biology: align variable assignments

pkglint -Wall -F --only aligned --only indent -r

10 files changed, 33 insertions, 33 deletions

diff --git a/biology/bcftools/Makefile b/biology/bcftools/Makefile
index 226f9e7aa46..5d794feea7a 100644
--- a/biology/bcftools/Makefile
+++ b/biology/bcftools/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.4 2019/08/11 13:17:59 wiz Exp $
+# $NetBSD: Makefile,v 1.5 2019/11/02 22:09:00 rillig Exp $
 
 DISTNAME=	bcftools-1.9
 PKGREVISION=	2
@@ -17,7 +17,7 @@ GNU_CONFIGURE=		yes
 CONFIGURE_ARGS+=	--with-htslib=system
 TEST_TARGET=		test
 
-BUILDLINK_TRANSFORM+=   opt:-ldl:${BUILDLINK_LDADD.dl:M*}
+BUILDLINK_TRANSFORM+=	opt:-ldl:${BUILDLINK_LDADD.dl:M*}
 
 REPLACE_PERL+=		misc/*.pl
 REPLACE_PERL+=		misc/plot-vcfstats
diff --git a/biology/bioperl/Makefile b/biology/bioperl/Makefile
index 2cd33b418f7..5284edd665d 100644
--- a/biology/bioperl/Makefile
+++ b/biology/bioperl/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.37 2019/08/11 13:17:59 wiz Exp $
+# $NetBSD: Makefile,v 1.38 2019/11/02 22:09:00 rillig Exp $
 
 DISTNAME=	BioPerl-1.007002
 PKGNAME=	${DISTNAME:tl}
@@ -12,7 +12,7 @@ COMMENT=	Perl tools for computational molecular biology
 LICENSE=	${PERL5_LICENSE}
 
 #BUILD_DEPENDS+=	{perl>=5.19.6,p5-Module-Build>0.42}:../../devel/p5-Module-Build
-BUILD_DEPENDS+=	p5-Test-Most-[0-9]*:../../devel/p5-Test-Most
+BUILD_DEPENDS+=		p5-Test-Most-[0-9]*:../../devel/p5-Test-Most
 
 DEPENDS+=	p5-Algorithm-Munkres-[0-9]*:../../math/p5-Algorithm-Munkres
 DEPENDS+=	p5-Array-Compare-[0-9]*:../../devel/p5-Array-Compare
diff --git a/biology/bwa/Makefile b/biology/bwa/Makefile
index 27ce3d6578a..62c1b110825 100644
--- a/biology/bwa/Makefile
+++ b/biology/bwa/Makefile
@@ -1,9 +1,9 @@
-# $NetBSD: Makefile,v 1.8 2019/08/11 13:17:59 wiz Exp $
+# $NetBSD: Makefile,v 1.9 2019/11/02 22:09:00 rillig Exp $
 
 DISTNAME=	bwa-0.7.17
 CATEGORIES=	biology
 PKGREVISION=	3
-GITHUB_TAG=     v${PKGVERSION_NOREV}
+GITHUB_TAG=	v${PKGVERSION_NOREV}
 MASTER_SITES=	${MASTER_SITE_GITHUB:=lh3/}
 
 MAINTAINER=	bacon@NetBSD.org
diff --git a/biology/gnome-chemistry-utils/Makefile b/biology/gnome-chemistry-utils/Makefile
index 050508ce786..2741d0cc4b6 100644
--- a/biology/gnome-chemistry-utils/Makefile
+++ b/biology/gnome-chemistry-utils/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.40 2019/08/11 13:18:00 wiz Exp $
+# $NetBSD: Makefile,v 1.41 2019/11/02 22:09:00 rillig Exp $
 #
 
 DISTNAME=	gnome-chemistry-utils-0.12.13
@@ -22,8 +22,8 @@ GCONF_SCHEMAS+=	gchempaint-arrows.schemas
 GCONF_SCHEMAS+=	gcrystal.schemas
 GCONF_SCHEMAS+=	gchempaint.schemas
 
-BUILDLINK_TRANSFORM+=rm:-DGTK_DISABLE_DEPRECATED
-BUILDLINK_TRANSFORM+=rm:-ldl
+BUILDLINK_TRANSFORM+=	rm:-DGTK_DISABLE_DEPRECATED
+BUILDLINK_TRANSFORM+=	rm:-ldl
 
 CONFIGURE_ARGS+=	--disable-update-databases
 
diff --git a/biology/gromacs/Makefile b/biology/gromacs/Makefile
index 11a84a9d4ed..ad7cb68e622 100644
--- a/biology/gromacs/Makefile
+++ b/biology/gromacs/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.18 2019/08/11 13:18:00 wiz Exp $
+# $NetBSD: Makefile,v 1.19 2019/11/02 22:09:00 rillig Exp $
 #
 
 DISTNAME=		gromacs-4.5.5
@@ -28,7 +28,7 @@ CONFIGURE_ARGS+=	--disable-gcc41-check
 USE_TOOLS+=		perl:run
 REPLACE_PERL=		scripts/demux.pl scripts/xplor2gmx.pl
 
-CHECK_INTERPRETER_SKIP+= share/gromacs/tutor/gmxdemo/demo
+CHECK_INTERPRETER_SKIP+=	share/gromacs/tutor/gmxdemo/demo
 
 .include "../../mk/bsd.prefs.mk"
 
diff --git a/biology/gromacs/options.mk b/biology/gromacs/options.mk
index c0e3f3653e8..96fd436aa1d 100644
--- a/biology/gromacs/options.mk
+++ b/biology/gromacs/options.mk
@@ -1,4 +1,4 @@
-# $NetBSD: options.mk,v 1.2 2010/05/16 12:04:03 asau Exp $
+# $NetBSD: options.mk,v 1.3 2019/11/02 22:09:00 rillig Exp $
 
 PKG_OPTIONS_VAR=		PKG_OPTIONS.gromacs
 PKG_SUPPORTED_OPTIONS+=		mpi x11
@@ -20,7 +20,7 @@ PLIST_SUBST+=		MPI=
 # X support:
 .if !empty(PKG_OPTIONS:Mx11)
 CONFIGURE_ARGS+=	--with-x
-PLIST.x11=	yes
+PLIST.x11=		yes
 
 .include "../../x11/libX11/buildlink3.mk"
 .include "../../x11/libICE/buildlink3.mk"
diff --git a/biology/mpqc/Makefile b/biology/mpqc/Makefile
index bf6d7574692..31e6397049d 100644
--- a/biology/mpqc/Makefile
+++ b/biology/mpqc/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.15 2019/08/11 13:18:00 wiz Exp $
+# $NetBSD: Makefile,v 1.16 2019/11/02 22:09:00 rillig Exp $
 
 DISTNAME=	mpqc-2.3.1
 PKGREVISION=	8
@@ -10,14 +10,14 @@ MAINTAINER=	asau@inbox.ru
 HOMEPAGE=	http://www.mpqc.org/
 COMMENT=	The Massively Parallel Quantum Chemistry Program
 
-USE_LANGUAGES=	c c++ fortran77
-PKGSRC_FORTRAN=	f2c # XXX force f2c for now
-GNU_CONFIGURE=	yes
+USE_LANGUAGES=		c c++ fortran77
+PKGSRC_FORTRAN=		f2c # XXX force f2c for now
+GNU_CONFIGURE=		yes
 CONFIGURE_ARGS+=	--with-libdirs="-L${PREFIX}/lib ${COMPILER_RPATH_FLAG}${PREFIX}/lib"	# fixme
 #CONFIGURE_ARGS=	-without-f77	# this doesn't work out of the box
-CONFIGURE_ENV=	ac_cv_prog_WISH=${REPLACE.wish.new}
-USE_TOOLS+=	perl:run
-USE_LIBTOOL=	yes
+CONFIGURE_ENV=		ac_cv_prog_WISH=${REPLACE.wish.new}
+USE_TOOLS+=		perl:run
+USE_LIBTOOL=		yes
 
 USE_TOOLS+=	gmake
 BUILD_TARGET=	default
@@ -28,7 +28,7 @@ INSTALL_MAKE_FLAGS=	installroot=${DESTDIR}
 REPLACE_PERL=	src/bin/mpqc/ccarun.in src/bin/mpqc/mpqcrun.in
 
 # Don't introduce Tk dependency for minor things, just leave a hook:
-REPLACE_WISH=	src/bin/molrender/tkmolrender.in
+REPLACE_WISH=		src/bin/molrender/tkmolrender.in
 CHECK_INTERPRETER_SKIP=	bin/tkmolrender
 
 # optional:
diff --git a/biology/ncbi-blast+/Makefile b/biology/ncbi-blast+/Makefile
index f92396e7bb6..3bb2a33442c 100644
--- a/biology/ncbi-blast+/Makefile
+++ b/biology/ncbi-blast+/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.11 2019/08/11 13:18:00 wiz Exp $
+# $NetBSD: Makefile,v 1.12 2019/11/02 22:09:00 rillig Exp $
 
 DISTNAME=	ncbi-blast-2.8.1+-src
 PKGNAME=	${DISTNAME:S/+-src//:S/blast/blast+/}
@@ -21,14 +21,14 @@ SUBST_SED.configure+=	-e '/--infodir=DIR/d'
 SUBST_SED.configure+=	-e '/--mandir=DIR/d'
 SUBST_FILES.configure+=	${WRKSRC}/src/build-system/configure
 
-USE_TOOLS+=	bash gmake perl
-USE_LANGUAGES=	c c++
-GNU_CONFIGURE=	yes
+USE_TOOLS+=		bash gmake perl
+USE_LANGUAGES=		c c++
+GNU_CONFIGURE=		yes
 GNU_CONFIGURE_STRICT=	no	# doesn't know --enable-option-checking
-REPLACE_BASH=	scripts/common/impl/define_random_macros.sh
-REPLACE_BASH+=	src/app/blast/get_species_taxids.sh
-REPLACE_PERL=	src/app/blast/legacy_blast.pl src/app/blast/update_blastdb.pl
-REPLACE_PYTHON=	src/app/winmasker/windowmasker_2.2.22_adapter.py
+REPLACE_BASH=		scripts/common/impl/define_random_macros.sh
+REPLACE_BASH+=		src/app/blast/get_species_taxids.sh
+REPLACE_PERL=		src/app/blast/legacy_blast.pl src/app/blast/update_blastdb.pl
+REPLACE_PYTHON=		src/app/winmasker/windowmasker_2.2.22_adapter.py
 
 # The test for amq can hang, but amq is not needed so just avoid the test
 # configure chooses /usr/local/bin/ar with no flags
diff --git a/biology/phylip/Makefile b/biology/phylip/Makefile
index cdfbaa7ed46..fd3c9fe0494 100644
--- a/biology/phylip/Makefile
+++ b/biology/phylip/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.24 2012/09/11 20:32:13 asau Exp $
+# $NetBSD: Makefile,v 1.25 2019/11/02 22:09:01 rillig Exp $
 
 DISTNAME=	phylip-3.69
 CATEGORIES=	biology
@@ -7,7 +7,7 @@ MASTER_SITES=	ftp://evolution.genetics.washington.edu/pub/phylip/
 MAINTAINER=	babafou@babafou.eu.org
 HOMEPAGE=	http://evolution.genetics.washington.edu/phylip.html
 COMMENT=	Phylogeny Inference Package
-LICENSE=		phylip-license
+LICENSE=	phylip-license
 
 RESTRICTED=		Distribution permitted only if no fee is charged.
 NO_SRC_ON_CDROM=	${RESTRICTED}
diff --git a/biology/puzzle/Makefile b/biology/puzzle/Makefile
index 9fa4eccee2e..3cc84f1dad2 100644
--- a/biology/puzzle/Makefile
+++ b/biology/puzzle/Makefile
@@ -1,4 +1,4 @@
-# $NetBSD: Makefile,v 1.14 2013/04/01 08:56:43 sbd Exp $
+# $NetBSD: Makefile,v 1.15 2019/11/02 22:09:01 rillig Exp $
 
 DISTNAME=	tree-puzzle-5.2
 PKGNAME=	${DISTNAME:S/^tree-//}
@@ -11,7 +11,7 @@ COMMENT=	Maximum likelihood analysis of molecular sequence data
 LICENSE=	gnu-gpl-v2
 
 GNU_CONFIGURE=	yes
-MAKE_JOBS_SAFE= no
+MAKE_JOBS_SAFE=	no
 
 INSTALLATION_DIRS=	share/doc/puzzle \
 			share/examples/puzzle