Sat Jul 22 13:18:53 2023 UTC ()
biology/py-multiqc: Aggregate bioinformatics reports

MultiQC searches a given directory for analysis logs and compiles an HTML
report. It's a general use tool, perfect for summarising the output from
numerous bioinformatics tools.


(bacon)
diff -r0 -r1.1 pkgsrc/biology/py-multiqc/DESCR
diff -r0 -r1.1 pkgsrc/biology/py-multiqc/Makefile
diff -r0 -r1.1 pkgsrc/biology/py-multiqc/PLIST
diff -r0 -r1.1 pkgsrc/biology/py-multiqc/distinfo
diff -r0 -r1.1 pkgsrc/biology/py-multiqc/patches/patch-multiqc_multiqc.py
File Added: pkgsrc/biology/py-multiqc/DESCR
MultiQC searches a given directory for analysis logs and compiles an HTML
report. It's a general use tool, perfect for summarising the output from
numerous bioinformatics tools.
File Added: pkgsrc/biology/py-multiqc/Makefile
# $NetBSD: Makefile,v 1.1 2023/07/22 13:18:52 bacon Exp $

DISTNAME=	multiqc-1.14
PKGNAME=	${PYPKGPREFIX}-multiqc-1.14
CATEGORIES=	biology
MASTER_SITES=	${MASTER_SITE_PYPI:=m/multiqc/}

OWNER=		bacon@NetBSD.org
HOMEPAGE=	https://pypi.python.org/pypi/multiqc
COMMENT=	Aggregate bioinformatics analysis reports across samples and tools
LICENSE=	gnu-gpl-v3

DEPENDS+=	${PYPKGPREFIX}-matplotlib>=2.1.1:../../graphics/py-matplotlib
DEPENDS+=	${PYPKGPREFIX}-networkx>=2.5.1:../../math/py-networkx
DEPENDS+=	${PYPKGPREFIX}-click-[0-9]*:../../devel/py-click
DEPENDS+=	${PYPKGPREFIX}-coloredlogs-[0-9]*:../../devel/py-coloredlogs
DEPENDS+=	${PYPKGPREFIX}-future>0.14.0:../../devel/py-future
DEPENDS+=	${PYPKGPREFIX}-jinja2>=3.0.0:../../textproc/py-jinja2
DEPENDS+=	${PYPKGPREFIX}-markdown-[0-9]*:../../textproc/py-markdown
DEPENDS+=	${PYPKGPREFIX}-yaml>=4:../../textproc/py-yaml
DEPENDS+=	${PYPKGPREFIX}-requests-[0-9]*:../../devel/py-requests
DEPENDS+=	${PYPKGPREFIX}-rich>=10:../../comms/py-rich
DEPENDS+=	${PYPKGPREFIX}-rich-click-[0-9]*:../../devel/py-rich-click
DEPENDS+=	${PYPKGPREFIX}-simplejson-[0-9]*:../../converters/py-simplejson
DEPENDS+=	${PYPKGPREFIX}-spectra>=0.0.10:../../graphics/py-spectra
DEPENDS+=	${PYPKGPREFIX}-lzstring>0:../../archivers/py-lzstring

post-patch:
	${RM} ${WRKSRC}/multiqc/multiqc.py.orig

.include "../../lang/python/egg.mk"
.include "../../math/py-numpy/buildlink3.mk"
.include "../../mk/bsd.pkg.mk"
File Added: pkgsrc/biology/py-multiqc/PLIST
@comment $NetBSD: PLIST,v 1.1 2023/07/22 13:18:52 bacon Exp $
bin/multiqc
${PYSITELIB}/${EGG_INFODIR}/PKG-INFO
${PYSITELIB}/${EGG_INFODIR}/SOURCES.txt
${PYSITELIB}/${EGG_INFODIR}/dependency_links.txt
${PYSITELIB}/${EGG_INFODIR}/entry_points.txt
${PYSITELIB}/${EGG_INFODIR}/not-zip-safe
${PYSITELIB}/${EGG_INFODIR}/requires.txt
${PYSITELIB}/${EGG_INFODIR}/top_level.txt
${PYSITELIB}/multiqc/__init__.py
${PYSITELIB}/multiqc/__init__.pyc
${PYSITELIB}/multiqc/__init__.pyo
${PYSITELIB}/multiqc/__main__.py
${PYSITELIB}/multiqc/__main__.pyc
${PYSITELIB}/multiqc/__main__.pyo
${PYSITELIB}/multiqc/modules/__init__.py
${PYSITELIB}/multiqc/modules/__init__.pyc
${PYSITELIB}/multiqc/modules/__init__.pyo
${PYSITELIB}/multiqc/modules/adapterRemoval/__init__.py
${PYSITELIB}/multiqc/modules/adapterRemoval/__init__.pyc
${PYSITELIB}/multiqc/modules/adapterRemoval/__init__.pyo
${PYSITELIB}/multiqc/modules/adapterRemoval/adapterRemoval.py
${PYSITELIB}/multiqc/modules/adapterRemoval/adapterRemoval.pyc
${PYSITELIB}/multiqc/modules/adapterRemoval/adapterRemoval.pyo
${PYSITELIB}/multiqc/modules/afterqc/__init__.py
${PYSITELIB}/multiqc/modules/afterqc/__init__.pyc
${PYSITELIB}/multiqc/modules/afterqc/__init__.pyo
${PYSITELIB}/multiqc/modules/afterqc/afterqc.py
${PYSITELIB}/multiqc/modules/afterqc/afterqc.pyc
${PYSITELIB}/multiqc/modules/afterqc/afterqc.pyo
${PYSITELIB}/multiqc/modules/anglerfish/__init__.py
${PYSITELIB}/multiqc/modules/anglerfish/__init__.pyc
${PYSITELIB}/multiqc/modules/anglerfish/__init__.pyo
${PYSITELIB}/multiqc/modules/anglerfish/anglerfish.py
${PYSITELIB}/multiqc/modules/anglerfish/anglerfish.pyc
${PYSITELIB}/multiqc/modules/anglerfish/anglerfish.pyo
${PYSITELIB}/multiqc/modules/bamtools/__init__.py
${PYSITELIB}/multiqc/modules/bamtools/__init__.pyc
${PYSITELIB}/multiqc/modules/bamtools/__init__.pyo
${PYSITELIB}/multiqc/modules/bamtools/bamtools.py
${PYSITELIB}/multiqc/modules/bamtools/bamtools.pyc
${PYSITELIB}/multiqc/modules/bamtools/bamtools.pyo
${PYSITELIB}/multiqc/modules/bamtools/stats.py
${PYSITELIB}/multiqc/modules/bamtools/stats.pyc
${PYSITELIB}/multiqc/modules/bamtools/stats.pyo
${PYSITELIB}/multiqc/modules/base_module.py
${PYSITELIB}/multiqc/modules/base_module.pyc
${PYSITELIB}/multiqc/modules/base_module.pyo
${PYSITELIB}/multiqc/modules/bbduk/__init__.py
${PYSITELIB}/multiqc/modules/bbduk/__init__.pyc
${PYSITELIB}/multiqc/modules/bbduk/__init__.pyo
${PYSITELIB}/multiqc/modules/bbduk/bbduk.py
${PYSITELIB}/multiqc/modules/bbduk/bbduk.pyc
${PYSITELIB}/multiqc/modules/bbduk/bbduk.pyo
${PYSITELIB}/multiqc/modules/bbmap/__init__.py
${PYSITELIB}/multiqc/modules/bbmap/__init__.pyc
${PYSITELIB}/multiqc/modules/bbmap/__init__.pyo
${PYSITELIB}/multiqc/modules/bbmap/bbmap.py
${PYSITELIB}/multiqc/modules/bbmap/bbmap.pyc
${PYSITELIB}/multiqc/modules/bbmap/bbmap.pyo
${PYSITELIB}/multiqc/modules/bbmap/bbmap_filetypes.py
${PYSITELIB}/multiqc/modules/bbmap/bbmap_filetypes.pyc
${PYSITELIB}/multiqc/modules/bbmap/bbmap_filetypes.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_aqhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_aqhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_aqhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_basic_hist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_basic_hist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_basic_hist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_bhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_bhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_bhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_bqhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_bqhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_bqhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_covhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_covhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_covhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_idhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_idhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_idhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_ihist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_ihist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_ihist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_indelhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_indelhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_indelhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_mhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_mhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_mhist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_qahist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_qahist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_qahist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_qchist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_qchist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_qchist.pyo
${PYSITELIB}/multiqc/modules/bbmap/plot_qhist.py
${PYSITELIB}/multiqc/modules/bbmap/plot_qhist.pyc
${PYSITELIB}/multiqc/modules/bbmap/plot_qhist.pyo
${PYSITELIB}/multiqc/modules/bcftools/__init__.py
${PYSITELIB}/multiqc/modules/bcftools/__init__.pyc
${PYSITELIB}/multiqc/modules/bcftools/__init__.pyo
${PYSITELIB}/multiqc/modules/bcftools/bcftools.py
${PYSITELIB}/multiqc/modules/bcftools/bcftools.pyc
${PYSITELIB}/multiqc/modules/bcftools/bcftools.pyo
${PYSITELIB}/multiqc/modules/bcftools/stats.py
${PYSITELIB}/multiqc/modules/bcftools/stats.pyc
${PYSITELIB}/multiqc/modules/bcftools/stats.pyo
${PYSITELIB}/multiqc/modules/bcl2fastq/__init__.py
${PYSITELIB}/multiqc/modules/bcl2fastq/__init__.pyc
${PYSITELIB}/multiqc/modules/bcl2fastq/__init__.pyo
${PYSITELIB}/multiqc/modules/bcl2fastq/bcl2fastq.py
${PYSITELIB}/multiqc/modules/bcl2fastq/bcl2fastq.pyc
${PYSITELIB}/multiqc/modules/bcl2fastq/bcl2fastq.pyo
${PYSITELIB}/multiqc/modules/bclconvert/__init__.py
${PYSITELIB}/multiqc/modules/bclconvert/__init__.pyc
${PYSITELIB}/multiqc/modules/bclconvert/__init__.pyo
${PYSITELIB}/multiqc/modules/bclconvert/bclconvert.py
${PYSITELIB}/multiqc/modules/bclconvert/bclconvert.pyc
${PYSITELIB}/multiqc/modules/bclconvert/bclconvert.pyo
${PYSITELIB}/multiqc/modules/biobambam2/__init__.py
${PYSITELIB}/multiqc/modules/biobambam2/__init__.pyc
${PYSITELIB}/multiqc/modules/biobambam2/__init__.pyo
${PYSITELIB}/multiqc/modules/biobambam2/biobambam2.py
${PYSITELIB}/multiqc/modules/biobambam2/biobambam2.pyc
${PYSITELIB}/multiqc/modules/biobambam2/biobambam2.pyo
${PYSITELIB}/multiqc/modules/biobloomtools/__init__.py
${PYSITELIB}/multiqc/modules/biobloomtools/__init__.pyc
${PYSITELIB}/multiqc/modules/biobloomtools/__init__.pyo
${PYSITELIB}/multiqc/modules/biobloomtools/biobloomtools.py
${PYSITELIB}/multiqc/modules/biobloomtools/biobloomtools.pyc
${PYSITELIB}/multiqc/modules/biobloomtools/biobloomtools.pyo
${PYSITELIB}/multiqc/modules/biscuit/__init__.py
${PYSITELIB}/multiqc/modules/biscuit/__init__.pyc
${PYSITELIB}/multiqc/modules/biscuit/__init__.pyo
${PYSITELIB}/multiqc/modules/biscuit/biscuit.py
${PYSITELIB}/multiqc/modules/biscuit/biscuit.pyc
${PYSITELIB}/multiqc/modules/biscuit/biscuit.pyo
${PYSITELIB}/multiqc/modules/bismark/__init__.py
${PYSITELIB}/multiqc/modules/bismark/__init__.pyc
${PYSITELIB}/multiqc/modules/bismark/__init__.pyo
${PYSITELIB}/multiqc/modules/bismark/bismark.py
${PYSITELIB}/multiqc/modules/bismark/bismark.pyc
${PYSITELIB}/multiqc/modules/bismark/bismark.pyo
${PYSITELIB}/multiqc/modules/bowtie1/__init__.py
${PYSITELIB}/multiqc/modules/bowtie1/__init__.pyc
${PYSITELIB}/multiqc/modules/bowtie1/__init__.pyo
${PYSITELIB}/multiqc/modules/bowtie1/bowtie1.py
${PYSITELIB}/multiqc/modules/bowtie1/bowtie1.pyc
${PYSITELIB}/multiqc/modules/bowtie1/bowtie1.pyo
${PYSITELIB}/multiqc/modules/bowtie2/__init__.py
${PYSITELIB}/multiqc/modules/bowtie2/__init__.pyc
${PYSITELIB}/multiqc/modules/bowtie2/__init__.pyo
${PYSITELIB}/multiqc/modules/bowtie2/bowtie2.py
${PYSITELIB}/multiqc/modules/bowtie2/bowtie2.pyc
${PYSITELIB}/multiqc/modules/bowtie2/bowtie2.pyo
${PYSITELIB}/multiqc/modules/busco/__init__.py
${PYSITELIB}/multiqc/modules/busco/__init__.pyc
${PYSITELIB}/multiqc/modules/busco/__init__.pyo
${PYSITELIB}/multiqc/modules/busco/busco.py
${PYSITELIB}/multiqc/modules/busco/busco.pyc
${PYSITELIB}/multiqc/modules/busco/busco.pyo
${PYSITELIB}/multiqc/modules/bustools/__init__.py
${PYSITELIB}/multiqc/modules/bustools/__init__.pyc
${PYSITELIB}/multiqc/modules/bustools/__init__.pyo
${PYSITELIB}/multiqc/modules/bustools/bustools.py
${PYSITELIB}/multiqc/modules/bustools/bustools.pyc
${PYSITELIB}/multiqc/modules/bustools/bustools.pyo
${PYSITELIB}/multiqc/modules/ccs/__init__.py
${PYSITELIB}/multiqc/modules/ccs/__init__.pyc
${PYSITELIB}/multiqc/modules/ccs/__init__.pyo
${PYSITELIB}/multiqc/modules/ccs/ccs.py
${PYSITELIB}/multiqc/modules/ccs/ccs.pyc
${PYSITELIB}/multiqc/modules/ccs/ccs.pyo
${PYSITELIB}/multiqc/modules/cellranger/__init__.py
${PYSITELIB}/multiqc/modules/cellranger/__init__.pyc
${PYSITELIB}/multiqc/modules/cellranger/__init__.pyo
${PYSITELIB}/multiqc/modules/cellranger/_utils.py
${PYSITELIB}/multiqc/modules/cellranger/_utils.pyc
${PYSITELIB}/multiqc/modules/cellranger/_utils.pyo
${PYSITELIB}/multiqc/modules/cellranger/cellranger.py
${PYSITELIB}/multiqc/modules/cellranger/cellranger.pyc
${PYSITELIB}/multiqc/modules/cellranger/cellranger.pyo
${PYSITELIB}/multiqc/modules/cellranger/count.py
${PYSITELIB}/multiqc/modules/cellranger/count.pyc
${PYSITELIB}/multiqc/modules/cellranger/count.pyo
${PYSITELIB}/multiqc/modules/cellranger/vdj.py
${PYSITELIB}/multiqc/modules/cellranger/vdj.pyc
${PYSITELIB}/multiqc/modules/cellranger/vdj.pyo
${PYSITELIB}/multiqc/modules/checkqc/__init__.py
${PYSITELIB}/multiqc/modules/checkqc/__init__.pyc
${PYSITELIB}/multiqc/modules/checkqc/__init__.pyo
${PYSITELIB}/multiqc/modules/checkqc/checkqc.py
${PYSITELIB}/multiqc/modules/checkqc/checkqc.pyc
${PYSITELIB}/multiqc/modules/checkqc/checkqc.pyo
${PYSITELIB}/multiqc/modules/clipandmerge/__init__.py
${PYSITELIB}/multiqc/modules/clipandmerge/__init__.pyc
${PYSITELIB}/multiqc/modules/clipandmerge/__init__.pyo
${PYSITELIB}/multiqc/modules/clipandmerge/clipandmerge.py
${PYSITELIB}/multiqc/modules/clipandmerge/clipandmerge.pyc
${PYSITELIB}/multiqc/modules/clipandmerge/clipandmerge.pyo
${PYSITELIB}/multiqc/modules/clusterflow/__init__.py
${PYSITELIB}/multiqc/modules/clusterflow/__init__.pyc
${PYSITELIB}/multiqc/modules/clusterflow/__init__.pyo
${PYSITELIB}/multiqc/modules/clusterflow/clusterflow.py
${PYSITELIB}/multiqc/modules/clusterflow/clusterflow.pyc
${PYSITELIB}/multiqc/modules/clusterflow/clusterflow.pyo
${PYSITELIB}/multiqc/modules/conpair/__init__.py
${PYSITELIB}/multiqc/modules/conpair/__init__.pyc
${PYSITELIB}/multiqc/modules/conpair/__init__.pyo
${PYSITELIB}/multiqc/modules/conpair/conpair.py
${PYSITELIB}/multiqc/modules/conpair/conpair.pyc
${PYSITELIB}/multiqc/modules/conpair/conpair.pyo
${PYSITELIB}/multiqc/modules/custom_content/__init__.py
${PYSITELIB}/multiqc/modules/custom_content/__init__.pyc
${PYSITELIB}/multiqc/modules/custom_content/__init__.pyo
${PYSITELIB}/multiqc/modules/custom_content/custom_content.py
${PYSITELIB}/multiqc/modules/custom_content/custom_content.pyc
${PYSITELIB}/multiqc/modules/custom_content/custom_content.pyo
${PYSITELIB}/multiqc/modules/cutadapt/__init__.py
${PYSITELIB}/multiqc/modules/cutadapt/__init__.pyc
${PYSITELIB}/multiqc/modules/cutadapt/__init__.pyo
${PYSITELIB}/multiqc/modules/cutadapt/cutadapt.py
${PYSITELIB}/multiqc/modules/cutadapt/cutadapt.pyc
${PYSITELIB}/multiqc/modules/cutadapt/cutadapt.pyo
${PYSITELIB}/multiqc/modules/damageprofiler/__init__.py
${PYSITELIB}/multiqc/modules/damageprofiler/__init__.pyc
${PYSITELIB}/multiqc/modules/damageprofiler/__init__.pyo
${PYSITELIB}/multiqc/modules/damageprofiler/damageprofiler.py
${PYSITELIB}/multiqc/modules/damageprofiler/damageprofiler.pyc
${PYSITELIB}/multiqc/modules/damageprofiler/damageprofiler.pyo
${PYSITELIB}/multiqc/modules/dedup/__init__.py
${PYSITELIB}/multiqc/modules/dedup/__init__.pyc
${PYSITELIB}/multiqc/modules/dedup/__init__.pyo
${PYSITELIB}/multiqc/modules/dedup/dedup.py
${PYSITELIB}/multiqc/modules/dedup/dedup.pyc
${PYSITELIB}/multiqc/modules/dedup/dedup.pyo
${PYSITELIB}/multiqc/modules/deeptools/__init__.py
${PYSITELIB}/multiqc/modules/deeptools/__init__.pyc
${PYSITELIB}/multiqc/modules/deeptools/__init__.pyo
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeDistribution.py
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeDistribution.pyc
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeDistribution.pyo
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeTable.py
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeTable.pyc
${PYSITELIB}/multiqc/modules/deeptools/bamPEFragmentSizeTable.pyo
${PYSITELIB}/multiqc/modules/deeptools/deeptools.py
${PYSITELIB}/multiqc/modules/deeptools/deeptools.pyc
${PYSITELIB}/multiqc/modules/deeptools/deeptools.pyo
${PYSITELIB}/multiqc/modules/deeptools/estimateReadFiltering.py
${PYSITELIB}/multiqc/modules/deeptools/estimateReadFiltering.pyc
${PYSITELIB}/multiqc/modules/deeptools/estimateReadFiltering.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotCorrelation.py
${PYSITELIB}/multiqc/modules/deeptools/plotCorrelation.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotCorrelation.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotCoverage.py
${PYSITELIB}/multiqc/modules/deeptools/plotCoverage.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotCoverage.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotEnrichment.py
${PYSITELIB}/multiqc/modules/deeptools/plotEnrichment.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotEnrichment.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotFingerprint.py
${PYSITELIB}/multiqc/modules/deeptools/plotFingerprint.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotFingerprint.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotPCA.py
${PYSITELIB}/multiqc/modules/deeptools/plotPCA.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotPCA.pyo
${PYSITELIB}/multiqc/modules/deeptools/plotProfile.py
${PYSITELIB}/multiqc/modules/deeptools/plotProfile.pyc
${PYSITELIB}/multiqc/modules/deeptools/plotProfile.pyo
${PYSITELIB}/multiqc/modules/diamond/__init__.py
${PYSITELIB}/multiqc/modules/diamond/__init__.pyc
${PYSITELIB}/multiqc/modules/diamond/__init__.pyo
${PYSITELIB}/multiqc/modules/diamond/diamond.py
${PYSITELIB}/multiqc/modules/diamond/diamond.pyc
${PYSITELIB}/multiqc/modules/diamond/diamond.pyo
${PYSITELIB}/multiqc/modules/disambiguate/__init__.py
${PYSITELIB}/multiqc/modules/disambiguate/__init__.pyc
${PYSITELIB}/multiqc/modules/disambiguate/__init__.pyo
${PYSITELIB}/multiqc/modules/disambiguate/disambiguate.py
${PYSITELIB}/multiqc/modules/disambiguate/disambiguate.pyc
${PYSITELIB}/multiqc/modules/disambiguate/disambiguate.pyo
${PYSITELIB}/multiqc/modules/dragen/__init__.py
${PYSITELIB}/multiqc/modules/dragen/__init__.pyc
${PYSITELIB}/multiqc/modules/dragen/__init__.pyo
${PYSITELIB}/multiqc/modules/dragen/coverage_hist.py
${PYSITELIB}/multiqc/modules/dragen/coverage_hist.pyc
${PYSITELIB}/multiqc/modules/dragen/coverage_hist.pyo
${PYSITELIB}/multiqc/modules/dragen/coverage_metrics.py
${PYSITELIB}/multiqc/modules/dragen/coverage_metrics.pyc
${PYSITELIB}/multiqc/modules/dragen/coverage_metrics.pyo
${PYSITELIB}/multiqc/modules/dragen/coverage_per_contig.py
${PYSITELIB}/multiqc/modules/dragen/coverage_per_contig.pyc
${PYSITELIB}/multiqc/modules/dragen/coverage_per_contig.pyo
${PYSITELIB}/multiqc/modules/dragen/dragen.py
${PYSITELIB}/multiqc/modules/dragen/dragen.pyc
${PYSITELIB}/multiqc/modules/dragen/dragen.pyo
${PYSITELIB}/multiqc/modules/dragen/dragen_gc_metrics.py
${PYSITELIB}/multiqc/modules/dragen/dragen_gc_metrics.pyc
${PYSITELIB}/multiqc/modules/dragen/dragen_gc_metrics.pyo
${PYSITELIB}/multiqc/modules/dragen/fragment_length.py
${PYSITELIB}/multiqc/modules/dragen/fragment_length.pyc
${PYSITELIB}/multiqc/modules/dragen/fragment_length.pyo
${PYSITELIB}/multiqc/modules/dragen/mapping_metrics.py
${PYSITELIB}/multiqc/modules/dragen/mapping_metrics.pyc
${PYSITELIB}/multiqc/modules/dragen/mapping_metrics.pyo
${PYSITELIB}/multiqc/modules/dragen/ploidy_estimation_metrics.py
${PYSITELIB}/multiqc/modules/dragen/ploidy_estimation_metrics.pyc
${PYSITELIB}/multiqc/modules/dragen/ploidy_estimation_metrics.pyo
${PYSITELIB}/multiqc/modules/dragen/rna_quant_metrics.py
${PYSITELIB}/multiqc/modules/dragen/rna_quant_metrics.pyc
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${PYSITELIB}/multiqc/modules/sortmerna/__init__.pyc
${PYSITELIB}/multiqc/modules/sortmerna/__init__.pyo
${PYSITELIB}/multiqc/modules/sortmerna/sortmerna.py
${PYSITELIB}/multiqc/modules/sortmerna/sortmerna.pyc
${PYSITELIB}/multiqc/modules/sortmerna/sortmerna.pyo
${PYSITELIB}/multiqc/modules/stacks/__init__.py
${PYSITELIB}/multiqc/modules/stacks/__init__.pyc
${PYSITELIB}/multiqc/modules/stacks/__init__.pyo
${PYSITELIB}/multiqc/modules/stacks/stacks.py
${PYSITELIB}/multiqc/modules/stacks/stacks.pyc
${PYSITELIB}/multiqc/modules/stacks/stacks.pyo
${PYSITELIB}/multiqc/modules/star/__init__.py
${PYSITELIB}/multiqc/modules/star/__init__.pyc
${PYSITELIB}/multiqc/modules/star/__init__.pyo
${PYSITELIB}/multiqc/modules/star/star.py
${PYSITELIB}/multiqc/modules/star/star.pyc
${PYSITELIB}/multiqc/modules/star/star.pyo
${PYSITELIB}/multiqc/modules/supernova/__init__.py
${PYSITELIB}/multiqc/modules/supernova/__init__.pyc
${PYSITELIB}/multiqc/modules/supernova/__init__.pyo
${PYSITELIB}/multiqc/modules/supernova/supernova.py
${PYSITELIB}/multiqc/modules/supernova/supernova.pyc
${PYSITELIB}/multiqc/modules/supernova/supernova.pyo
${PYSITELIB}/multiqc/modules/theta2/__init__.py
${PYSITELIB}/multiqc/modules/theta2/__init__.pyc
${PYSITELIB}/multiqc/modules/theta2/__init__.pyo
${PYSITELIB}/multiqc/modules/theta2/theta2.py
${PYSITELIB}/multiqc/modules/theta2/theta2.pyc
${PYSITELIB}/multiqc/modules/theta2/theta2.pyo
${PYSITELIB}/multiqc/modules/tophat/__init__.py
${PYSITELIB}/multiqc/modules/tophat/__init__.pyc
${PYSITELIB}/multiqc/modules/tophat/__init__.pyo
${PYSITELIB}/multiqc/modules/tophat/tophat.py
${PYSITELIB}/multiqc/modules/tophat/tophat.pyc
${PYSITELIB}/multiqc/modules/tophat/tophat.pyo
${PYSITELIB}/multiqc/modules/trimmomatic/__init__.py
${PYSITELIB}/multiqc/modules/trimmomatic/__init__.pyc
${PYSITELIB}/multiqc/modules/trimmomatic/__init__.pyo
${PYSITELIB}/multiqc/modules/trimmomatic/trimmomatic.py
${PYSITELIB}/multiqc/modules/trimmomatic/trimmomatic.pyc
${PYSITELIB}/multiqc/modules/trimmomatic/trimmomatic.pyo
${PYSITELIB}/multiqc/modules/umitools/__init__.py
${PYSITELIB}/multiqc/modules/umitools/__init__.pyc
${PYSITELIB}/multiqc/modules/umitools/__init__.pyo
${PYSITELIB}/multiqc/modules/umitools/umitools.py
${PYSITELIB}/multiqc/modules/umitools/umitools.pyc
${PYSITELIB}/multiqc/modules/umitools/umitools.pyo
${PYSITELIB}/multiqc/modules/varscan2/__init__.py
${PYSITELIB}/multiqc/modules/varscan2/__init__.pyc
${PYSITELIB}/multiqc/modules/varscan2/__init__.pyo
${PYSITELIB}/multiqc/modules/varscan2/varscan2.py
${PYSITELIB}/multiqc/modules/varscan2/varscan2.pyc
${PYSITELIB}/multiqc/modules/varscan2/varscan2.pyo
${PYSITELIB}/multiqc/modules/vcftools/__init__.py
${PYSITELIB}/multiqc/modules/vcftools/__init__.pyc
${PYSITELIB}/multiqc/modules/vcftools/__init__.pyo
${PYSITELIB}/multiqc/modules/vcftools/relatedness2.py
${PYSITELIB}/multiqc/modules/vcftools/relatedness2.pyc
${PYSITELIB}/multiqc/modules/vcftools/relatedness2.pyo
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_count.py
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_count.pyc
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_count.pyo
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_qual.py
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_qual.pyc
${PYSITELIB}/multiqc/modules/vcftools/tstv_by_qual.pyo
${PYSITELIB}/multiqc/modules/vcftools/tstv_summary.py
${PYSITELIB}/multiqc/modules/vcftools/tstv_summary.pyc
${PYSITELIB}/multiqc/modules/vcftools/tstv_summary.pyo
${PYSITELIB}/multiqc/modules/vcftools/vcftools.py
${PYSITELIB}/multiqc/modules/vcftools/vcftools.pyc
${PYSITELIB}/multiqc/modules/vcftools/vcftools.pyo
${PYSITELIB}/multiqc/modules/vep/__init__.py
${PYSITELIB}/multiqc/modules/vep/__init__.pyc
${PYSITELIB}/multiqc/modules/vep/__init__.pyo
${PYSITELIB}/multiqc/modules/vep/vep.py
${PYSITELIB}/multiqc/modules/vep/vep.pyc
${PYSITELIB}/multiqc/modules/vep/vep.pyo
${PYSITELIB}/multiqc/modules/verifybamid/__init__.py
${PYSITELIB}/multiqc/modules/verifybamid/__init__.pyc
${PYSITELIB}/multiqc/modules/verifybamid/__init__.pyo
${PYSITELIB}/multiqc/modules/verifybamid/verifybamid.py
${PYSITELIB}/multiqc/modules/verifybamid/verifybamid.pyc
${PYSITELIB}/multiqc/modules/verifybamid/verifybamid.pyo
${PYSITELIB}/multiqc/modules/whatshap/__init__.py
${PYSITELIB}/multiqc/modules/whatshap/__init__.pyc
${PYSITELIB}/multiqc/modules/whatshap/__init__.pyo
${PYSITELIB}/multiqc/modules/whatshap/whatshap.py
${PYSITELIB}/multiqc/modules/whatshap/whatshap.pyc
${PYSITELIB}/multiqc/modules/whatshap/whatshap.pyo
${PYSITELIB}/multiqc/multiqc.py
${PYSITELIB}/multiqc/multiqc.pyc
${PYSITELIB}/multiqc/multiqc.pyo
${PYSITELIB}/multiqc/plots/__init__.py
${PYSITELIB}/multiqc/plots/__init__.pyc
${PYSITELIB}/multiqc/plots/__init__.pyo
${PYSITELIB}/multiqc/plots/bargraph.py
${PYSITELIB}/multiqc/plots/bargraph.pyc
${PYSITELIB}/multiqc/plots/bargraph.pyo
${PYSITELIB}/multiqc/plots/beeswarm.py
${PYSITELIB}/multiqc/plots/beeswarm.pyc
${PYSITELIB}/multiqc/plots/beeswarm.pyo
${PYSITELIB}/multiqc/plots/boxplot.py
${PYSITELIB}/multiqc/plots/boxplot.pyc
${PYSITELIB}/multiqc/plots/boxplot.pyo
${PYSITELIB}/multiqc/plots/heatmap.py
${PYSITELIB}/multiqc/plots/heatmap.pyc
${PYSITELIB}/multiqc/plots/heatmap.pyo
${PYSITELIB}/multiqc/plots/linegraph.py
${PYSITELIB}/multiqc/plots/linegraph.pyc
${PYSITELIB}/multiqc/plots/linegraph.pyo
${PYSITELIB}/multiqc/plots/scatter.py
${PYSITELIB}/multiqc/plots/scatter.pyc
${PYSITELIB}/multiqc/plots/scatter.pyo
${PYSITELIB}/multiqc/plots/table.py
${PYSITELIB}/multiqc/plots/table.pyc
${PYSITELIB}/multiqc/plots/table.pyo
${PYSITELIB}/multiqc/plots/table_object.py
${PYSITELIB}/multiqc/plots/table_object.pyc
${PYSITELIB}/multiqc/plots/table_object.pyo
${PYSITELIB}/multiqc/templates/__init__.py
${PYSITELIB}/multiqc/templates/__init__.pyc
${PYSITELIB}/multiqc/templates/__init__.pyo
${PYSITELIB}/multiqc/templates/default/__init__.py
${PYSITELIB}/multiqc/templates/default/__init__.pyc
${PYSITELIB}/multiqc/templates/default/__init__.pyo
${PYSITELIB}/multiqc/templates/default/assets/css/bootstrap.min.css
${PYSITELIB}/multiqc/templates/default/assets/css/default_multiqc.css
${PYSITELIB}/multiqc/templates/default/assets/css/jquery.toast.css
${PYSITELIB}/multiqc/templates/default/assets/fonts/glyphicons-halflings-regular.eot
${PYSITELIB}/multiqc/templates/default/assets/fonts/glyphicons-halflings-regular.svg
${PYSITELIB}/multiqc/templates/default/assets/fonts/glyphicons-halflings-regular.ttf
${PYSITELIB}/multiqc/templates/default/assets/fonts/glyphicons-halflings-regular.woff
${PYSITELIB}/multiqc/templates/default/assets/fonts/glyphicons-halflings-regular.woff2
${PYSITELIB}/multiqc/templates/default/assets/img/MultiQC_logo.png
${PYSITELIB}/multiqc/templates/default/assets/img/Seqera-Labs.png
${PYSITELIB}/multiqc/templates/default/assets/img/favicon-16x16.png
${PYSITELIB}/multiqc/templates/default/assets/img/favicon-32x32.png
${PYSITELIB}/multiqc/templates/default/assets/img/favicon-96x96.png
${PYSITELIB}/multiqc/templates/default/assets/js/multiqc.js
${PYSITELIB}/multiqc/templates/default/assets/js/multiqc_mpl.js
${PYSITELIB}/multiqc/templates/default/assets/js/multiqc_plotting.js
${PYSITELIB}/multiqc/templates/default/assets/js/multiqc_tables.js
${PYSITELIB}/multiqc/templates/default/assets/js/multiqc_toolbox.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/FileSaver.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/bootstrap.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/clipboard.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/highcharts.export-csv.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/highcharts.exporting.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/highcharts.heatmap.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/highcharts.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/highcharts.offline-exporting.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/jquery-3.1.1.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/jquery-ui.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/jquery.tablesorter.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/jquery.toast.min.js
${PYSITELIB}/multiqc/templates/default/assets/js/packages/lz-string.min.js
${PYSITELIB}/multiqc/templates/default/base.html
${PYSITELIB}/multiqc/templates/default/content.html
${PYSITELIB}/multiqc/templates/default/foot.html
${PYSITELIB}/multiqc/templates/default/footer.html
${PYSITELIB}/multiqc/templates/default/general_stats.html
${PYSITELIB}/multiqc/templates/default/head.html
${PYSITELIB}/multiqc/templates/default/header.html
${PYSITELIB}/multiqc/templates/default/includes.html
${PYSITELIB}/multiqc/templates/default/nav.html
${PYSITELIB}/multiqc/templates/default/toolbox.html
${PYSITELIB}/multiqc/templates/default_dev/__init__.py
${PYSITELIB}/multiqc/templates/default_dev/__init__.pyc
${PYSITELIB}/multiqc/templates/default_dev/__init__.pyo
${PYSITELIB}/multiqc/templates/default_dev/includes.html
${PYSITELIB}/multiqc/templates/gathered/__init__.py
${PYSITELIB}/multiqc/templates/gathered/__init__.pyc
${PYSITELIB}/multiqc/templates/gathered/__init__.pyo
${PYSITELIB}/multiqc/templates/gathered/content.html
${PYSITELIB}/multiqc/templates/gathered/nav.html
${PYSITELIB}/multiqc/templates/geo/__init__.py
${PYSITELIB}/multiqc/templates/geo/__init__.pyc
${PYSITELIB}/multiqc/templates/geo/__init__.pyo
${PYSITELIB}/multiqc/templates/geo/assets/css/bootstrap.min.css
${PYSITELIB}/multiqc/templates/geo/assets/img/emailme.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/flames.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/glyphicons-halflings-white.png
${PYSITELIB}/multiqc/templates/geo/assets/img/glyphicons-halflings.png
${PYSITELIB}/multiqc/templates/geo/assets/img/hot.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/mchammer.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/microfab.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/new.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/new2.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/progress.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/rainbow.gif
${PYSITELIB}/multiqc/templates/geo/assets/img/stars.gif
${PYSITELIB}/multiqc/templates/geo/includes.html
${PYSITELIB}/multiqc/templates/sections/__init__.py
${PYSITELIB}/multiqc/templates/sections/__init__.pyc
${PYSITELIB}/multiqc/templates/sections/__init__.pyo
${PYSITELIB}/multiqc/templates/sections/content.html
${PYSITELIB}/multiqc/templates/simple/__init__.py
${PYSITELIB}/multiqc/templates/simple/__init__.pyc
${PYSITELIB}/multiqc/templates/simple/__init__.pyo
${PYSITELIB}/multiqc/templates/simple/foot.html
${PYSITELIB}/multiqc/templates/simple/header.html
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${PYSITELIB}/multiqc/templates/simple/nav.html
${PYSITELIB}/multiqc/templates/simple/toolbox.html
${PYSITELIB}/multiqc/utils/__init__.py
${PYSITELIB}/multiqc/utils/__init__.pyc
${PYSITELIB}/multiqc/utils/__init__.pyo
${PYSITELIB}/multiqc/utils/config.py
${PYSITELIB}/multiqc/utils/config.pyc
${PYSITELIB}/multiqc/utils/config.pyo
${PYSITELIB}/multiqc/utils/config_defaults.yaml
${PYSITELIB}/multiqc/utils/lint_helpers.py
${PYSITELIB}/multiqc/utils/lint_helpers.pyc
${PYSITELIB}/multiqc/utils/lint_helpers.pyo
${PYSITELIB}/multiqc/utils/log.py
${PYSITELIB}/multiqc/utils/log.pyc
${PYSITELIB}/multiqc/utils/log.pyo
${PYSITELIB}/multiqc/utils/megaqc.py
${PYSITELIB}/multiqc/utils/megaqc.pyc
${PYSITELIB}/multiqc/utils/megaqc.pyo
${PYSITELIB}/multiqc/utils/mqc_colour.py
${PYSITELIB}/multiqc/utils/mqc_colour.pyc
${PYSITELIB}/multiqc/utils/mqc_colour.pyo
${PYSITELIB}/multiqc/utils/plugin_hooks.py
${PYSITELIB}/multiqc/utils/plugin_hooks.pyc
${PYSITELIB}/multiqc/utils/plugin_hooks.pyo
${PYSITELIB}/multiqc/utils/profile_runtime.py
${PYSITELIB}/multiqc/utils/profile_runtime.pyc
${PYSITELIB}/multiqc/utils/profile_runtime.pyo
${PYSITELIB}/multiqc/utils/report.py
${PYSITELIB}/multiqc/utils/report.pyc
${PYSITELIB}/multiqc/utils/report.pyo
${PYSITELIB}/multiqc/utils/search_patterns.yaml
${PYSITELIB}/multiqc/utils/util_functions.py
${PYSITELIB}/multiqc/utils/util_functions.pyc
${PYSITELIB}/multiqc/utils/util_functions.pyo
File Added: pkgsrc/biology/py-multiqc/distinfo
$NetBSD: distinfo,v 1.1 2023/07/22 13:18:52 bacon Exp $

BLAKE2s (multiqc-1.14.tar.gz) = c242a4114ee7e84cb98c646d997d29445ad0886c6345c88a5189be4ebf986d20
SHA512 (multiqc-1.14.tar.gz) = 4dca7bcc94ae1906812046984c2aee0d48ec58987483b27a29c473798f4ed06ded33d0b7e1a46c71642392c6c39f7cc1cee6d97cfdabd80c42eb519be7c86e9f
Size (multiqc-1.14.tar.gz) = 1054868 bytes
SHA1 (patch-multiqc_multiqc.py) = 666b3c1a7af2a05582d38540fbfdc32a264120ff
File Added: pkgsrc/biology/py-multiqc/patches/patch-multiqc_multiqc.py
$NetBSD: patch-multiqc_multiqc.py,v 1.1 2023/07/22 13:18:53 bacon Exp $

# Ensure proper terminal output

--- multiqc/multiqc.py.orig	2023-05-11 13:19:10 UTC
+++ multiqc/multiqc.py
@@ -24,7 +24,13 @@ from urllib.request import urlopen
 
 import jinja2
 import rich
-import rich_click as click
+if 'LC_ALL' in os.environ and 'LANG' in os.environ:
+    import rich_click as click
+else:
+    print('multiqc: LC_ALL and LANG must be set to a UTF-8 character set')
+    print('in your environment in order for the click module to function.')
+    print('E.g. export LC_ALL=en_US.UTF-8 or setenv LC_ALL en_US.UTF-8')
+    sys.exit()
 from rich.syntax import Syntax
 
 from .plots import table