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Conda: Remove defaults. Batch 2 #5839

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Conda: Remove defaults. Batch 2 #5839

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1 change: 0 additions & 1 deletion modules/nf-core/concoct/mergecutupclustering/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: concoct_mergecutupclustering
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::concoct=1.1.0
1 change: 0 additions & 1 deletion modules/nf-core/conifer/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: conifer
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::conifer=1.0.2
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/assesssignificance/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_assesssignificance
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/freec/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_freec
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/freec2bed/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_freec2bed
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/freec2circos/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_freec2circos
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/makegraph/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_makegraph
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/controlfreec/makegraph2/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: controlfreec_makegraph2
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::control-freec=11.6b
1 change: 0 additions & 1 deletion modules/nf-core/cooler/balance/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_balance
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/cload/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_cload
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/digest/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_digest
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/dump/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_dump
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/makebins/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_makebins
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/merge/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_merge
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/cooler/zoomify/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cooler_zoomify
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cooler=0.9.2
1 change: 0 additions & 1 deletion modules/nf-core/coreograph/environment.yml
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Expand Up @@ -2,4 +2,3 @@ name: coreograph
channels:
- conda-forge
- bioconda
- defaults
1 change: 0 additions & 1 deletion modules/nf-core/crabz/compress/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "crabz_compress"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::crabz=0.9.0
1 change: 0 additions & 1 deletion modules/nf-core/crabz/decompress/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "crabz_decompress"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::crabz=0.9.0
1 change: 0 additions & 1 deletion modules/nf-core/crisprcleanr/normalize/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: crisprcleanr_normalize
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::r-crisprcleanr=3.0.0
1 change: 0 additions & 1 deletion modules/nf-core/crumble/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: crumble
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::crumble=0.9.1
1 change: 0 additions & 1 deletion modules/nf-core/csvtk/concat/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "csvtk_concat"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- "bioconda::csvtk=0.30.0"
1 change: 0 additions & 1 deletion modules/nf-core/csvtk/join/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: csvtk_join
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::csvtk=0.30.0
1 change: 0 additions & 1 deletion modules/nf-core/csvtk/split/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: csvtk_split
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::csvtk=0.30.0
1 change: 0 additions & 1 deletion modules/nf-core/custom/catadditionalfasta/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "custom_catadditionalfasta"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::python=3.9.5"
1 change: 0 additions & 1 deletion modules/nf-core/custom/dumpsoftwareversions/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_dumpsoftwareversions
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::multiqc=1.20
1 change: 0 additions & 1 deletion modules/nf-core/custom/getchromsizes/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_getchromsizes
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::samtools=1.16.1
1 change: 0 additions & 1 deletion modules/nf-core/custom/matrixfilter/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_matrixfilter
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::r-base=4.2.1
1 change: 0 additions & 1 deletion modules/nf-core/custom/sratoolsncbisettings/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_sratoolsncbisettings
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::sra-tools=3.0.8
1 change: 0 additions & 1 deletion modules/nf-core/custom/tabulartogseacls/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_tabulartogseacls
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::coreutils=9.1
1 change: 0 additions & 1 deletion modules/nf-core/custom/tabulartogseagct/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: custom_tabulartogseagct
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- conda-forge::coreutils=9.1
1 change: 0 additions & 1 deletion modules/nf-core/custom/tx2gene/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "custom_tx2gene"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- python=3.9.5
1 change: 0 additions & 1 deletion modules/nf-core/cutadapt/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cutadapt
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cutadapt=4.6
1 change: 0 additions & 1 deletion modules/nf-core/cutesv/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: cutesv
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::cutesv=2.0.2
1 change: 0 additions & 1 deletion modules/nf-core/damageprofiler/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: damageprofiler
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::damageprofiler=1.1
1 change: 0 additions & 1 deletion modules/nf-core/dastool/dastool/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: dastool_dastool
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::das_tool=1.1.6
1 change: 0 additions & 1 deletion modules/nf-core/dastool/fastatocontig2bin/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: dastool_fastatocontig2bin
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::das_tool=1.1.6
1 change: 0 additions & 1 deletion modules/nf-core/dastool/scaffolds2bin/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: dastool_scaffolds2bin
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::das_tool=1.1.3
1 change: 0 additions & 1 deletion modules/nf-core/dedup/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: dedup
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::dedup=0.12.8
1 change: 0 additions & 1 deletion modules/nf-core/deeparg/downloaddata/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeparg_downloaddata
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeparg=1.0.4
1 change: 0 additions & 1 deletion modules/nf-core/deeparg/predict/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeparg_predict
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeparg=1.0.4
1 change: 0 additions & 1 deletion modules/nf-core/deepbgc/download/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deepbgc_download
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deepbgc=0.1.31
1 change: 0 additions & 1 deletion modules/nf-core/deepbgc/pipeline/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deepbgc_pipeline
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deepbgc=0.1.31
1 change: 0 additions & 1 deletion modules/nf-core/deeptmhmm/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptmhmm
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::pybiolib=1.1.1393
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/bamcoverage/environment.yml
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Expand Up @@ -2,7 +2,6 @@ name: deeptools_bamcoverage
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
- bioconda::samtools=1.16.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/computematrix/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_computematrix
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/multibamsummary/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_multibamsummary
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/plotcorrelation/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_plotcorrelation
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/plotfingerprint/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_plotfingerprint
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/plotheatmap/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_plotheatmap
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/plotpca/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_plotpca
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/deeptools/plotprofile/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deeptools_plotprofile
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::deeptools=3.5.1
1 change: 0 additions & 1 deletion modules/nf-core/delly/call/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: delly_call
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::delly=1.2.6
1 change: 0 additions & 1 deletion modules/nf-core/demuxem/environment.yml
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Expand Up @@ -4,6 +4,5 @@ name: "demuxem"
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- "bioconda::demuxem=0.1.7.post1"
1 change: 0 additions & 1 deletion modules/nf-core/deseq2/differential/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: deseq2_differential
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::bioconductor-deseq2=1.34.0
1 change: 0 additions & 1 deletion modules/nf-core/diamond/blastp/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: diamond_blastp
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::diamond=2.1.8
1 change: 0 additions & 1 deletion modules/nf-core/diamond/blastx/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: diamond_blastx
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::diamond=2.1.8
1 change: 0 additions & 1 deletion modules/nf-core/diamond/makedb/environment.yml
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Expand Up @@ -2,6 +2,5 @@ name: diamond_makedb
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bioconda::diamond=2.1.8
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