[pkgsrc/trunk]: pkgsrc/biology/minimap2 biology/minimap2: install minimap2 pr...

[brook <brook%pkgsrc.org@localhost>]

details:   https://anonhg.NetBSD.org/pkgsrc/rev/ac761c6e0f67
branches:  trunk
changeset: 453411:ac761c6e0f67
user:      brook <brook%pkgsrc.org@localhost>
date:      Sat May 29 17:35:18 2021 +0000

description:
biology/minimap2: install minimap2 program instead of python binding

The distfile for minimap2 includes two different components: (i) the
minimap2 sequence mapping program itself, and (ii) a python binding
generally referred to as mappy.  The initial version of this package
included only the python binding.  However, it is more appropriate
that the minimap2 package should contain the program of the same name,
and a new package be created with the name mappy for the python
binding.  Splitting these into two packages makes sense, because this
allows users to install the minimap2 package without python
dependencies.

diffstat:

 biology/minimap2/Makefile |  20 +++++++++-----------
 biology/minimap2/PLIST    |  12 +++---------
 2 files changed, 12 insertions(+), 20 deletions(-)

diffs (58 lines):

diff -r b5a948688120 -r ac761c6e0f67 biology/minimap2/Makefile
--- a/biology/minimap2/Makefile Sat May 29 17:23:28 2021 +0000
+++ b/biology/minimap2/Makefile Sat May 29 17:35:18 2021 +0000
@@ -1,29 +1,27 @@
-# $NetBSD: Makefile,v 1.1 2021/05/26 18:49:20 brook Exp $
+# $NetBSD: Makefile,v 1.2 2021/05/29 17:35:18 brook Exp $
 
 GITHUB_PROJECT=        minimap2
 GITHUB_TAG=    refs/tags/v2.18
 DISTNAME=      v2.18
 PKGNAME=       ${GITHUB_PROJECT}-${DISTNAME:S,^v,,}
+PKGREVISION=   1
 CATEGORIES=    biology python
 MASTER_SITES=  ${MASTER_SITE_GITHUB:=lh3/}
 DIST_SUBDIR=   ${GITHUB_PROJECT}
 
 MAINTAINER=    pkgsrc-users%NetBSD.org@localhost
 HOMEPAGE=      https://github.com/lh3/minimap2
-COMMENT=       Minimap2 python binding
+COMMENT=       Sequence alignment program for noisy, long reads
 LICENSE=       mit
 
 WRKSRC=                ${WRKDIR}/minimap2-2.18
 USE_TOOLS+=    gmake
 
-INSTALLATION_DIRS+=    share/examples/minimap2
-
-post-install:
-       ${INSTALL_DATA} ${WRKSRC}/README.md ${DESTDIR}${PREFIX}/share/examples/minimap2
-       ${INSTALL_DATA} ${WRKSRC}/cookbook.md ${DESTDIR}${PREFIX}/share/examples/minimap2
+INSTALLATION_DIRS+=    bin ${PKGMANDIR}/man1
 
-BUILDLINK_DEPENDS.py-cython+=  build
-BUILDLINK_API_DEPENDS.py-cython+=      ${PYPKGPREFIX}-cython>=0.29.23
-.include "../../devel/py-cython/buildlink3.mk"
-.include "../../lang/python/egg.mk"
+do-install:
+       ${INSTALL} ${WRKSRC}/minimap2 ${DESTDIR}${PREFIX}/bin
+       ${INSTALL_DATA} ${WRKSRC}/minimap2.1 ${DESTDIR}${PREFIX}/${PKGMANDIR}/man1
+
+.include "../../devel/zlib/buildlink3.mk"
 .include "../../mk/bsd.pkg.mk"
diff -r b5a948688120 -r ac761c6e0f67 biology/minimap2/PLIST
--- a/biology/minimap2/PLIST    Sat May 29 17:23:28 2021 +0000
+++ b/biology/minimap2/PLIST    Sat May 29 17:35:18 2021 +0000
@@ -1,9 +1,3 @@
-@comment $NetBSD: PLIST,v 1.1 2021/05/26 18:49:20 brook Exp $
-bin/minimap2.py
-${PYSITELIB}/mappy-${PKGVERSION}-py${PYVERSSUFFIX}.egg-info/PKG-INFO
-${PYSITELIB}/mappy-${PKGVERSION}-py${PYVERSSUFFIX}.egg-info/SOURCES.txt
-${PYSITELIB}/mappy-${PKGVERSION}-py${PYVERSSUFFIX}.egg-info/dependency_links.txt
-${PYSITELIB}/mappy-${PKGVERSION}-py${PYVERSSUFFIX}.egg-info/top_level.txt
-${PYSITELIB}/mappy.so
-share/examples/minimap2/README.md
-share/examples/minimap2/cookbook.md
+@comment $NetBSD: PLIST,v 1.2 2021/05/29 17:35:18 brook Exp $
+bin/minimap2
+man/man1/minimap2.1