libsbml diff --git a/biology/py-py2bit/Makefile b/biology/py-py2bit/Makefile new file mode 100644 index 000000000000..7295e91ed18f --- /dev/null +++ b/biology/py-py2bit/Makefile @@ -0,0 +1,16 @@ +PORTNAME= py2bit +DISTVERSION= 0.3.0 +CATEGORIES= biology python +MASTER_SITES= CHEESESHOP +PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} + +MAINTAINER= jwb@FreeBSD.org +COMMENT= Python interface for 2bit packed nucleotide files + +LICENSE= MIT +LICENSE_FILE= ${WRKSRC}/LICENSE.txt + +USES= python +USE_PYTHON= autoplist distutils + +.include diff --git a/biology/py-py2bit/distinfo b/biology/py-py2bit/distinfo new file mode 100644 index 000000000000..a797a50f82d2 --- /dev/null +++ b/biology/py-py2bit/distinfo @@ -0,0 +1,3 @@ +TIMESTAMP = 1617287956 +SHA256 (py2bit-0.3.0.tar.gz) = 450555c40cba66957ac8c9a4b6afb625fb34c4bb41638de78c87661ff8b682ef +SIZE (py2bit-0.3.0.tar.gz) = 16010 diff --git a/biology/py-py2bit/pkg-descr b/biology/py-py2bit/pkg-descr new file mode 100644 index 000000000000..f6a726605c5e --- /dev/null +++ b/biology/py-py2bit/pkg-descr @@ -0,0 +1,5 @@ +py2bit is a python extension, written in C, for quick access to 2bit +files for randomly accessible, packed nucleotide sequences. The +extension uses lib2bit for file access. + +WWW: https://github.com/deeptools/py2bit