.gitignore
.readthedocs.yml
CONTRIBUTING.rst
LICENSE
MANIFEST.in
README.rst
requirements.txt
setup.cfg
setup.py
.github/workflows/bash_test.yml
.github/workflows/fish_test.yml
.github/workflows/main.yml
.github/workflows/pypi.yml
damona/__init__.py
damona/admin.py
damona/builders.py
damona/common.py
damona/config.py
damona/environ.py
damona/install.py
damona/registry.py
damona/script.py
damona/zenodo.py
damona.egg-info/PKG-INFO
damona.egg-info/SOURCES.txt
damona.egg-info/dependency_links.txt
damona.egg-info/entry_points.txt
damona.egg-info/not-zip-safe
damona.egg-info/requires.txt
damona.egg-info/top_level.txt
damona/biocontainers/__init__.py
damona/biocontainers/registry.yaml
damona/library/__init__.py
damona/library/R/Makefile
damona/library/R/Singularity.R_3.6.3
damona/library/R/Singularity.R_4.0.2
damona/library/R/registry.yaml
damona/library/conda/README.rst
damona/library/conda/Singularity.conda_4.7.12
damona/library/conda/Singularity.conda_4.9.2
damona/library/conda/registry.yaml
damona/library/rust/Singularity.rust
damona/library/ubuntu/Singularity.ubuntu_16.04
damona/library/ubuntu/Singularity.ubuntu_18.04
damona/library/ubuntu/registry.yaml
damona/papers/__init__.py
damona/shell/__init__.py
damona/shell/damona_comp.sh
damona/shell/bash/__init__.py
damona/shell/bash/damona.sh
damona/shell/fish/damona.fish
damona/software/__init__.py
damona/software/RIPseeker/Singularity.RIPseeker_1.0.0
damona/software/RIPseeker/registry.yaml
damona/software/art/Singularity.art_2.5.8
damona/software/art/Singularity.art_3.11.14
damona/software/art/registry.yaml
damona/software/bamtools/Singularity.bamtools_2.5.2
damona/software/bamtools/registry.yaml
damona/software/bbtools/Singularity.bbtools_38.94.0
damona/software/bbtools/registry.yaml
damona/software/bcl2fastq/Makefile
damona/software/bcl2fastq/README.rst
damona/software/bcl2fastq/Singularity.bcl2fastq_2.20.0
damona/software/bcl2fastq/registry.yaml
damona/software/bedtools/Singularity.bedtools_2.30.0
damona/software/bedtools/registry.yaml
damona/software/bioconvert/Singularity.bioconvert_0.6.1
damona/software/bioconvert/Singularity.bioconvert_0.6.2
damona/software/bioconvert/Singularity.bioconvert_0.6.3
damona/software/bioconvert/Singularity.bioconvert_1.0.0
damona/software/bioconvert/registry.yaml
damona/software/bowtie/Singularity.bowtie_1.3.1
damona/software/bowtie/registry.yaml
damona/software/bowtie2/Singularity.bowtie2_2.3.4
damona/software/bowtie2/Singularity.bowtie2_2.4.2
damona/software/bowtie2/registry.yaml
damona/software/busco/Singularity.busco_5.4.6
damona/software/busco/registry.yaml
damona/software/bwa/Singularity.bwa_0.7.17
damona/software/bwa/registry.yaml
damona/software/canu/Singularity.canu_1.6.0
damona/software/canu/Singularity.canu_1.8.0
damona/software/canu/Singularity.canu_2.1.1
damona/software/canu/registry.yaml
damona/software/ccs/Singularity.ccs_6.4.0
damona/software/ccs/registry.yaml
damona/software/circlator/Singularity.circlator_1.5.5
damona/software/circlator/registry.yaml
damona/software/falco/Singularity.falco_0.2.1
damona/software/falco/Singularity.falco_1.0.0
damona/software/falco/registry.yaml
damona/software/fastp/Singularity.fastp_0.23.2
damona/software/fastp/registry.yaml
damona/software/fastqc/Singularity.fastqc_0.11.8
damona/software/fastqc/Singularity.fastqc_0.11.9
damona/software/fastqc/Singularity.fastqc_0.11.9_py3
damona/software/fastqc/registry.yaml
damona/software/flye/Singularity.flye_2.9.0
damona/software/flye/Singularity.flye_2.9.1
damona/software/flye/registry.yaml
damona/software/gffread/Singularity.gffread_0.12.1
damona/software/gffread/registry.yaml
damona/software/graphviz/Singularity.graphviz_2.43.0
damona/software/graphviz/registry.yaml
damona/software/graphviz/test.dot
damona/software/graphviz/test.sh
damona/software/gzip/Singularity.gzip_1.9.0
damona/software/gzip/registry.yaml
damona/software/hifiasm/Singularity.hifiasm_0.19.1
damona/software/hifiasm/registry.yaml
damona/software/hisat2/README.rst
damona/software/hisat2/registry.yaml
damona/software/homer/Singularity.homer_4.11.0
damona/software/homer/registry.yaml
damona/software/idr/Singularity.idr_2.0.3
damona/software/idr/registry.yaml
damona/software/igvtools/Singularity.igvtools_2.12.0
damona/software/igvtools/registry.yaml
damona/software/kraken/Makefile
damona/software/kraken/Singularity.kraken_1.1.0
damona/software/kraken/Singularity.kraken_2.0.9
damona/software/kraken/registry.yaml
damona/software/mergegi/Singularity.mergegi_0.0.1
damona/software/mergegi/registry.yaml
damona/software/minimap2/Singularity.minimap2_2.17.0
damona/software/minimap2/Singularity.minimap2_2.23.0
damona/software/minimap2/Singularity.minimap2_2.24.0
damona/software/minimap2/registry.yaml
damona/software/pbbam/Singularity.pbbam_2.1.0
damona/software/pbbam/Singularity.pbbam_2.3.0
damona/software/pbbam/registry.yaml
damona/software/phantompeakqualtools/Singularity.phantompeakqualtools_1.2.2
damona/software/phantompeakqualtools/registry.yaml
damona/software/picard/Singularity.picard_2.26
damona/software/pigz/Singularity.pigz_2.4.0
damona/software/pigz/registry.yaml
damona/software/polypolish/Singularity.polypolish_0.5.0
damona/software/polypolish/registry.yaml
damona/software/prokka/Singularity.prokka_1.14.5
damona/software/prokka/registry.yaml
damona/software/pycoqc/Singularity.pycoqc_2.5.2
damona/software/pycoqc/registry.yaml
damona/software/quast/Singularity.quast_5.0.2
damona/software/quast/registry.yaml
damona/software/rnadiff/Singularity.rnadiff_1.7.1
damona/software/rnadiff/registry.yaml
damona/software/rnaseqc/Singularity.rnaseqc_2.35.0
damona/software/rnaseqc/registry.yaml
damona/software/rtools/Singularity.rtools_1.0.0
damona/software/rtools/Singularity.rtools_1.1.0
damona/software/rtools/Singularity.rtools_1.2.0
damona/software/rtools/registry.yaml
damona/software/salmon/Makefile
damona/software/salmon/Singularity.salmon_1.3.0
damona/software/salmon/registry.yaml
damona/software/samtools/Singularity.samtools_1.15.0
damona/software/samtools/Singularity.samtools_1.16.1
damona/software/samtools/registry.yaml
damona/software/samtools_minimap2/Singularity.samtools_1.17_minimap2_2.24.0
damona/software/samtools_minimap2/registry.yaml
damona/software/seqkit/Singularity.seqkit_2.1.0
damona/software/seqkit/Singularity.seqkit_2.4.0
damona/software/seqkit/registry.yaml
damona/software/seqtk/Singularity.seqtk_1.3.0
damona/software/seqtk/registry.yaml
damona/software/sequana/Singularity.sequana_0.12.6
damona/software/sequana/Singularity.sequana_0.14.6
damona/software/sequana/registry.yaml
damona/software/sequana_denovo/Singularity.sequana_denovo_0.0.2
damona/software/sequana_denovo/registry.yaml
damona/software/sequana_perl_tools/Singularity.sequana_perl_tools_0.1.0
damona/software/sequana_perl_tools/Singularity.sequana_perl_tools_0.2.0
damona/software/sequana_perl_tools/Singularity.sequana_perl_tools_0.3.0
damona/software/sequana_perl_tools/registry.yaml
damona/software/sequana_ribofinder/Singularity.sequana_ribofinder_0.12.0
damona/software/sequana_ribofinder/registry.yaml
damona/software/sequana_tools/README.txt
damona/software/sequana_tools/Singularity.sequana_tools_0.10.0
damona/software/sequana_tools/Singularity.sequana_tools_0.11.0
damona/software/sequana_tools/Singularity.sequana_tools_0.12.0
damona/software/sequana_tools/Singularity.sequana_tools_0.14.1
damona/software/sequana_tools/Singularity.sequana_tools_0.14.2
damona/software/sequana_tools/Singularity.sequana_tools_0.14.3
damona/software/sequana_tools/Singularity.sequana_tools_0.14.5
damona/software/sequana_tools/Singularity.sequana_tools_0.14.6
damona/software/sequana_tools/Singularity.sequana_tools_0.9.0
damona/software/sequana_tools/registry.yaml
damona/software/shustring/Singularity.shustring_2.6.0
damona/software/shustring/registry.yaml
damona/software/snpeff/Singularity.snpeff_5.1.0
damona/software/trf/Singularity.trf_4.10.0
damona/software/trf/registry.yaml
damona/software/ucsc/README.rst
damona/software/ucsc/Singularity.ucsc_3.7.7
damona/software/ucsc/registry.yaml