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Restore deleted biolibc package
Module Name: pkgsrc-wip
Committed By: Jason Bacon <bacon%NetBSD.org@localhost>
Pushed By: outpaddling
Date: Wed May 17 07:53:53 2023 -0500
Changeset: 6b2ae8870e36fcdbc65fd8aa6e0e0fd21b6627a2
Modified Files:
Makefile
Added Files:
biolibc/DESCR
biolibc/Makefile
biolibc/PLIST
biolibc/buildlink3.mk
biolibc/distinfo
Log Message:
Restore deleted biolibc package
To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=6b2ae8870e36fcdbc65fd8aa6e0e0fd21b6627a2
Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.
diffstat:
Makefile | 1 +
biolibc/DESCR | 5 +
biolibc/Makefile | 27 +++
biolibc/PLIST | 525 ++++++++++++++++++++++++++++++++++++++++++++++++++
biolibc/buildlink3.mk | 14 ++
biolibc/distinfo | 5 +
6 files changed, 577 insertions(+)
diffs:
diff --git a/Makefile b/Makefile
index 0d93d6ba3c..a80819669d 100644
--- a/Makefile
+++ b/Makefile
@@ -276,6 +276,7 @@ SUBDIR+= bindgraph
SUBDIR+= binutils-git
SUBDIR+= binutils-gold-git
SUBDIR+= bio-mocha
+SUBDIR+= biolibc
SUBDIR+= biolibc-tools
SUBDIR+= bioruby
SUBDIR+= bip
diff --git a/biolibc/DESCR b/biolibc/DESCR
new file mode 100644
index 0000000000..73004372d4
--- /dev/null
+++ b/biolibc/DESCR
@@ -0,0 +1,5 @@
+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
new file mode 100644
index 0000000000..4236147e91
--- /dev/null
+++ b/biolibc/Makefile
@@ -0,0 +1,27 @@
+# $NetBSD$
+
+DISTNAME= biolibc-0.2.4
+CATEGORIES= biology
+MASTER_SITES= ${MASTER_SITE_GITHUB:=auerlab/}
+
+OWNER= bacon%NetBSD.org@localhost
+HOMEPAGE= https://github.com/auerlab/biolibc
+COMMENT= Low-level high-performance bioinformatics library
+LICENSE= 2-clause-bsd
+
+.include "../../mk/bsd.prefs.mk"
+
+.if ${OPSYS} == Darwin
+BUILD_TARGET= apple
+INSTALL_TARGET= apple-install
+.else
+INSTALL_TARGET= install-strip
+.endif
+
+MAKE_ENV+= DYLIB_PATH=${PREFIX}/lib MANDIR=${PREFIX}/${PKGMANDIR}
+
+pre-build:
+ cd ${WRKSRC} && ${MAKE} PREFIX=${PREFIX} depend
+
+.include "../../wip/libxtend/buildlink3.mk"
+.include "../../mk/bsd.pkg.mk"
diff --git a/biolibc/PLIST b/biolibc/PLIST
new file mode 100644
index 0000000000..52d0648646
--- /dev/null
+++ b/biolibc/PLIST
@@ -0,0 +1,525 @@
+@comment $NetBSD$
+include/biolibc/align-accessors.h
+include/biolibc/align-mutators.h
+include/biolibc/align-rvs.h
+include/biolibc/align.h
+include/biolibc/bed-accessors.h
+include/biolibc/bed-mutators.h
+include/biolibc/bed-rvs.h
+include/biolibc/bed.h
+include/biolibc/biolibc.h
+include/biolibc/biostring.h
+include/biolibc/fasta-accessors.h
+include/biolibc/fasta-mutators.h
+include/biolibc/fasta-rvs.h
+include/biolibc/fasta.h
+include/biolibc/fastq-accessors.h
+include/biolibc/fastq-mutators.h
+include/biolibc/fastq-rvs.h
+include/biolibc/fastq.h
+include/biolibc/fastx-accessors.h
+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
+include/biolibc/overlap-accessors.h
+include/biolibc/overlap-mutators.h
+include/biolibc/overlap-rvs.h
+include/biolibc/overlap.h
+include/biolibc/pos-list-accessors.h
+include/biolibc/pos-list-mutators.h
+include/biolibc/pos-list-rvs.h
+include/biolibc/pos-list.h
+include/biolibc/sam-accessors.h
+include/biolibc/sam-buff-accessors.h
+include/biolibc/sam-buff-mutators.h
+include/biolibc/sam-buff-rvs.h
+include/biolibc/sam-buff.h
+include/biolibc/sam-mutators.h
+include/biolibc/sam-rvs.h
+include/biolibc/sam.h
+include/biolibc/translate.h
+include/biolibc/vcf-accessors.h
+include/biolibc/vcf-mutators.h
+include/biolibc/vcf-rvs.h
+include/biolibc/vcf.h
+lib/libbiolibc.a
+lib/libbiolibc.so
+lib/libbiolibc.so.2
+lib/libbiolibc.so.2.0
+man/man3/BL_ALIGN_MAX_MISMATCH_PERCENT.3
+man/man3/BL_ALIGN_MIN_MATCH.3
+man/man3/BL_BED_BLOCK_COUNT.3
+man/man3/BL_BED_BLOCK_SIZES.3
+man/man3/BL_BED_BLOCK_SIZES_AE.3
+man/man3/BL_BED_BLOCK_STARTS.3
+man/man3/BL_BED_BLOCK_STARTS_AE.3
+man/man3/BL_BED_CHROM.3
+man/man3/BL_BED_CHROM_AE.3
+man/man3/BL_BED_CHROM_END.3
+man/man3/BL_BED_CHROM_START.3
+man/man3/BL_BED_FIELDS.3
+man/man3/BL_BED_ITEM_RGB.3
+man/man3/BL_BED_ITEM_RGB_AE.3
+man/man3/BL_BED_NAME.3
+man/man3/BL_BED_NAME_AE.3
+man/man3/BL_BED_SCORE.3
+man/man3/BL_BED_STRAND.3
+man/man3/BL_BED_THICK_END.3
+man/man3/BL_BED_THICK_START.3
+man/man3/BL_FASTA_DESC.3
+man/man3/BL_FASTA_DESC_AE.3
+man/man3/BL_FASTA_DESC_ARRAY_SIZE.3
+man/man3/BL_FASTA_DESC_LEN.3
+man/man3/BL_FASTA_SEQ.3
+man/man3/BL_FASTA_SEQ_AE.3
+man/man3/BL_FASTA_SEQ_ARRAY_SIZE.3
+man/man3/BL_FASTA_SEQ_LEN.3
+man/man3/BL_FASTQ_DESC.3
+man/man3/BL_FASTQ_DESC_AE.3
+man/man3/BL_FASTQ_DESC_ARRAY_SIZE.3
+man/man3/BL_FASTQ_DESC_LEN.3
+man/man3/BL_FASTQ_PLUS.3
+man/man3/BL_FASTQ_PLUS_AE.3
+man/man3/BL_FASTQ_PLUS_ARRAY_SIZE.3
+man/man3/BL_FASTQ_PLUS_LEN.3
+man/man3/BL_FASTQ_QUAL.3
+man/man3/BL_FASTQ_QUAL_AE.3
+man/man3/BL_FASTQ_QUAL_ARRAY_SIZE.3
+man/man3/BL_FASTQ_QUAL_LEN.3
+man/man3/BL_FASTQ_SEQ.3
+man/man3/BL_FASTQ_SEQ_AE.3
+man/man3/BL_FASTQ_SEQ_ARRAY_SIZE.3
+man/man3/BL_FASTQ_SEQ_LEN.3
+man/man3/BL_FASTX_FASTA.3
+man/man3/BL_FASTX_FASTQ.3
+man/man3/BL_FASTX_FORMAT.3
+man/man3/BL_FASTX_UNION.3
+man/man3/BL_FASTX_}.3
+man/man3/BL_GFF_ATTRIBUTES.3
+man/man3/BL_GFF_ATTRIBUTES_AE.3
+man/man3/BL_GFF_ATTRIBUTES_ARRAY_SIZE.3
+man/man3/BL_GFF_ATTRIBUTES_LEN.3
+man/man3/BL_GFF_END.3
+man/man3/BL_GFF_FEATURE_ID.3
+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_FEATURE_PARENT.3
+man/man3/BL_GFF_FEATURE_PARENT_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
+man/man3/BL_GFF_SEQID_AE.3
+man/man3/BL_GFF_SOURCE.3
+man/man3/BL_GFF_SOURCE_AE.3
+man/man3/BL_GFF_START.3
+man/man3/BL_GFF_STRAND.3
+man/man3/BL_GFF_TYPE.3
+man/man3/BL_GFF_TYPE_AE.3
+man/man3/BL_OVERLAP_FEATURE1_LEN.3
+man/man3/BL_OVERLAP_FEATURE2_LEN.3
+man/man3/BL_OVERLAP_OVERLAP_END.3
+man/man3/BL_OVERLAP_OVERLAP_LEN.3
+man/man3/BL_OVERLAP_OVERLAP_START.3
+man/man3/BL_POS_LIST_ARRAY_SIZE.3
+man/man3/BL_POS_LIST_COUNT.3
+man/man3/BL_POS_LIST_POSITIONS.3
+man/man3/BL_POS_LIST_POSITIONS_AE.3
+man/man3/BL_SAM_BUFF_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_ALIGNMENTS_AE.3
+man/man3/BL_SAM_BUFF_BUFFERED_COUNT.3
+man/man3/BL_SAM_BUFF_BUFF_SIZE.3
+man/man3/BL_SAM_BUFF_DISCARDED_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_DISCARDED_SCORE_SUM.3
+man/man3/BL_SAM_BUFF_DISCARDED_TRAILING.3
+man/man3/BL_SAM_BUFF_INC_DISCARDED_TRAILING.3
+man/man3/BL_SAM_BUFF_INC_TOTAL_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_INC_TRAILING_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_MAPQ_HIGH.3
+man/man3/BL_SAM_BUFF_MAPQ_LOW.3
+man/man3/BL_SAM_BUFF_MAPQ_MIN.3
+man/man3/BL_SAM_BUFF_MAPQ_SUM.3
+man/man3/BL_SAM_BUFF_MAX_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_MAX_COUNT.3
+man/man3/BL_SAM_BUFF_MAX_DISCARDED_SCORE.3
+man/man3/BL_SAM_BUFF_MIN_DISCARDED_SCORE.3
+man/man3/BL_SAM_BUFF_PREVIOUS_POS.3
+man/man3/BL_SAM_BUFF_PREVIOUS_RNAME.3
+man/man3/BL_SAM_BUFF_PREVIOUS_RNAME_AE.3
+man/man3/BL_SAM_BUFF_READS_USED.3
+man/man3/BL_SAM_BUFF_TOTAL_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_TRAILING_ALIGNMENTS.3
+man/man3/BL_SAM_BUFF_UNMAPPED_ALIGNMENTS.3
+man/man3/BL_SAM_CIGAR.3
+man/man3/BL_SAM_CIGAR_AE.3
+man/man3/BL_SAM_CIGAR_ARRAY_SIZE.3
+man/man3/BL_SAM_CIGAR_LEN.3
+man/man3/BL_SAM_FLAG.3
+man/man3/BL_SAM_MAPQ.3
+man/man3/BL_SAM_PNEXT.3
+man/man3/BL_SAM_POS.3
+man/man3/BL_SAM_QNAME.3
+man/man3/BL_SAM_QNAME_AE.3
+man/man3/BL_SAM_QUAL.3
+man/man3/BL_SAM_QUAL_AE.3
+man/man3/BL_SAM_QUAL_ARRAY_SIZE.3
+man/man3/BL_SAM_QUAL_LEN.3
+man/man3/BL_SAM_RNAME.3
+man/man3/BL_SAM_RNAME_AE.3
+man/man3/BL_SAM_RNEXT.3
+man/man3/BL_SAM_RNEXT_AE.3
+man/man3/BL_SAM_SEQ.3
+man/man3/BL_SAM_SEQ_AE.3
+man/man3/BL_SAM_SEQ_ARRAY_SIZE.3
+man/man3/BL_SAM_SEQ_LEN.3
+man/man3/BL_SAM_TLEN.3
+man/man3/BL_VCF_ALT.3
+man/man3/BL_VCF_ALT_AE.3
+man/man3/BL_VCF_ALT_COUNT.3
+man/man3/BL_VCF_CHROM.3
+man/man3/BL_VCF_CHROM_AE.3
+man/man3/BL_VCF_FILTER.3
+man/man3/BL_VCF_FILTER_AE.3
+man/man3/BL_VCF_FORMAT.3
+man/man3/BL_VCF_FORMAT_AE.3
+man/man3/BL_VCF_FORMAT_ARRAY_SIZE.3
+man/man3/BL_VCF_FORMAT_LEN.3
+man/man3/BL_VCF_ID.3
+man/man3/BL_VCF_ID_AE.3
+man/man3/BL_VCF_INFO.3
+man/man3/BL_VCF_INFO_AE.3
+man/man3/BL_VCF_INFO_ARRAY_SIZE.3
+man/man3/BL_VCF_INFO_LEN.3
+man/man3/BL_VCF_MULTI_SAMPLES.3
+man/man3/BL_VCF_MULTI_SAMPLES_AE.3
+man/man3/BL_VCF_MULTI_SAMPLE_ARRAY_SIZES.3
+man/man3/BL_VCF_MULTI_SAMPLE_ARRAY_SIZES_AE.3
+man/man3/BL_VCF_MULTI_SAMPLE_COUNT.3
+man/man3/BL_VCF_MULTI_SAMPLE_LENS.3
+man/man3/BL_VCF_MULTI_SAMPLE_LENS_AE.3
+man/man3/BL_VCF_MULTI_SAMPLE_POINTER_ARRAY_SIZE.3
+man/man3/BL_VCF_OTHER_COUNT.3
+man/man3/BL_VCF_PHREDS.3
+man/man3/BL_VCF_PHREDS_AE.3
+man/man3/BL_VCF_PHRED_BUFF_SIZE.3
+man/man3/BL_VCF_PHRED_COUNT.3
+man/man3/BL_VCF_POS.3
+man/man3/BL_VCF_QUAL.3
+man/man3/BL_VCF_QUAL_AE.3
+man/man3/BL_VCF_REF.3
+man/man3/BL_VCF_REF_AE.3
+man/man3/BL_VCF_REF_COUNT.3
+man/man3/BL_VCF_SAMPLE_ARRAY_SIZE.3
+man/man3/BL_VCF_SAMPLE_LEN.3
+man/man3/BL_VCF_SAMPLE_MAX.3
+man/man3/BL_VCF_SINGLE_SAMPLE.3
+man/man3/BL_VCF_SINGLE_SAMPLE_AE.3
+man/man3/BL_VCF_SINGLE_SAMPLE_ARRAY_SIZE.3
+man/man3/BL_VCF_SINGLE_SAMPLE_LEN.3
+man/man3/biolibc.3
+man/man3/bl_align_map_seq_exact.3
+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_gff_cmp.3
+man/man3/bl_bed_read.3
+man/man3/bl_bed_set_block_count.3
+man/man3/bl_bed_set_block_sizes.3
+man/man3/bl_bed_set_block_sizes_ae.3
+man/man3/bl_bed_set_block_sizes_cpy.3
+man/man3/bl_bed_set_block_starts.3
+man/man3/bl_bed_set_block_starts_ae.3
+man/man3/bl_bed_set_block_starts_cpy.3
+man/man3/bl_bed_set_chrom_ae.3
+man/man3/bl_bed_set_chrom_cpy.3
+man/man3/bl_bed_set_chrom_end.3
+man/man3/bl_bed_set_chrom_start.3
+man/man3/bl_bed_set_fields.3
+man/man3/bl_bed_set_item_rgb_ae.3
+man/man3/bl_bed_set_item_rgb_cpy.3
+man/man3/bl_bed_set_name_ae.3
+man/man3/bl_bed_set_name_cpy.3
+man/man3/bl_bed_set_score.3
+man/man3/bl_bed_set_strand.3
+man/man3/bl_bed_set_thick_end.3
+man/man3/bl_bed_set_thick_start.3
+man/man3/bl_bed_skip_header.3
+man/man3/bl_bed_write.3
+man/man3/bl_chrom_name_cmp.3
+man/man3/bl_fasta_free.3
+man/man3/bl_fasta_init.3
+man/man3/bl_fasta_read.3
+man/man3/bl_fasta_set_desc.3
+man/man3/bl_fasta_set_desc_ae.3
+man/man3/bl_fasta_set_desc_array_size.3
+man/man3/bl_fasta_set_desc_cpy.3
+man/man3/bl_fasta_set_desc_len.3
+man/man3/bl_fasta_set_seq.3
+man/man3/bl_fasta_set_seq_ae.3
+man/man3/bl_fasta_set_seq_array_size.3
+man/man3/bl_fasta_set_seq_cpy.3
+man/man3/bl_fasta_set_seq_len.3
+man/man3/bl_fasta_write.3
+man/man3/bl_fastq_3p_trim.3
+man/man3/bl_fastq_find_3p_low_qual.3
+man/man3/bl_fastq_free.3
+man/man3/bl_fastq_init.3
+man/man3/bl_fastq_name_cmp.3
+man/man3/bl_fastq_read.3
+man/man3/bl_fastq_set_desc.3
+man/man3/bl_fastq_set_desc_ae.3
+man/man3/bl_fastq_set_desc_array_size.3
+man/man3/bl_fastq_set_desc_cpy.3
+man/man3/bl_fastq_set_desc_len.3
+man/man3/bl_fastq_set_plus.3
+man/man3/bl_fastq_set_plus_ae.3
+man/man3/bl_fastq_set_plus_array_size.3
+man/man3/bl_fastq_set_plus_cpy.3
+man/man3/bl_fastq_set_plus_len.3
+man/man3/bl_fastq_set_qual.3
+man/man3/bl_fastq_set_qual_ae.3
+man/man3/bl_fastq_set_qual_array_size.3
+man/man3/bl_fastq_set_qual_cpy.3
+man/man3/bl_fastq_set_qual_len.3
+man/man3/bl_fastq_set_seq.3
+man/man3/bl_fastq_set_seq_ae.3
+man/man3/bl_fastq_set_seq_array_size.3
+man/man3/bl_fastq_set_seq_cpy.3
+man/man3/bl_fastq_set_seq_len.3
+man/man3/bl_fastq_write.3
+man/man3/bl_fastx_desc.3
+man/man3/bl_fastx_desc_len.3
+man/man3/bl_fastx_free.3
+man/man3/bl_fastx_init.3
+man/man3/bl_fastx_plus.3
+man/man3/bl_fastx_plus_len.3
+man/man3/bl_fastx_qual.3
+man/man3/bl_fastx_qual_len.3
+man/man3/bl_fastx_read.3
+man/man3/bl_fastx_seq.3
+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_write.3
+man/man3/bl_gff_copy.3
+man/man3/bl_gff_copy_header.3
+man/man3/bl_gff_dup.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_init.3
+man/man3/bl_gff_read.3
+man/man3/bl_gff_sam_cmp.3
+man/man3/bl_gff_sam_overlap.3
+man/man3/bl_gff_set_attributes.3
+man/man3/bl_gff_set_attributes_ae.3
+man/man3/bl_gff_set_attributes_array_size.3
+man/man3/bl_gff_set_attributes_cpy.3
+man/man3/bl_gff_set_attributes_len.3
+man/man3/bl_gff_set_end.3
+man/man3/bl_gff_set_feature_id.3
+man/man3/bl_gff_set_feature_id_ae.3
+man/man3/bl_gff_set_feature_id_cpy.3
+man/man3/bl_gff_set_feature_name.3
+man/man3/bl_gff_set_feature_name_ae.3
+man/man3/bl_gff_set_feature_name_cpy.3
+man/man3/bl_gff_set_feature_parent.3
+man/man3/bl_gff_set_feature_parent_ae.3
+man/man3/bl_gff_set_feature_parent_cpy.3
+man/man3/bl_gff_set_file_pos.3
+man/man3/bl_gff_set_gene_name_cpy.3
+man/man3/bl_gff_set_phase.3
+man/man3/bl_gff_set_score.3
+man/man3/bl_gff_set_seqid_ae.3
+man/man3/bl_gff_set_seqid_cpy.3
+man/man3/bl_gff_set_source_ae.3
+man/man3/bl_gff_set_source_cpy.3
+man/man3/bl_gff_set_start.3
+man/man3/bl_gff_set_strand.3
+man/man3/bl_gff_set_type_ae.3
+man/man3/bl_gff_set_type_cpy.3
+man/man3/bl_gff_skip_header.3
+man/man3/bl_gff_to_bed.3
+man/man3/bl_gff_write.3
+man/man3/bl_next_start_codon.3
+man/man3/bl_next_stop_codon.3
+man/man3/bl_overlap_print.3
+man/man3/bl_overlap_set_all.3
+man/man3/bl_overlap_set_feature1_len.3
+man/man3/bl_overlap_set_feature2_len.3
+man/man3/bl_overlap_set_overlap_end.3
+man/man3/bl_overlap_set_overlap_len.3
+man/man3/bl_overlap_set_overlap_start.3
+man/man3/bl_pos_list_add_position.3
+man/man3/bl_pos_list_allocate.3
+man/man3/bl_pos_list_free.3
+man/man3/bl_pos_list_from_csv.3
+man/man3/bl_pos_list_set_array_size.3
+man/man3/bl_pos_list_set_count.3
+man/man3/bl_pos_list_set_positions.3
+man/man3/bl_pos_list_set_positions_ae.3
+man/man3/bl_pos_list_set_positions_cpy.3
+man/man3/bl_pos_list_sort.3
+man/man3/bl_sam_buff_add_alignment.3
+man/man3/bl_sam_buff_alignment_ok.3
+man/man3/bl_sam_buff_check_order.3
+man/man3/bl_sam_buff_free_alignment.3
+man/man3/bl_sam_buff_init.3
+man/man3/bl_sam_buff_out_of_order.3
+man/man3/bl_sam_buff_set_alignments.3
+man/man3/bl_sam_buff_set_alignments_ae.3
+man/man3/bl_sam_buff_set_alignments_cpy.3
+man/man3/bl_sam_buff_set_buff_size.3
+man/man3/bl_sam_buff_set_buffered_count.3
+man/man3/bl_sam_buff_set_discarded_alignments.3
+man/man3/bl_sam_buff_set_discarded_score_sum.3
+man/man3/bl_sam_buff_set_discarded_trailing.3
+man/man3/bl_sam_buff_set_mapq_high.3
+man/man3/bl_sam_buff_set_mapq_low.3
+man/man3/bl_sam_buff_set_mapq_min.3
+man/man3/bl_sam_buff_set_mapq_sum.3
+man/man3/bl_sam_buff_set_max_alignments.3
+man/man3/bl_sam_buff_set_max_count.3
+man/man3/bl_sam_buff_set_max_discarded_score.3
+man/man3/bl_sam_buff_set_min_discarded_score.3
+man/man3/bl_sam_buff_set_previous_pos.3
+man/man3/bl_sam_buff_set_previous_rname_ae.3
+man/man3/bl_sam_buff_set_previous_rname_cpy.3
+man/man3/bl_sam_buff_set_reads_used.3
+man/man3/bl_sam_buff_set_total_alignments.3
+man/man3/bl_sam_buff_set_trailing_alignments.3
+man/man3/bl_sam_buff_set_unmapped_alignments.3
+man/man3/bl_sam_buff_shift.3
+man/man3/bl_sam_copy.3
+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_gff_cmp.3
+man/man3/bl_sam_gff_overlap.3
+man/man3/bl_sam_init.3
+man/man3/bl_sam_read.3
+man/man3/bl_sam_set_cigar.3
+man/man3/bl_sam_set_cigar_ae.3
+man/man3/bl_sam_set_cigar_array_size.3
+man/man3/bl_sam_set_cigar_cpy.3
+man/man3/bl_sam_set_cigar_len.3
+man/man3/bl_sam_set_flag.3
+man/man3/bl_sam_set_mapq.3
+man/man3/bl_sam_set_pnext.3
+man/man3/bl_sam_set_pos.3
+man/man3/bl_sam_set_qname_ae.3
+man/man3/bl_sam_set_qname_cpy.3
+man/man3/bl_sam_set_qual.3
+man/man3/bl_sam_set_qual_ae.3
+man/man3/bl_sam_set_qual_array_size.3
+man/man3/bl_sam_set_qual_cpy.3
+man/man3/bl_sam_set_qual_len.3
+man/man3/bl_sam_set_rname_ae.3
+man/man3/bl_sam_set_rname_cpy.3
+man/man3/bl_sam_set_rnext_ae.3
+man/man3/bl_sam_set_rnext_cpy.3
+man/man3/bl_sam_set_seq.3
+man/man3/bl_sam_set_seq_ae.3
+man/man3/bl_sam_set_seq_array_size.3
+man/man3/bl_sam_set_seq_cpy.3
+man/man3/bl_sam_set_seq_len.3
+man/man3/bl_sam_set_tlen.3
+man/man3/bl_sam_skip_header.3
+man/man3/bl_sam_write.3
+man/man3/bl_vcf_call_downstream_of_alignment.3
+man/man3/bl_vcf_call_in_alignment.3
+man/man3/bl_vcf_call_out_of_order.3
+man/man3/bl_vcf_free.3
+man/man3/bl_vcf_get_sample_ids.3
+man/man3/bl_vcf_init.3
+man/man3/bl_vcf_parse_field_spec.3
+man/man3/bl_vcf_read_ss_call.3
+man/man3/bl_vcf_read_static_fields.3
+man/man3/bl_vcf_set_alt_ae.3
+man/man3/bl_vcf_set_alt_count.3
+man/man3/bl_vcf_set_alt_cpy.3
+man/man3/bl_vcf_set_chrom_ae.3
+man/man3/bl_vcf_set_chrom_cpy.3
+man/man3/bl_vcf_set_filter_ae.3
+man/man3/bl_vcf_set_filter_cpy.3
+man/man3/bl_vcf_set_format.3
+man/man3/bl_vcf_set_format_ae.3
+man/man3/bl_vcf_set_format_array_size.3
+man/man3/bl_vcf_set_format_cpy.3
+man/man3/bl_vcf_set_format_len.3
+man/man3/bl_vcf_set_id_ae.3
+man/man3/bl_vcf_set_id_cpy.3
+man/man3/bl_vcf_set_info.3
+man/man3/bl_vcf_set_info_ae.3
+man/man3/bl_vcf_set_info_array_size.3
+man/man3/bl_vcf_set_info_cpy.3
+man/man3/bl_vcf_set_info_len.3
+man/man3/bl_vcf_set_multi_sample_array_sizes.3
+man/man3/bl_vcf_set_multi_sample_array_sizes_ae.3
+man/man3/bl_vcf_set_multi_sample_array_sizes_cpy.3
+man/man3/bl_vcf_set_multi_sample_count.3
+man/man3/bl_vcf_set_multi_sample_lens.3
+man/man3/bl_vcf_set_multi_sample_lens_ae.3
+man/man3/bl_vcf_set_multi_sample_lens_cpy.3
+man/man3/bl_vcf_set_multi_sample_pointer_array_size.3
+man/man3/bl_vcf_set_multi_samples.3
+man/man3/bl_vcf_set_multi_samples_ae.3
+man/man3/bl_vcf_set_multi_samples_cpy.3
+man/man3/bl_vcf_set_other_count.3
+man/man3/bl_vcf_set_phred_buff_size.3
+man/man3/bl_vcf_set_phred_count.3
+man/man3/bl_vcf_set_phreds.3
+man/man3/bl_vcf_set_phreds_ae.3
+man/man3/bl_vcf_set_phreds_cpy.3
+man/man3/bl_vcf_set_pos.3
+man/man3/bl_vcf_set_qual_ae.3
+man/man3/bl_vcf_set_qual_cpy.3
+man/man3/bl_vcf_set_ref_ae.3
+man/man3/bl_vcf_set_ref_count.3
+man/man3/bl_vcf_set_ref_cpy.3
+man/man3/bl_vcf_set_single_sample.3
+man/man3/bl_vcf_set_single_sample_ae.3
+man/man3/bl_vcf_set_single_sample_array_size.3
+man/man3/bl_vcf_set_single_sample_cpy.3
+man/man3/bl_vcf_set_single_sample_len.3
+man/man3/bl_vcf_skip_header.3
+man/man3/bl_vcf_skip_meta_data.3
+man/man3/bl_vcf_write_ss_call.3
+man/man3/bl_vcf_write_static_fields.3
diff --git a/biolibc/buildlink3.mk b/biolibc/buildlink3.mk
new file mode 100644
index 0000000000..49e55d33a8
--- /dev/null
+++ b/biolibc/buildlink3.mk
@@ -0,0 +1,14 @@
+# $NetBSD$
+
+BUILDLINK_TREE+= biolibc
+
+.if !defined(BIOLIBC_BUILDLINK3_MK)
+BIOLIBC_BUILDLINK3_MK:=
+
+BUILDLINK_API_DEPENDS.biolibc+= biolibc>=0.2.4
+BUILDLINK_PKGSRCDIR.biolibc?= ../../wip/biolibc
+
+.include "../../wip/libxtend/buildlink3.mk"
+.endif # BIOLIBC_BUILDLINK3_MK
+
+BUILDLINK_TREE+= -biolibc
diff --git a/biolibc/distinfo b/biolibc/distinfo
new file mode 100644
index 0000000000..1413635bf4
--- /dev/null
+++ b/biolibc/distinfo
@@ -0,0 +1,5 @@
+$NetBSD$
+
+BLAKE2s (biolibc-0.2.4.tar.gz) = 3f9c3d762fc2c11b1e7e3b82a974c9bf2e40bee5eabaa8c1111a8e47cd8a3c39
+SHA512 (biolibc-0.2.4.tar.gz) = 2e65575d9e378ba689f76e69994a9bff64a3a748856c8bc9e8c3036711c1d3ab958ce66afc03e8bacb9c52407b4e76831538c000c6e5e9c8facfc45d169f0f29
+Size (biolibc-0.2.4.tar.gz) = 140736 bytes
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