vcf2hap: Resurrect and update to 0.1.6.7

[Jason W. Bacon <bacon%NetBSD.org@localhost>]

Module Name:	pkgsrc-wip
Committed By:	Jason W. Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Tue Oct 24 07:22:30 2023 -0500
Changeset:	8cee697ea7772f86b748b1934635a83ae9fe68ae

Modified Files:
	Makefile
Added Files:
	vcf2hap/DESCR
	vcf2hap/Makefile
	vcf2hap/PLIST
	vcf2hap/distinfo

Log Message:
vcf2hap: Resurrect and update to 0.1.6.7

Updates for latest libxtend API

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=8cee697ea7772f86b748b1934635a83ae9fe68ae

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 Makefile         |  1 +
 vcf2hap/DESCR    |  4 ++++
 vcf2hap/Makefile | 22 ++++++++++++++++++++++
 vcf2hap/PLIST    |  3 +++
 vcf2hap/distinfo |  5 +++++
 5 files changed, 35 insertions(+)

diffs:
diff --git a/Makefile b/Makefile
index 12c8223e3c..3ba98d64db 100644
--- a/Makefile
+++ b/Makefile
@@ -5521,6 +5521,7 @@ SUBDIR+=	varnish-slash
 SUBDIR+=	vault
 SUBDIR+=	vaultwarden-web-vault
 SUBDIR+=	vcf-split
+SUBDIR+=	vcf2hap
 SUBDIR+=	vcflib
 SUBDIR+=	vcftools
 SUBDIR+=	vcg
diff --git a/vcf2hap/DESCR b/vcf2hap/DESCR
new file mode 100644
index 0000000000..0d3f7bc3d8
--- /dev/null
+++ b/vcf2hap/DESCR
@@ -0,0 +1,4 @@
+vcf2hap is a simple tool for generating a .hap file from a VCF. The .hap file
+is required by haplohseq.
+vcf2hap is extremely fast and requires a trivial amount of memory regardless of
+the size of the VCF file.
diff --git a/vcf2hap/Makefile b/vcf2hap/Makefile
new file mode 100644
index 0000000000..d0f45de3be
--- /dev/null
+++ b/vcf2hap/Makefile
@@ -0,0 +1,22 @@
+# $NetBSD$
+
+DISTNAME=	vcf2hap-0.1.6.7
+CATEGORIES=	biology
+MASTER_SITES=	${MASTER_SITE_GITHUB:=auerlab/}
+GITHUB_TAG=	2cc4a97bb3b08e1c336578b36af5970ce98c931a
+
+OWNER=		bacon%NetBSD.org@localhost
+HOMEPAGE=	https://github.com/auerlab/vcf2hap
+COMMENT=	Generate .hap file from VCF for haplohseq
+LICENSE=	2-clause-bsd
+
+MAKE_ENV+=	VERSION=${PKGVERSION}
+
+pre-build:
+	cd ${WRKSRC} && ${MAKE} PREFIX=${PREFIX} depend
+
+do-test:
+	cd ${WRKSRC}/Test && ./run-test.sh
+
+.include "../../wip/biolibc/buildlink3.mk"
+.include "../../mk/bsd.pkg.mk"
diff --git a/vcf2hap/PLIST b/vcf2hap/PLIST
new file mode 100644
index 0000000000..ef09c14235
--- /dev/null
+++ b/vcf2hap/PLIST
@@ -0,0 +1,3 @@
+@comment $NetBSD$
+bin/vcf2hap
+man/man1/vcf2hap.1
diff --git a/vcf2hap/distinfo b/vcf2hap/distinfo
new file mode 100644
index 0000000000..e3eaa4d780
--- /dev/null
+++ b/vcf2hap/distinfo
@@ -0,0 +1,5 @@
+$NetBSD$
+
+BLAKE2s (vcf2hap-0.1.6.7-2cc4a97bb3b08e1c336578b36af5970ce98c931a.tar.gz) = 66fde28214ca9dfd9833d178893c414c607d881fcafd368191034dc9dab34f3b
+SHA512 (vcf2hap-0.1.6.7-2cc4a97bb3b08e1c336578b36af5970ce98c931a.tar.gz) = 921b4272c7523803831f3d16879eeea4ce5e3903c9ff69596aa6b3eb94b61df8ab4b1b0f03e7b904749ae3579e6f9cf364edfb998c22bf839a766c0de3654aa9
+Size (vcf2hap-0.1.6.7-2cc4a97bb3b08e1c336578b36af5970ce98c931a.tar.gz) = 201287 bytes