biolibc: Update to 0.2.5.2

[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 Sep 5 15:27:44 2023 -0500
Changeset:	78b1aeb6f728052b876dc6a46d51bbab31ab7a8c

Modified Files:
	biolibc/DESCR
	biolibc/Makefile
	biolibc/PLIST
	biolibc/buildlink3.mk
	biolibc/distinfo

Log Message:
biolibc: Update to 0.2.5.2

Add NAME section to all man pages
Add full list of functions to biolibc.3
Add functions.html, listing functions on Github page

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=78b1aeb6f728052b876dc6a46d51bbab31ab7a8c

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

diffstat:
 biolibc/DESCR         | 11 ++++++-----
 biolibc/Makefile      |  3 ++-
 biolibc/PLIST         |  3 +++
 biolibc/buildlink3.mk |  2 +-
 biolibc/distinfo      |  6 +++---
 5 files changed, 15 insertions(+), 10 deletions(-)

diffs:
diff --git a/biolibc/DESCR b/biolibc/DESCR
index 73004372d4..925c111599 100644
--- a/biolibc/DESCR
+++ b/biolibc/DESCR
@@ -1,5 +1,6 @@
-Biolibc is a library of fast, memory-efficient, low-level functions for
-processing biological data.  Like libc, it consists of numerous disparate,
-general-purpose functions which could be used by a wide variety of
-applications.  These include functions for streaming common file formats such
-as SAM and VCF, string functions specific to bioinformatics, etc.
+Biolibc is a library of fast, memory-efficient, low-level functions
+for processing biological data.  Like libc, it consists of numerous
+disparate, general-purpose functions which could be used by a wide
+variety of applications.  These include functions for streaming
+common file formats such as SAM and VCF, string functions specific
+to bioinformatics, etc.
diff --git a/biolibc/Makefile b/biolibc/Makefile
index ddcc3b97a8..a45d9e6ea0 100644
--- a/biolibc/Makefile
+++ b/biolibc/Makefile
@@ -1,8 +1,9 @@
 # $NetBSD$
 
-DISTNAME=	biolibc-0.2.5
+DISTNAME=	biolibc-0.2.5.2
 CATEGORIES=	biology
 MASTER_SITES=	${MASTER_SITE_GITHUB:=auerlab/}
+GITHUB_TAG=	ba00423c033788d006d4d185e0513b88a5538ddb
 
 OWNER=		bacon%NetBSD.org@localhost
 HOMEPAGE=	https://github.com/auerlab/biolibc
diff --git a/biolibc/PLIST b/biolibc/PLIST
index 22332d5eec..9e8a3c223f 100644
--- a/biolibc/PLIST
+++ b/biolibc/PLIST
@@ -241,6 +241,7 @@ man/man3/bl_align_map_seq_sub.3
 man/man3/bl_align_set_max_mismatch_percent.3
 man/man3/bl_align_set_min_match.3
 man/man3/bl_bed_check_order.3
+man/man3/bl_bed_gff3_cmp.3
 man/man3/bl_bed_gff_cmp.3
 man/man3/bl_bed_read.3
 man/man3/bl_bed_set_block_count.3
@@ -431,6 +432,8 @@ man/man3/bl_sam_copy_header.3
 man/man3/bl_sam_fclose.3
 man/man3/bl_sam_fopen.3
 man/man3/bl_sam_free.3
+man/man3/bl_sam_gff3_cmp.3
+man/man3/bl_sam_gff3_overlap.3
 man/man3/bl_sam_gff_cmp.3
 man/man3/bl_sam_gff_overlap.3
 man/man3/bl_sam_init.3
diff --git a/biolibc/buildlink3.mk b/biolibc/buildlink3.mk
index 8557d961e5..ea0ee467d8 100644
--- a/biolibc/buildlink3.mk
+++ b/biolibc/buildlink3.mk
@@ -5,7 +5,7 @@ BUILDLINK_TREE+=	biolibc
 .if !defined(BIOLIBC_BUILDLINK3_MK)
 BIOLIBC_BUILDLINK3_MK:=
 
-BUILDLINK_API_DEPENDS.biolibc+=	biolibc>=0.2.5
+BUILDLINK_API_DEPENDS.biolibc+=	biolibc>=0.2.5.2
 BUILDLINK_PKGSRCDIR.biolibc?=	../../wip/biolibc
 
 .include "../../wip/libxtend/buildlink3.mk"
diff --git a/biolibc/distinfo b/biolibc/distinfo
index abd24f1f2d..6bdc3362c4 100644
--- a/biolibc/distinfo
+++ b/biolibc/distinfo
@@ -1,5 +1,5 @@
 $NetBSD$
 
-BLAKE2s (biolibc-0.2.5.tar.gz) = ea2f46e8c6b26da34c2d10603ae1974e680e5df3a1ce8110235dc1afe1d24ec5
-SHA512 (biolibc-0.2.5.tar.gz) = 647d8b19d007775f140b4b2d23bc8048ee6896e34b2d046109c71b1be13955a79991bb7dfbda8887db852265825d18b58e16195173624efb9bd19e6d1f5d13ba
-Size (biolibc-0.2.5.tar.gz) = 141426 bytes
+BLAKE2s (biolibc-0.2.5.2-ba00423c033788d006d4d185e0513b88a5538ddb.tar.gz) = b4905aa1803ed06bc11a30d1f81b930488436c4fb8c16c4574920aacc66d9f25
+SHA512 (biolibc-0.2.5.2-ba00423c033788d006d4d185e0513b88a5538ddb.tar.gz) = c2596869db8b88b39310153f2b00025c6cec18bdf5cf14f5d93c87dda70499ee5b131c75b3eea57d3b47eb040e0e3410c72d55935817259c5545d799a775ea74
+Size (biolibc-0.2.5.2-ba00423c033788d006d4d185e0513b88a5538ddb.tar.gz) = 148485 bytes