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Renovate Dashboard 🤖 #4211

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renovate bot opened this issue Oct 24, 2023 · 0 comments
Open

Renovate Dashboard 🤖 #4211

renovate bot opened this issue Oct 24, 2023 · 0 comments

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renovate bot commented Oct 24, 2023 •
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This issue lists Renovate updates and detected dependencies. Read the Dependency Dashboard docs to learn more.

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  • Pin dependencies (biocontainers/10x_bamtofastq, biocontainers/abacas, biocontainers/abricate, biocontainers/abritamr, biocontainers/adapterremoval, biocontainers/adapterremovalfixprefix, biocontainers/admixture, biocontainers/agat, biocontainers/agrvate, biocontainers/ale, biocontainers/ampcombi, biocontainers/amplify, biocontainers/angsd, biocontainers/antismash-lite, biocontainers/arcas-hla, biocontainers/argnorm, biocontainers/ariba, biocontainers/arriba, biocontainers/art, biocontainers/artic, biocontainers/ashlar, biocontainers/assembly-scan, biocontainers/ataqv, biocontainers/atlas, biocontainers/atlas-gene-annotation-manipulation, biocontainers/authentict, biocontainers/bakta, biocontainers/bam2fastx, biocontainers/bamaligncleaner, biocontainers/bamclipper, biocontainers/bamcmp, biocontainers/bamstats, biocontainers/bamtools, biocontainers/bamutil, biocontainers/bandage, biocontainers/barrnap, biocontainers/bbmap, biocontainers/bcftools, biocontainers/beagle, biocontainers/bedgovcf, biocontainers/bedops, biocontainers/bedtools, biocontainers/bio_hansel, biocontainers/bioawk, biocontainers/biobambam, biocontainers/bioconductor-affy, biocontainers/bioconductor-anota2seq, biocontainers/bioconductor-deseq2, biocontainers/bioconductor-dupradar, biocontainers/bioconductor-geoquery, biocontainers/bioconductor-rtn, biocontainers/bioconductor-summarizedexperiment, biocontainers/bioconductor-tximeta, biocontainers/bismark, biocontainers/blast, biocontainers/blat, biocontainers/bowtie2, biocontainers/bracken, biocontainers/busco, biocontainers/bwa, biocontainers/bwa-mem2, biocontainers/bwa-meme, biocontainers/bwameth, biocontainers/cafe, biocontainers/cancerit-allelecount, biocontainers/canu, biocontainers/cd-hit, biocontainers/cellsnp-lite, biocontainers/centrifuge, biocontainers/checkm-genome, biocontainers/checkm2, biocontainers/checkv, biocontainers/chewbbaca, biocontainers/chopper, biocontainers/chromap, biocontainers/chromograph, biocontainers/circexplorer2, biocontainers/circularmapper, biocontainers/clame, biocontainers/clipkit, biocontainers/clippy, biocontainers/clonalframeml, biocontainers/clustalo, biocontainers/cmseq, biocontainers/cnvkit, biocontainers/cnvnator, biocontainers/cnvpytor, biocontainers/cobra-meta, biocontainers/concoct, biocontainers/conifer, biocontainers/control-freec, biocontainers/cooler, biocontainers/coptr, biocontainers/coverm, biocontainers/crumble, biocontainers/csvtk, biocontainers/cutadapt, biocontainers/cutesv, biocontainers/damageprofiler, biocontainers/das_tool, biocontainers/dedup, biocontainers/deeparg, biocontainers/deepbgc, biocontainers/deeptools, biocontainers/delly, biocontainers/demuxem, biocontainers/diamond, biocontainers/dragmap, biocontainers/dragonflye, biocontainers/dsh-bio, biocontainers/duphold, biocontainers/ectyper, biocontainers/eggnog-mapper, biocontainers/eigenstratdatabasetools, biocontainers/eklipse, biocontainers/elprep, biocontainers/emboss, biocontainers/emmtyper, biocontainers/endorspy, biocontainers/ensembl-vep, biocontainers/entrez-direct, biocontainers/epa-ng, biocontainers/est-sfs, biocontainers/evigene, biocontainers/expansionhunter, biocontainers/expansionhunterdenovo, biocontainers/falco, biocontainers/famsa, biocontainers/faqcs, biocontainers/fargene, biocontainers/fasta_windows, biocontainers/fastani, biocontainers/fastme, biocontainers/fastp, biocontainers/fastq-scan, biocontainers/fastqc, biocontainers/fastqe, biocontainers/fasttree, biocontainers/fastx_toolkit, biocontainers/ffq, biocontainers/filtlong, biocontainers/flash, biocontainers/foldcomp, biocontainers/foldseek, biocontainers/fq, biocontainers/fqtk, biocontainers/freebayes, biocontainers/freyja, biocontainers/galah, biocontainers/gamma, biocontainers/gangstr, biocontainers/gappa, biocontainers/gatk, biocontainers/gatk4-spark, biocontainers/gecco, biocontainers/gem2, biocontainers/gem3-mapper, biocontainers/genmap, biocontainers/genmod, biocontainers/genomad, biocontainers/genomescope2, biocontainers/genometools-genometools, biocontainers/genotyphi, biocontainers/genrich, biocontainers/geofetch, biocontainers/getorganelle, biocontainers/gfaffix, biocontainers/gfastats, biocontainers/gfatools, biocontainers/gffcompare, biocontainers/gffread, biocontainers/gget, biocontainers/glimpse-bio, biocontainers/glnexus, biocontainers/gmm-demux, biocontainers/goat, biocontainers/goleft, biocontainers/grabix, biocontainers/graphmap, biocontainers/graphtyper, biocontainers/gridss, biocontainers/gs-tama, biocontainers/gsea, biocontainers/gtfsort, biocontainers/gubbins, biocontainers/gunc, biocontainers/gvcftools, biocontainers/gzrt, biocontainers/hamronization, biocontainers/hap-ibd, biocontainers/hap.py, biocontainers/haplocheck, biocontainers/haplogrep, biocontainers/hicap, biocontainers/hicexplorer, biocontainers/hifiasm, biocontainers/hiphase, biocontainers/hisat2, biocontainers/hla-la, biocontainers/hmmcopy, biocontainers/hmmer, biocontainers/hmtnote, biocontainers/hops, biocontainers/hostile, biocontainers/hpsuissero, biocontainers/hts-nim-tools, biocontainers/htseq, biocontainers/htslib, biocontainers/humid, biocontainers/hypo, biocontainers/icount-mini, biocontainers/idemux, biocontainers/idr, biocontainers/igv-reports, biocontainers/instrain, biocontainers/interproscan, biocontainers/iphop, biocontainers/iqtree, biocontainers/irescue, biocontainers/islandpath, biocontainers/ismapper, biocontainers/isoseq, biocontainers/isoseq3, biocontainers/ivar, biocontainers/jasminesv, biocontainers/jvarkit, biocontainers/kaiju, biocontainers/kallisto, biocontainers/kat, biocontainers/kb-python, biocontainers/khmer, biocontainers/kleborate, biocontainers/kmcp, biocontainers/kofamscan, biocontainers/krakentools, biocontainers/krakenuniq, biocontainers/krona, biocontainers/last, biocontainers/leehom, biocontainers/legsta, biocontainers/leviosam2, biocontainers/liftoff, biocontainers/lima, biocontainers/lissero, biocontainers/lofreq, biocontainers/longphase, biocontainers/ltr_finder_parallel, biocontainers/ltr_harvest_parallel, biocontainers/ltr_retriever, biocontainers/macrel, biocontainers/macs2, biocontainers/macs3, biocontainers/mafft, biocontainers/mageck, biocontainers/magus-msa, biocontainers/malt, biocontainers/manta, biocontainers/mapad, biocontainers/mapdamage2, biocontainers/mash, biocontainers/mashmap, biocontainers/mashtree, biocontainers/maxbin2, biocontainers/mcroni, biocontainers/medaka, biocontainers/megan, biocontainers/meningotype, biocontainers/merfin, biocontainers/merqury, biocontainers/meryl, biocontainers/metabat2, biocontainers/metaeuk, biocontainers/metamaps, biocontainers/metamdbg, biocontainers/metaphlan, biocontainers/methyldackel, biocontainers/mgikit, biocontainers/midas, biocontainers/mindagap, biocontainers/minia, biocontainers/miniasm, biocontainers/minimap2, biocontainers/miniprot, biocontainers/miranda, biocontainers/mirdeep2, biocontainers/mirtrace, biocontainers/mlst, biocontainers/mmseqs2, biocontainers/mob_suite, biocontainers/motus, biocontainers/msisensor, biocontainers/msisensor-pro, biocontainers/msisensor2, biocontainers/mtnucratio, biocontainers/mudskipper, biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690, biocontainers/mulled-v2-03bfeb32fe80910c231f630d4262b83677c8c0f4, biocontainers/mulled-v2-058de387f9917a7a63953f496cdd203bca83b790, biocontainers/mulled-v2-12eba4a074f913c639117640936668f5a6a01da6, biocontainers/mulled-v2-19fa9f1a5c3966b63a24166365e81da35738c5ab, biocontainers/mulled-v2-1f09f39f20b1c4ee36581dc81cc323c70e661633, biocontainers/mulled-v2-240a9c1936dd6a68f46aa198b2629b6734a18428, biocontainers/mulled-v2-2e442ba7b07bfa102b9cf8fac6221263cd746ab8, biocontainers/mulled-v2-2fe9a8ce513c91df34b43a6610df94c3a2eb3bd0, biocontainers/mulled-v2-31ad840d814d356e5f98030a4ee308a16db64ec5, biocontainers/mulled-v2-3712554873398d849d0d11b22440f41febbc4ede, biocontainers/mulled-v2-375a758a4ca8c128fb9d38047a68a9f4322d2acd, biocontainers/mulled-v2-40295ae41112676b05b649e513fe7000675e9b84, biocontainers/mulled-v2-4b749ef583d6de806ddbf51c2d235ac8c14763c6, biocontainers/mulled-v2-4cefc38542f86c17596c29b35a059de10387c6a7, biocontainers/mulled-v2-503e259d7d34ce533ce66c4c8871af4ab409db6d, biocontainers/mulled-v2-514b1a5d280c7043110b2a8d0a87b57ba392a963, biocontainers/mulled-v2-53dae514294fca7b44842b784ed85a5303ac2d80, biocontainers/mulled-v2-580d344d9d4a496cd403932da8765f9e0187774d, biocontainers/mulled-v2-582ac26068889091d5e798347c637f8208d77a71, biocontainers/mulled-v2-5bcf71dc66dac33d8e003c5e78043b80f5c7f269, biocontainers/mulled-v2-5cd0277547c6b33133225c8ce14c0cf2a4396ea2, biocontainers/mulled-v2-5ce2a0c04652b0d0cc87f012a2240e1e5a90bc90, biocontainers/mulled-v2-5e3fd88c6b8af48bb5982d5721ca5e36da94029b, biocontainers/mulled-v2-5f89fe0cd045cb1d615630b9261a1d17943a9b6a, biocontainers/mulled-v2-66534bcbb7031a148b13e2ad42583020b9cd25c4, biocontainers/mulled-v2-731b8c4cf44d76e9aa181af565b9eee448d82a8c, biocontainers/mulled-v2-741e0da5cf2d6d964f559672e2908c2111cbb46b, biocontainers/mulled-v2-780d630a9bb6a0ff2e7b6f730906fd703e40e98f, biocontainers/mulled-v2-796b0610595ad1995b121d0b85375902097b78d4, biocontainers/mulled-v2-805c6e0f138f952f9c61cdd57c632a1a263ea990, biocontainers/mulled-v2-8706a1dd73c6cc426e12dd4dd33a5e917b3989ae, biocontainers/mulled-v2-8eb01a3c2755c935d070dd03ff2dee698eeb4466, biocontainers/mulled-v2-a76a981c07359a31ff55b9dc13bd3da5ce1909c1, biocontainers/mulled-v2-a97e90b3b802d1da3d6958e0867610c718cb5eb1, biocontainers/mulled-v2-ac74a7f02cebcfcc07d8e8d1d750af9c83b4d45a, biocontainers/mulled-v2-ae4ea1182e75371808710b6c081bef8b228c4815, biocontainers/mulled-v2-b2ec1fea5791d428eebb8c8ea7409c350d31dada, biocontainers/mulled-v2-b6fc09bed47d0dc4d8384ce9e04af5806f2cc91b, biocontainers/mulled-v2-c278c7398beb73294d78639a864352abef2931ce, biocontainers/mulled-v2-cf0123ef83b3c38c13e3b0696a3f285d3f20f15b, biocontainers/mulled-v2-d3934ca6bb4e61334891ffa2e9a4c87a530e3188, biocontainers/mulled-v2-d626bb8ec5a659accfbd8490bc1ac4a940722258, biocontainers/mulled-v2-d9e7bad0f7fbc8f4458d5c3ab7ffaaf0235b59fb, biocontainers/mulled-v2-e16bfb0f667f2f3c236b32087aaf8c76a0cd2864, biocontainers/mulled-v2-e5d375990341c5aef3c9aff74f96f66f65375ef6, biocontainers/mulled-v2-eb9e7907c7a753917c1e4d7a64384c047429618a, biocontainers/mulled-v2-ed29b84fa94419f5a7bf6a841ddbcb964768825b, biocontainers/mulled-v2-f13549097a0d1ca36f9d4f017636fb3609f6c083, biocontainers/mulled-v2-f24f1399a77784f913670cbb36a0f17b78e0631b, biocontainers/mulled-v2-f3579993d544920cc7c09e8ddf77569e95ea8950, biocontainers/mulled-v2-f3591ce8609c7b3b33e5715333200aa5c163aa61, biocontainers/mulled-v2-fb3127231a8f88daa68d5eb0eec49593cd98b440, biocontainers/mulled-v2-fe8faa35dbf6dc65a0f7f5d4ea12e31a79f73e40, biocontainers/multiqc, biocontainers/multivcfanalyzer, biocontainers/mummer, biocontainers/muscle, biocontainers/mygene, biocontainers/mykrobe, biocontainers/nanocomp, biocontainers/nanofilt, biocontainers/nanolyse, biocontainers/nanomonsv, biocontainers/nanoplot, biocontainers/narfmap, biocontainers/ncbi-amrfinderplus, biocontainers/ncbi-fcs-gx, biocontainers/ncbi-genome-download, biocontainers/nextclade, biocontainers/nextgenmap, biocontainers/ngmaster, biocontainers/ngmerge, biocontainers/ngs-bits, biocontainers/ngscheckmate, biocontainers/nonpareil, biocontainers/odgi, biocontainers/ont-modkit, biocontainers/openms, biocontainers/openms-thirdparty, biocontainers/orthofinder, biocontainers/pairix, biocontainers/pairtools, biocontainers/panacus, biocontainers/panaroo, biocontainers/paraclu, biocontainers/paragraph, biocontainers/pasty, biocontainers/pbbam, biocontainers/pbccs, biocontainers/pbmm2, biocontainers/pbptyper, biocontainers/pbsv, biocontainers/pbtk, biocontainers/pear, biocontainers/peddy, biocontainers/peka, biocontainers/pharokka, biocontainers/phispy, biocontainers/phyloflash, biocontainers/picard, biocontainers/pilon, biocontainers/pindel, biocontainers/pirate, biocontainers/plasmidfinder, biocontainers/plasmidid, biocontainers/platypus-variant, biocontainers/plink, biocontainers/plink2, biocontainers/pmdtools, biocontainers/pneumocat, biocontainers/poolsnp, biocontainers/popscle, biocontainers/porechop, biocontainers/porechop_abi, biocontainers/preseq, biocontainers/president, biocontainers/presto, biocontainers/pretextsnapshot, biocontainers/prinseq-plus-plus, biocontainers/prokka, biocontainers/proovframe, biocontainers/proteinortho, biocontainers/pureclip, biocontainers/purge_dups, biocontainers/py_fasta_validator, biocontainers/pybiolib, biocontainers/pycoqc, biocontainers/pydamage, biocontainers/pypgx, biocontainers/python, biocontainers/qcat, biocontainers/qualimap, biocontainers/quast, biocontainers/r-calder2, biocontainers/r-crisprcleanr, biocontainers/r-ichorcna, biocontainers/r-quilt, biocontainers/r-shinyngs, biocontainers/r-stitch, biocontainers/racon, biocontainers/rasusa, biocontainers/raven-assembler, biocontainers/raxml-ng, biocontainers/repeatmodeler, biocontainers/resfinder, biocontainers/rgi, biocontainers/rhocall, biocontainers/ribotish, biocontainers/ribotricer, biocontainers/ribowaltz, biocontainers/roary, biocontainers/rseqc, biocontainers/rtg-tools, biocontainers/sage-proteomics, biocontainers/salmon, biocontainers/salsa2, biocontainers/sam2lca, biocontainers/sambamba, biocontainers/samtools, biocontainers/scoary, biocontainers/scramble, biocontainers/segemehl, biocontainers/semibin, biocontainers/seqcluster, biocontainers/seqfu, biocontainers/seqkit, biocontainers/seqsero2, biocontainers/seqtk, biocontainers/sequencetools, biocontainers/sequenza-utils, biocontainers/seqwish, biocontainers/seroba, biocontainers/severus, biocontainers/sexdeterrmine, biocontainers/sgdemux, biocontainers/shapeit5, biocontainers/shasta, biocontainers/shigatyper, biocontainers/shigeifinder, biocontainers/shovill, biocontainers/sickle-trim, biocontainers/simpleaf, biocontainers/sistr_cmd, biocontainers/ska, biocontainers/slimfastq, biocontainers/smncopynumbercaller, biocontainers/smoothxg, biocontainers/smoove, biocontainers/snakemake, biocontainers/snap-aligner, biocontainers/sniffles, biocontainers/snippy, biocontainers/snp-dists, biocontainers/snp-sites, biocontainers/snpeff, biocontainers/snpsift, biocontainers/somalier, biocontainers/sortmerna, biocontainers/sourcepredict, biocontainers/sourmash, biocontainers/spades, biocontainers/spatyper, biocontainers/splitubam, biocontainers/spring, biocontainers/sra-tools, biocontainers/ssuissero, biocontainers/staden_io_lib, biocontainers/staphopia-sccmec, biocontainers/star, biocontainers/staramr, biocontainers/stecfinder, biocontainers/stranger, biocontainers/strelka, biocontainers/stringtie, biocontainers/survivor, biocontainers/svaba, biocontainers/svanalyzer, biocontainers/svdb, biocontainers/svtk, biocontainers/svtyper, biocontainers/svync, biocontainers/sylph, biocontainers/t-coffee, biocontainers/taxonkit, biocontainers/taxpasta, biocontainers/tb-profiler, biocontainers/thermorawfileparser, biocontainers/tiddit, biocontainers/tidk, biocontainers/topas, biocontainers/toulligqc, biocontainers/transdecoder, biocontainers/trgt, biocontainers/trim-galore, biocontainers/trimmomatic, biocontainers/trinity, biocontainers/trust4, biocontainers/truvari, biocontainers/trycycler, biocontainers/tsebra, biocontainers/ucsc-bedclip, biocontainers/ucsc-bedgraphtobigwig, biocontainers/ucsc-bedtobigbed, biocontainers/ucsc-bigwigaverageoverbed, biocontainers/ucsc-gtftogenepred, biocontainers/ucsc-liftover, biocontainers/ucsc-wigtobigwig, biocontainers/ultra_bioinformatics, biocontainers/ultraplex, biocontainers/umi_tools, biocontainers/umicollapse, biocontainers/unicycler, biocontainers/upd, biocontainers/variantbam, biocontainers/varlociraptor, biocontainers/vcf2cytosure, biocontainers/vcfanno, biocontainers/vcflib, biocontainers/vcftools, biocontainers/velocyto.py, biocontainers/verifybamid, biocontainers/verifybamid2, biocontainers/vg, biocontainers/viennarna, biocontainers/vireosnp, biocontainers/vrhyme, biocontainers/vsearch, biocontainers/vt, biocontainers/wfmash, biocontainers/wgsim, biocontainers/wisecondorx, biocontainers/xengsort, biocontainers/yahs, biocontainers/yak, biocontainers/yara, community.wave.seqera.io/library/anndata, community.wave.seqera.io/library/annotsv, community.wave.seqera.io/library/biscuit, community.wave.seqera.io/library/cellbender, community.wave.seqera.io/library/coreutils, community.wave.seqera.io/library/datavzrd, community.wave.seqera.io/library/fgbio, community.wave.seqera.io/library/flye, community.wave.seqera.io/library/hmmer, community.wave.seqera.io/library/htslib_samtools, community.wave.seqera.io/library/phantompeakqualtools, community.wave.seqera.io/library/regtools, community.wave.seqera.io/library/scvi-tools, community.wave.seqera.io/library/sentieon, community.wave.seqera.io/library/sequali, condaforge/mambaforge)
  • Update dotnet monorepo (mcr.microsoft.com/dotnet/runtime, mcr.microsoft.com/dotnet/sdk)
  • Update biocontainers/cnvkit Docker tag to v0.9.12
  • Update biocontainers/das_tool Docker tag to v1.1.5
  • Update biocontainers/diamond Docker tag to v2.1.10
  • Update biocontainers/elprep Docker tag to v5.1.3
  • Update biocontainers/freyja Docker tag to v1.5.2
  • Update biocontainers/gfaffix Docker tag to v0.1.5
  • Update biocontainers/hicexplorer Docker tag to v3.7.3
  • Update biocontainers/iphop Docker tag to v1.3.3
  • Update biocontainers/kaiju Docker tag to v1.10.1
  • Update biocontainers/kmcp Docker tag to v0.9.4
  • Update biocontainers/mgikit Docker tag to v0.1.7
  • Update biocontainers/multiqc Docker tag
  • Update biocontainers/odgi Docker tag to v0.8.6
  • Update biocontainers/pasty Docker tag to v1.0.3
  • Update biocontainers/pbptyper Docker tag to v1.0.4
  • Update biocontainers/peka Docker tag to v1.0.2
  • Update biocontainers/pharokka Docker tag to v1.7.4
  • Update biocontainers/presto Docker tag to v0.7.2
  • Update biocontainers/proteinortho Docker tag to v6.3.3
  • Update biocontainers/repeatmodeler Docker tag to v2.0.6
  • Update biocontainers/shigeifinder Docker tag to v1.3.5
  • Update biocontainers/sourmash Docker tag to v4.8.11
  • Update biocontainers/stecfinder Docker tag to v1.1.2
  • Update biocontainers/thermorawfileparser Docker tag to v1.4.5
  • Update biocontainers/trycycler Docker tag to v0.5.5
  • Update biocontainers/xengsort Docker tag to v2.0.8
  • Update dependency bioconda/mosdepth to v0.3.10
  • Update dependency nextflow-io/nextflow to v24.10.2
  • Update biocontainers/ampcombi Docker tag to v0.2.2
  • Update biocontainers/arcas-hla Docker tag to v0.6.0
  • Update biocontainers/argnorm Docker tag to v0.6.0
  • Update biocontainers/artic Docker tag to v1.5.6
  • Update biocontainers/ashlar Docker tag to v1.19.0
  • Update biocontainers/bakta Docker tag to v1.10.1
  • Update biocontainers/bbmap Docker tag to v39.13
  • Update biocontainers/bcftools Docker tag to v1.21
  • Update biocontainers/bioconductor-affy Docker tag to v1.80.0
  • Update biocontainers/busco Docker tag to v5.8.1
  • Update biocontainers/cnvpytor Docker tag to v1.3.1
  • Update biocontainers/csvtk Docker tag to v0.31.0
  • Update biocontainers/cutadapt Docker tag to v4.7
  • Update biocontainers/cutesv Docker tag to v2.1.1
  • Update biocontainers/dragonflye Docker tag to v1.2.1
  • Update biocontainers/ensembl-vep Docker tag to v113.3
  • Update biocontainers/ffq Docker tag to v0.3.1
  • Update biocontainers/gamma Docker tag to v2.2
  • Update biocontainers/gatk Docker tag to v3.8
  • Update biocontainers/genomad Docker tag to v1.8.1
  • Update biocontainers/instrain Docker tag to v1.9.0
  • Update biocontainers/isoseq Docker tag to v4.2.0
  • Update biocontainers/leviosam2 Docker tag to v0.5.0
  • Update biocontainers/lima Docker tag to v2.12.0
  • Update biocontainers/macrel Docker tag to v1.5.0
  • Update biocontainers/malt Docker tag to v0.62
  • Update biocontainers/medaka Docker tag to v1.5.0
  • Update biocontainers/megan Docker tag to v6.25.9
  • Update biocontainers/metaphlan Docker tag to v3.1.0
  • Update biocontainers/motus Docker tag to v3.1.0
  • Update biocontainers/nanocomp Docker tag to v1.23.1
  • Update biocontainers/nanomonsv Docker tag to v0.7.2
  • Update biocontainers/nanoplot Docker tag to v1.43.0
  • Update biocontainers/nextclade Docker tag to v3.9.1
  • Update biocontainers/ont-modkit Docker tag to v0.4.1
  • Update biocontainers/panaroo Docker tag to v1.5.1
  • Update biocontainers/pbmm2 Docker tag to v1.16.0
  • Update biocontainers/pbsv Docker tag to v2.10.0
  • Update biocontainers/pbtk Docker tag to v3.4.0
  • Update biocontainers/picard Docker tag to v3.3.0
  • Update biocontainers/pybiolib Docker tag to v1.2.243
  • Update biocontainers/pydamage Docker tag to v0.80
  • Update biocontainers/r-stitch Docker tag to v1.7.2
  • Update biocontainers/raven-assembler Docker tag to v1.7.0
  • Update biocontainers/raxml-ng Docker tag to v1.1.0
  • Update biocontainers/ribotricer Docker tag to v1.4.0
  • Update biocontainers/semibin Docker tag to v1.5.0
  • Update biocontainers/seqfu Docker tag to v1.22.3
  • Update biocontainers/seqkit Docker tag to v2.9.0
  • Update biocontainers/severus Docker tag to v1.2
  • Update biocontainers/sgdemux Docker tag to v1.2.0
  • Update biocontainers/simpleaf Docker tag to v0.16.2
  • Update biocontainers/smoothxg Docker tag to v0.8.0
  • Update biocontainers/snakemake Docker tag to v7.32.4
  • Update biocontainers/snpsift Docker tag to v5.2
  • Update biocontainers/sra-tools Docker tag to v3.1.0
  • Update biocontainers/taxonkit Docker tag to v0.18.0
  • Update biocontainers/toulligqc Docker tag to v2.7.1
  • Update biocontainers/trgt Docker tag to v1.4.1
  • Update biocontainers/trust4 Docker tag to v1.1.4
  • Update biocontainers/truvari Docker tag to v4.3.1
  • Update biocontainers/vg Docker tag to v1.61.0
  • Update biocontainers/wfmash Docker tag to v0.21.0
  • Update dependency bioconda/cyvcf2 to v0.31.1
  • Update dependency bioconda/htslib to v1.21
  • Update dependency bioconda/samtools to v1.21
  • Update dependency conda-forge/jupyter to v1.1.1
  • Update dependency conda-forge/matplotlib to v3.9.3
  • Update dependency conda-forge/papermill to v2.6.0
  • Update dependency conda-forge/r-rmarkdown to v2.29
  • Update pre-commit hook astral-sh/ruff-pre-commit to v0.8.1
  • Update pre-commit hook python-jsonschema/check-jsonschema to v0.30.0
  • Update biocontainers/ampcombi Docker tag to v2
  • Update biocontainers/assembly-scan Docker tag to v1
  • Update biocontainers/fastq-scan Docker tag to v1
  • Update biocontainers/last Docker tag to v1595
  • Update biocontainers/ltr_retriever Docker tag to v3
  • Update biocontainers/metaphlan Docker tag to v4
  • Update biocontainers/ncbi-amrfinderplus Docker tag to v4
  • Update biocontainers/pasty Docker tag to v2
  • Update biocontainers/pbptyper Docker tag to v2
  • Update biocontainers/snakemake Docker tag to v8
  • Update biocontainers/tb-profiler Docker tag to v4
  • Update dependency conda-forge/python to v3

Edited/Blocked

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Warning

Renovate failed to look up the following dependencies: Could not determine new digest for update (docker package ghcr.io/devcontainers/features/github-cli), Could not determine new digest for update (docker package ghcr.io/devcontainers/features/docker-in-docker), Failed to look up docker package docker/dockerfile, Failed to look up docker package continuumio/miniconda3, Failed to look up docker package tensorflow/tensorflow, Failed to look up docker package nfcore/base, Failed to look up docker package mambaorg/micromamba, Failed to look up docker package ubuntu, Failed to look up github-releases package nextflow/nextflow.

Files affected: .devcontainer/devcontainer.json, modules/nf-core/bclconvert/Dockerfile, modules/nf-core/cellranger/mkfastq/Dockerfile, modules/nf-core/cellrangerarc/Dockerfile, modules/nf-core/cellrangerarc/mkfastq/Dockerfile, modules/nf-core/cellrangeratac/Dockerfile, modules/nf-core/cellrangeratac/mkfastq/Dockerfile, modules/nf-core/coreograph/Dockerfile, modules/nf-core/ensemblvep/Dockerfile, modules/nf-core/snpeff/Dockerfile, modules/nf-core/spaceranger/Dockerfile, modules/nf-core/xeniumranger/Dockerfile, .github/workflows/lint.yml, .github/workflows/nf-test.yml, .github/workflows/wave.yml

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Detected dependencies

Note

Detected dependencies section has been truncated

devcontainer
.devcontainer/devcontainer.json
  • ghcr.io/devcontainers/features/github-cli 1@sha256:464564228ccdd6028f01f8a62a3cfbaf76e9ba7953b29ac0e53ba2c262604312
  • ghcr.io/devcontainers/features/docker-in-docker 2.9@sha256:9074d8eaf4585ab1498c81a8762078992725614fc7a9cfafe799aa22717a6bbf
dockerfile
modules/nf-core/bcl2fastq/Dockerfile
  • debian bullseye-slim
modules/nf-core/bclconvert/Dockerfile
  • docker/dockerfile 1
  • debian bullseye-slim
modules/nf-core/cellranger/Dockerfile
  • docker.io/continuumio/miniconda3 22.11.1@sha256:10b38c9a8a51692838ce4517e8c74515499b68d58c8a2000d8a9df7f0f08fc5e
modules/nf-core/cellranger/mkfastq/Dockerfile
  • continuumio/miniconda3 4.8.2
modules/nf-core/cellrangerarc/Dockerfile
  • continuumio/miniconda3 4.8.2
modules/nf-core/cellrangerarc/mkfastq/Dockerfile
  • continuumio/miniconda3 4.8.2
modules/nf-core/cellrangeratac/Dockerfile
  • continuumio/miniconda3 4.8.2
modules/nf-core/cellrangeratac/mkfastq/Dockerfile
  • continuumio/miniconda3 4.8.2
modules/nf-core/coreograph/Dockerfile
  • tensorflow/tensorflow 1.15.0-py3
modules/nf-core/ensemblvep/Dockerfile
  • nfcore/base 1.14
modules/nf-core/quartonotebook/Dockerfile
  • condaforge/mambaforge 24.9.2-0
modules/nf-core/snpeff/Dockerfile
  • nfcore/base 2.1
modules/nf-core/spaceranger/Dockerfile
  • docker/dockerfile 1
  • mambaorg/micromamba 1.5.10-noble
modules/nf-core/wittyer/Dockerfile
  • mcr.microsoft.com/dotnet/sdk 9.0@sha256:7d24e90a392e88eb56093e4eb325ff883ad609382a55d42f17fd557b997022ca
  • mcr.microsoft.com/dotnet/runtime 9.0@sha256:1e5eb0ed94ca96a34a914456db80e48bd1bb7bc3e3c8eda5e2c3d89c153c3081
modules/nf-core/xeniumranger/Dockerfile
  • ubuntu 20.04
  • ubuntu 20.04
github-actions
.github/actions/nf-test-action/action.yml
  • actions/setup-java v4@8df1039502a15bceb9433410b1a100fbe190c53b
  • nf-core/setup-nextflow v2
  • actions/setup-python v5@0b93645e9fea7318ecaed2b359559ac225c90a2b
  • nf-core/setup-nf-test v1
  • eWaterCycle/setup-apptainer main
  • conda-incubator/setup-miniconda v3@d2e6a045a86077fb6cad6f5adf368e9076ddaa8d
  • pcolby/tap-summary v1@0959cbe1d4422e62afc65778cdaea6716c41d936
.github/workflows/clean-up.yml
  • actions/stale v9@28ca1036281a5e5922ead5184a1bbf96e5fc984e
.github/workflows/fix-linting.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • peter-evans/create-or-update-comment v4@71345be0265236311c031f5c7866368bd1eff043
  • actions/setup-node v4@39370e3970a6d050c480ffad4ff0ed4d3fdee5af
  • peter-evans/create-or-update-comment v4@71345be0265236311c031f5c7866368bd1eff043
.github/workflows/gpu-tests.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
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  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
.github/workflows/lint.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • actions/setup-python v5@0b93645e9fea7318ecaed2b359559ac225c90a2b
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  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • dorny/paths-filter v3@de90cc6fb38fc0963ad72b210f1f284cd68cea36
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  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
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  • actions/cache v4@6849a6489940f00c2f30c0fb92c6274307ccb58a
  • actions/setup-java v4@8df1039502a15bceb9433410b1a100fbe190c53b
  • nf-core/setup-nextflow v2
.github/workflows/nf-test.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • adamrtalbot/detect-nf-test-changes v0.0.6@de3c3c8e113031b4f15a3c1104b5f135e8346997
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
.github/workflows/pytest-workflow.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • dorny/paths-filter v3@de90cc6fb38fc0963ad72b210f1f284cd68cea36
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • actions/setup-python v5@0b93645e9fea7318ecaed2b359559ac225c90a2b
  • actions/cache v4@6849a6489940f00c2f30c0fb92c6274307ccb58a
  • actions/setup-java v4@8df1039502a15bceb9433410b1a100fbe190c53b
  • nf-core/setup-nextflow v2
  • eWaterCycle/setup-apptainer main
  • conda-incubator/setup-miniconda v3@d2e6a045a86077fb6cad6f5adf368e9076ddaa8d
  • actions/github-script v7@60a0d83039c74a4aee543508d2ffcb1c3799cdea
  • actions/upload-artifact v4@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882
.github/workflows/wave.yml
  • actions/checkout v4@11bd71901bbe5b1630ceea73d27597364c9af683
  • tj-actions/changed-files v45@4edd678ac3f81e2dc578756871e4d00c19191daf
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pre-commit
.pre-commit-config.yaml
  • pre-commit/mirrors-prettier v3.1.0
  • python-jsonschema/check-jsonschema 0.29.4
  • astral-sh/ruff-pre-commit v0.7.3
  • editorconfig-checker/editorconfig-checker.python 3.0.3
regex
modules/nf-core/abacas/main.nf
  • biocontainers/abacas 1.3.1--pl526_0
modules/nf-core/abricate/run/main.nf
  • biocontainers/abricate 1.0.1--ha8f3691_1
modules/nf-core/abricate/summary/main.nf
  • biocontainers/abricate 1.0.1--ha8f3691_1
modules/nf-core/abritamr/run/main.nf
  • biocontainers/abritamr 1.0.14--pyhdfd78af_0
modules/nf-core/adapterremoval/main.nf
  • biocontainers/adapterremoval 2.3.2--hb7ba0dd_0
modules/nf-core/adapterremovalfixprefix/main.nf
  • biocontainers/adapterremovalfixprefix 0.0.5--hdfd78af_2
modules/nf-core/admixture/main.nf
  • biocontainers/admixture 1.3.0--0
modules/nf-core/affy/justrma/main.nf
  • biocontainers/bioconductor-affy 1.78.0--r43ha9d7317_1
modules/nf-core/agat/convertspgff2gtf/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/convertspgff2tsv/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/convertspgxf2gxf/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/spaddintrons/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/spfilterfeaturefromkilllist/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/spmergeannotations/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/spstatistics/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agat/sqstatbasic/main.nf
  • biocontainers/agat 1.4.0--pl5321hdfd78af_0
modules/nf-core/agrvate/main.nf
  • biocontainers/agrvate 1.0.2--hdfd78af_0
modules/nf-core/ale/main.nf
  • biocontainers/ale 20180904--py27ha92aebf_0
modules/nf-core/allelecounter/main.nf
  • biocontainers/cancerit-allelecount 4.3.0--h41abebc_0
modules/nf-core/ampcombi/main.nf
  • biocontainers/ampcombi 0.1.7--pyhdfd78af_0
modules/nf-core/ampcombi2/cluster/main.nf
  • biocontainers/ampcombi 0.2.2--pyhdfd78af_0
modules/nf-core/ampcombi2/complete/main.nf
  • biocontainers/ampcombi 0.2.2--pyhdfd78af_0
modules/nf-core/ampcombi2/parsetables/main.nf
  • biocontainers/ampcombi 0.2.2--pyhdfd78af_0
modules/nf-core/amplify/predict/main.nf
  • biocontainers/amplify 2.0.0--py36hdfd78af_1
modules/nf-core/amps/main.nf
  • biocontainers/hops 0.35--hdfd78af_1
modules/nf-core/amrfinderplus/run/main.nf
  • biocontainers/ncbi-amrfinderplus 3.12.8--h283d18e_0
modules/nf-core/amrfinderplus/update/main.nf
  • biocontainers/ncbi-amrfinderplus 3.12.8--h283d18e_0
modules/nf-core/angsd/contamination/main.nf
  • biocontainers/angsd 0.940--hf5e1c6e_3
modules/nf-core/angsd/docounts/main.nf
  • biocontainers/angsd 0.939--h468462d_0
modules/nf-core/angsd/gl/main.nf
  • biocontainers/angsd 0.940--hce60e53_2
modules/nf-core/anndata/barcodes/main.nf
  • community.wave.seqera.io/library/anndata 0.10.9--1eab54e300e1e584
modules/nf-core/anndata/getsize/main.nf
  • community.wave.seqera.io/library/anndata 0.10.9--1eab54e300e1e584
modules/nf-core/annotsv/annotsv/main.nf
  • community.wave.seqera.io/library/annotsv 3.4.2--010fa21247b5b64b
modules/nf-core/annotsv/installannotations/main.nf
  • community.wave.seqera.io/library/annotsv 3.4.2--010fa21247b5b64b
modules/nf-core/anota2seq/anota2seqrun/main.nf
  • biocontainers/bioconductor-anota2seq 1.24.0--r43hdfd78af_0
modules/nf-core/antismash/antismashlite/main.nf
  • biocontainers/antismash-lite 7.1.0--pyhdfd78af_0
modules/nf-core/antismash/antismashlitedownloaddatabases/main.nf
  • biocontainers/antismash-lite 7.1.0--pyhdfd78af_0
modules/nf-core/arcashla/extract/main.nf
  • biocontainers/arcas-hla 0.5.0--hdfd78af_0
modules/nf-core/argnorm/main.nf
  • biocontainers/argnorm 0.5.0--pyhdfd78af_0
modules/nf-core/ariba/getref/main.nf
  • biocontainers/ariba 2.14.6--py39h67e14b5_3
modules/nf-core/ariba/run/main.nf
  • biocontainers/ariba 2.14.6--py39h67e14b5_3
modules/nf-core/arriba/arriba/main.nf
  • biocontainers/arriba 2.4.0--h0033a41_2
modules/nf-core/arriba/download/main.nf
  • biocontainers/arriba 2.4.0--h0033a41_2
modules/nf-core/art/illumina/main.nf
  • biocontainers/art 2016.06.05--h589041f_9
modules/nf-core/artic/guppyplex/main.nf
  • biocontainers/artic 1.2.3--pyhdfd78af_0
modules/nf-core/artic/minion/main.nf
  • biocontainers/artic 1.2.3--pyhdfd78af_0
modules/nf-core/ascat/main.nf
  • biocontainers/mulled-v2-c278c7398beb73294d78639a864352abef2931ce ba3e6d2157eac2d38d22e62ec87675e12adb1010-0
modules/nf-core/ashlar/main.nf
  • biocontainers/ashlar 1.18.0--pyhdfd78af_0
modules/nf-core/assemblyscan/main.nf
  • biocontainers/assembly-scan 0.4.1--pyhdfd78af_0
modules/nf-core/ataqv/ataqv/main.nf
  • biocontainers/ataqv 1.3.1--py310ha155cf9_1
modules/nf-core/ataqv/mkarv/main.nf
  • biocontainers/ataqv 1.3.1--py310ha155cf9_1
modules/nf-core/atlas/call/main.nf
  • biocontainers/atlas 0.9.9--h082e891_0
modules/nf-core/atlas/pmd/main.nf
  • biocontainers/atlas 0.9.9--h082e891_0
modules/nf-core/atlas/recal/main.nf
  • biocontainers/atlas 0.9.9--h082e891_0
modules/nf-core/atlas/splitmerge/main.nf
  • biocontainers/atlas 0.9.9--h082e891_0
modules/nf-core/atlasgeneannotationmanipulation/gtf2featureannotation/main.nf
  • biocontainers/atlas-gene-annotation-manipulation 1.1.1--hdfd78af_0
modules/nf-core/authentict/deam2cont/main.nf
  • biocontainers/authentict 1.0.1--py311h9f5acd7_0
modules/nf-core/bacphlip/main.nf
  • biocontainers/mulled-v2-e16bfb0f667f2f3c236b32087aaf8c76a0cd2864 c64689d7d5c51670ff5841ec4af982edbe7aa406-0
modules/nf-core/bakta/bakta/main.nf
  • biocontainers/bakta 1.9.3--pyhdfd78af_0
modules/nf-core/bakta/baktadbdownload/main.nf
  • biocontainers/bakta 1.9.3--pyhdfd78af_0
modules/nf-core/bam2fastx/bam2fastq/main.nf
  • biocontainers/bam2fastx 1.3.1--hf05d43a_1
modules/nf-core/bamaligncleaner/main.nf
  • biocontainers/bamaligncleaner 0.2.2--pyhdfd78af_0
modules/nf-core/bamclipper/main.nf
  • biocontainers/bamclipper 1.0.0--hdfd78af_2
modules/nf-core/bamcmp/main.nf
  • biocontainers/bamcmp 2.2--h05f6578_0
modules/nf-core/bamstats/generalstats/main.nf
  • biocontainers/bamstats 0.3.5--he881be0_0
modules/nf-core/bamtofastq10x/main.nf
  • biocontainers/10x_bamtofastq 1.4.1--hdbdd923_2
modules/nf-core/bamtools/convert/main.nf
  • biocontainers/bamtools 2.5.2--hdcf5f25_2
modules/nf-core/bamtools/split/main.nf
  • biocontainers/bamtools 2.5.2--hdcf5f25_2
modules/nf-core/bamtools/stats/main.nf
  • biocontainers/bamtools 2.5.2--hdcf5f25_2
modules/nf-core/bamutil/trimbam/main.nf
  • biocontainers/bamutil 1.0.15--h2e03b76_1
modules/nf-core/bandage/image/main.nf
  • biocontainers/bandage 0.8.1--hc9558a2_2
modules/nf-core/barrnap/main.nf
  • biocontainers/barrnap 0.9--hdfd78af_4
modules/nf-core/bbmap/align/main.nf
  • biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690 e8a286b2e789c091bac0a57302cdc78aa0112353-0
modules/nf-core/bbmap/bbduk/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/bbmerge/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/bbnorm/main.nf
  • biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690 e8a286b2e789c091bac0a57302cdc78aa0112353-0
modules/nf-core/bbmap/bbsplit/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/clumpify/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/filterbyname/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/index/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bbmap/pileup/main.nf
  • biocontainers/mulled-v2-008daec56b7aaf3f162d7866758142b9f889d690 e8a286b2e789c091bac0a57302cdc78aa0112353-0
modules/nf-core/bbmap/sendsketch/main.nf
  • biocontainers/bbmap 39.10--h92535d8_0
modules/nf-core/bcftools/annotate/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/call/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/concat/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/consensus/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/convert/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/csq/main.nf
  • biocontainers/bcftools 1.20--h8b25389_1
modules/nf-core/bcftools/filter/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/index/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/isec/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/merge/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/mpileup/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/norm/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/pluginimputeinfo/main.nf
  • biocontainers/bcftools 1.20--h8b25389_1
modules/nf-core/bcftools/pluginscatter/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/pluginsetgt/main.nf
  • biocontainers/bcftools 1.21--h8b25389_0
modules/nf-core/bcftools/pluginsplit/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/plugintag2tag/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/query/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/reheader/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/roh/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/sort/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/split/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/stats/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/bcftools/view/main.nf
  • biocontainers/bcftools 1.20--h8b25389_0
modules/nf-core/beagle5/beagle/main.nf
  • biocontainers/beagle 5.2_21Apr21.304--hdfd78af_0
modules/nf-core/bedgovcf/main.nf
  • biocontainers/bedgovcf 0.1.1--h9ee0642_1
modules/nf-core/bedops/convert2bed/main.nf
  • biocontainers/bedops 2.4.41--h4ac6f70_2
modules/nf-core/bedops/gtf2bed/main.nf
  • biocontainers/bedops 2.4.41--h4ac6f70_2
modules/nf-core/bedtools/bamtobed/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/closest/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/complement/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/coverage/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/getfasta/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/groupby/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/intersect/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/jaccard/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/makewindows/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/map/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/maskfasta/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/merge/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/multiinter/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/nuc/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/shift/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/slop/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/sort/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/split/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/subtract/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bedtools/unionbedg/main.nf
  • biocontainers/bedtools 2.31.1--hf5e1c6e_0
modules/nf-core/bioawk/main.nf
  • biocontainers/bioawk 1.0--h5bf99c6_6
modules/nf-core/biobambam/bammerge/main.nf
  • biocontainers/biobambam 2.0.183--h9f5acd7_1
modules/nf-core/biohansel/main.nf
  • biocontainers/bio_hansel 2.6.1--py_0
modules/nf-core/biscuit/bsconv/main.nf
  • community.wave.seqera.io/library/biscuit 1.5.0.20240506--ca92d9d0a37b5fa8
modules/nf-core/biscuit/index/main.nf
  • community.wave.seqera.io/library/biscuit 1.5.0.20240506--ca92d9d0a37b5fa8
modules/nf-core/biscuit/qc/main.nf
  • community.wave.seqera.io/library/biscuit 1.5.0.20240506--ca92d9d0a37b5fa8
modules/nf-core/bismark/align/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
modules/nf-core/bismark/coverage2cytosine/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
modules/nf-core/bismark/deduplicate/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
modules/nf-core/bismark/genomepreparation/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
modules/nf-core/bismark/methylationextractor/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
modules/nf-core/bismark/report/main.nf
  • biocontainers/bismark 0.24.2--hdfd78af_0
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@edmundmiller edmundmiller pinned this issue Nov 3, 2023
@mauro-saporita mauro-saporita unpinned this issue Nov 17, 2023
@mashehu mashehu pinned this issue Jan 9, 2024
@chiarasch chiarasch unpinned this issue Mar 18, 2024
@edmundmiller edmundmiller pinned this issue Jun 11, 2024
@migueLib migueLib unpinned this issue Jun 12, 2024
@mashehu mashehu pinned this issue Nov 6, 2024
@edmundmiller edmundmiller mentioned this issue Nov 12, 2024
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