biolibc: Update to 0.2.1.38

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

Module Name:	pkgsrc-wip
Committed By:	Jason Bacon <bacon%NetBSD.org@localhost>
Pushed By:	outpaddling
Date:		Mon Feb 7 09:10:33 2022 -0600
Changeset:	efe1063f8a9762b67395eee8eb57e6f52b5f8a0b

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

Log Message:
biolibc: Update to 0.2.1.38

Import gff_index_t from microsynteny-tools
Regenerate fastx_t accessors and mutators with auto-gen-get-set that
can handle anonymous unions

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=efe1063f8a9762b67395eee8eb57e6f52b5f8a0b

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

diffstat:
 biolibc/Makefile      |  4 ++--
 biolibc/PLIST         | 32 ++++++++++++++++++++++++++++++--
 biolibc/buildlink3.mk |  2 +-
 biolibc/distinfo      |  6 +++---
 4 files changed, 36 insertions(+), 8 deletions(-)

diffs:
diff --git a/biolibc/Makefile b/biolibc/Makefile
index ee3d243049..7b4e4fff7b 100644
--- a/biolibc/Makefile
+++ b/biolibc/Makefile
@@ -1,9 +1,9 @@
 # $NetBSD$
 
-DISTNAME=	biolibc-0.2.1.36
+DISTNAME=	biolibc-0.2.1.38
 CATEGORIES=	biology
 MASTER_SITES=	${MASTER_SITE_GITHUB:=auerlab/}
-GITHUB_TAG=	0033e9cf9f6860b99ec17cf71adb46d407e6a763
+GITHUB_TAG=	b9b397f0e1f42324f80edd03ec897663d748cdeb
 
 MAINTAINER=	bacon%NetBSD.org@localhost
 HOMEPAGE=	https://github.com/auerlab/biolibc
diff --git a/biolibc/PLIST b/biolibc/PLIST
index 88f56556cb..cb01d62f50 100644
--- a/biolibc/PLIST
+++ b/biolibc/PLIST
@@ -22,6 +22,10 @@ include/biolibc/fastx-mutators.h
 include/biolibc/fastx-rvs.h
 include/biolibc/fastx.h
 include/biolibc/gff-accessors.h
+include/biolibc/gff-index-accessors.h
+include/biolibc/gff-index-mutators.h
+include/biolibc/gff-index-rvs.h
+include/biolibc/gff-index.h
 include/biolibc/gff-mutators.h
 include/biolibc/gff-rvs.h
 include/biolibc/gff.h
@@ -107,6 +111,16 @@ man/man3/BL_GFF_FEATURE_ID_AE.3
 man/man3/BL_GFF_FEATURE_NAME.3
 man/man3/BL_GFF_FEATURE_NAME_AE.3
 man/man3/BL_GFF_FILE_POS.3
+man/man3/BL_GFF_INDEX_ARRAY_SIZE.3
+man/man3/BL_GFF_INDEX_COUNT.3
+man/man3/BL_GFF_INDEX_END.3
+man/man3/BL_GFF_INDEX_END_AE.3
+man/man3/BL_GFF_INDEX_FILE_POS.3
+man/man3/BL_GFF_INDEX_FILE_POS_AE.3
+man/man3/BL_GFF_INDEX_SEQID.3
+man/man3/BL_GFF_INDEX_SEQID_AE.3
+man/man3/BL_GFF_INDEX_START.3
+man/man3/BL_GFF_INDEX_START_AE.3
 man/man3/BL_GFF_PHASE.3
 man/man3/BL_GFF_SCORE.3
 man/man3/BL_GFF_SEQID.3
@@ -289,12 +303,26 @@ man/man3/bl_fastx_seq_len.3
 man/man3/bl_fastx_set_fasta.3
 man/man3/bl_fastx_set_fastq.3
 man/man3/bl_fastx_set_format.3
-man/man3/bl_fastx_set_union.3
-man/man3/bl_fastx_set_}.3
 man/man3/bl_fastx_write.3
 man/man3/bl_gff_copy_header.3
 man/man3/bl_gff_extract_attribute.3
 man/man3/bl_gff_free.3
+man/man3/bl_gff_index_add.3
+man/man3/bl_gff_index_seek_reverse.3
+man/man3/bl_gff_index_set_array_size.3
+man/man3/bl_gff_index_set_count.3
+man/man3/bl_gff_index_set_end.3
+man/man3/bl_gff_index_set_end_ae.3
+man/man3/bl_gff_index_set_end_cpy.3
+man/man3/bl_gff_index_set_file_pos.3
+man/man3/bl_gff_index_set_file_pos_ae.3
+man/man3/bl_gff_index_set_file_pos_cpy.3
+man/man3/bl_gff_index_set_seqid.3
+man/man3/bl_gff_index_set_seqid_ae.3
+man/man3/bl_gff_index_set_seqid_cpy.3
+man/man3/bl_gff_index_set_start.3
+man/man3/bl_gff_index_set_start_ae.3
+man/man3/bl_gff_index_set_start_cpy.3
 man/man3/bl_gff_read.3
 man/man3/bl_gff_set_attributes.3
 man/man3/bl_gff_set_attributes_ae.3
diff --git a/biolibc/buildlink3.mk b/biolibc/buildlink3.mk
index ee9885b099..fc3ae55803 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>=0.2.1.36
+BUILDLINK_API_DEPENDS.biolibc+=	biolibc>=0.2.1.38
 BUILDLINK_PKGSRCDIR.biolibc?=	../../wip/biolibc
 
 .include "../../wip/libxtend/buildlink3.mk"
diff --git a/biolibc/distinfo b/biolibc/distinfo
index b245f32ef6..33d79f689d 100644
--- a/biolibc/distinfo
+++ b/biolibc/distinfo
@@ -1,5 +1,5 @@
 $NetBSD$
 
-BLAKE2s (biolibc-0.2.1.36-0033e9cf9f6860b99ec17cf71adb46d407e6a763.tar.gz) = 931efb281380289d4d75cfc72f1ae10860f7bbb4975dd9290e2d50bac3f395dd
-SHA512 (biolibc-0.2.1.36-0033e9cf9f6860b99ec17cf71adb46d407e6a763.tar.gz) = eb453598ad9e9fa18e0f1765216e7e395b256a4605d6ba5ea6d5e34f5fd33ff60501fbf8dff6b559c9ce0164d450b48acd5f79f6ceb7b2adcc2527e3d6842363
-Size (biolibc-0.2.1.36-0033e9cf9f6860b99ec17cf71adb46d407e6a763.tar.gz) = 123795 bytes
+BLAKE2s (biolibc-0.2.1.38-b9b397f0e1f42324f80edd03ec897663d748cdeb.tar.gz) = bce992881100987fd5281f4be886cad1bbdafe98633726d2b92b5570011c03ec
+SHA512 (biolibc-0.2.1.38-b9b397f0e1f42324f80edd03ec897663d748cdeb.tar.gz) = f3c72a8c1da7e6a5da9b40b202d83f741bd2fce9437d22c4e4a8a0a89110a776f21e91308fe79fdead78f77e9b72fd7d3118c7b73102bd99a85fb5106a37a030
+Size (biolibc-0.2.1.38-b9b397f0e1f42324f80edd03ec897663d748cdeb.tar.gz) = 130274 bytes