chip-seq: Test updated metapackage based on latest atac-seq

chip-seq/DESCR

@@ -0,0 +1,6 @@
+The chip-seq meta-package provides the core tools needed for
+performing a typical ChIP-Seq differential accessibility analysis,
+including adapter trimming, quality control, alignment, peak calling,
+and identification of differentially accessible peaks.  Researchers
+may want additional tools for data manipulation, gene ontology,
+etc.

chip-seq/Makefile

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+# $NetBSD: Makefile,v 1.5 2023/11/05 23:48:31 wiz Exp $
+
+# Update minor version when adding or removing dependencies
+# Update revision for all other changes
+DISTNAME=	chip-seq-1.2
+CATEGORIES=	biology meta-pkgs
+MASTER_SITES=	# empty
+
+OWNER=		bacon@NetBSD.org
+COMMENT=	Core tools needed for ChIP-Seq analysis
+
+DEPENDS+=	sra-tools>0:../../wip/sra-tools
+DEPENDS+=	fastq-trim>0:../../wip/fastq-trim
+DEPENDS+=	fastqc>0:../../biology/fastqc
+DEPENDS+=	biolibc-tools>0:../../wip/biolibc-tools
+DEPENDS+=	gffread>0:../../biology/gffread
+DEPENDS+=	bwa>0:../../biology/bwa
+DEPENDS+=	bowtie2>0:../../biology/bowtie2
+DEPENDS+=	samtools>0:../../biology/samtools
+DEPENDS+=	igv>0:../../biology/igv
+DEPENDS+=	${PYPKGPREFIX}-macs2>0:../../wip/py-macs2
+DEPENDS+=	fasda>0:../../wip/fasda
+DEPENDS+=	peak-classifier>0:../../wip/peak-classifier
+DEPENDS+=	${PYPKGPREFIX}-multiqc-[0-9]*:../../wip/py-multiqc
+DEPENDS+=	webbrowser>0:../../wip/webbrowser
+DEPENDS+=	curl>0:../../www/curl
+DEPENDS+=	lz4>0:../../archivers/lz4
+DEPENDS+=	xz>0:../../archivers/xz
+DEPENDS+=	zstd>0:../../archivers/zstd
+
+META_PACKAGE=	yes
+
+# Inherited from py-macs2 dep
+PYTHON_VERSIONS_INCOMPATIBLE=	27 38
+
+.include "../../lang/python/application.mk"
+.include "../../mk/bsd.pkg.mk"