Update

PPanGGOLiN.egg-info/SOURCES.txt

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+LICENSE.txt
+MANIFEST.in
+README.md
+VERSION
+pyproject.toml
+setup.py
+PPanGGOLiN.egg-info/PKG-INFO
+PPanGGOLiN.egg-info/SOURCES.txt
+PPanGGOLiN.egg-info/dependency_links.txt
+PPanGGOLiN.egg-info/entry_points.txt
+PPanGGOLiN.egg-info/requires.txt
+PPanGGOLiN.egg-info/top_level.txt
+ppanggolin/__init__.py
+ppanggolin/edge.py
+ppanggolin/geneFamily.py
+ppanggolin/genetic_codes.py
+ppanggolin/genome.py
+ppanggolin/main.py
+ppanggolin/metadata.py
+ppanggolin/pangenome.py
+ppanggolin/region.py
+ppanggolin/utils.py
+ppanggolin/RGP/__init__.py
+ppanggolin/RGP/genomicIsland.py
+ppanggolin/RGP/rgp_cluster.py
+ppanggolin/RGP/spot.py
+ppanggolin/align/__init__.py
+ppanggolin/align/alignOnPang.py
+ppanggolin/annotate/__init__.py
+ppanggolin/annotate/annotate.py
+ppanggolin/annotate/synta.py
+ppanggolin/annotate/rRNA_DB/RF00001.cm
+ppanggolin/annotate/rRNA_DB/RF00177.cm
+ppanggolin/annotate/rRNA_DB/RF01959.cm
+ppanggolin/annotate/rRNA_DB/RF02540.cm
+ppanggolin/annotate/rRNA_DB/RF02541.cm
+ppanggolin/annotate/rRNA_DB/rRNA_arch.cm
+ppanggolin/annotate/rRNA_DB/rRNA_arch.cm.i1f
+ppanggolin/annotate/rRNA_DB/rRNA_arch.cm.i1i
+ppanggolin/annotate/rRNA_DB/rRNA_arch.cm.i1m
+ppanggolin/annotate/rRNA_DB/rRNA_arch.cm.i1p
+ppanggolin/annotate/rRNA_DB/rRNA_bact.cm
+ppanggolin/annotate/rRNA_DB/rRNA_bact.cm.i1f
+ppanggolin/annotate/rRNA_DB/rRNA_bact.cm.i1i
+ppanggolin/annotate/rRNA_DB/rRNA_bact.cm.i1m
+ppanggolin/annotate/rRNA_DB/rRNA_bact.cm.i1p
+ppanggolin/cluster/__init__.py
+ppanggolin/cluster/cluster.py
+ppanggolin/context/__init__.py
+ppanggolin/context/searchGeneContext.py
+ppanggolin/figures/__init__.py
+ppanggolin/figures/draw_spot.py
+ppanggolin/figures/drawing.py
+ppanggolin/figures/tile_plot.py
+ppanggolin/figures/ucurve.py
+ppanggolin/formats/__init__.py
+ppanggolin/formats/readBinaries.py
+ppanggolin/formats/writeAnnotations.py
+ppanggolin/formats/writeBinaries.py
+ppanggolin/formats/writeFlatGenomes.py
+ppanggolin/formats/writeFlatPangenome.py
+ppanggolin/formats/writeMSA.py
+ppanggolin/formats/writeMetadata.py
+ppanggolin/formats/writeSequences.py
+ppanggolin/formats/write_proksee.py
+ppanggolin/graph/__init__.py
+ppanggolin/graph/makeGraph.py
+ppanggolin/info/__init__.py
+ppanggolin/info/info.py
+ppanggolin/meta/__init__.py
+ppanggolin/meta/meta.py
+ppanggolin/metrics/__init__.py
+ppanggolin/metrics/fluidity.py
+ppanggolin/metrics/metrics.py
+ppanggolin/mod/__init__.py
+ppanggolin/mod/module.py
+ppanggolin/nem/__init__.py
+ppanggolin/nem/partition.py
+ppanggolin/nem/rarefaction.py
+ppanggolin/nem/NEM/genmemo.c
+ppanggolin/nem/NEM/genmemo.h
+ppanggolin/nem/NEM/lib_io.c
+ppanggolin/nem/NEM/lib_io.h
+ppanggolin/nem/NEM/nem_alg.c
+ppanggolin/nem/NEM/nem_alg.h
+ppanggolin/nem/NEM/nem_exe.c
+ppanggolin/nem/NEM/nem_exe.h
+ppanggolin/nem/NEM/nem_hlp.c
+ppanggolin/nem/NEM/nem_hlp.h
+ppanggolin/nem/NEM/nem_mod.c
+ppanggolin/nem/NEM/nem_mod.h
+ppanggolin/nem/NEM/nem_nei.c
+ppanggolin/nem/NEM/nem_nei.h
+ppanggolin/nem/NEM/nem_rnd.c
+ppanggolin/nem/NEM/nem_rnd.h
+ppanggolin/nem/NEM/nem_stats.pyx
+ppanggolin/nem/NEM/nem_typ.h
+ppanggolin/nem/NEM/nem_ver.c
+ppanggolin/nem/NEM/nem_ver.h
+ppanggolin/projection/__init__.py
+ppanggolin/projection/projection.py
+ppanggolin/utility/__init__.py
+ppanggolin/utility/utils.py
+ppanggolin/workflow/__init__.py
+ppanggolin/workflow/all.py
+ppanggolin/workflow/panModule.py
+ppanggolin/workflow/panRGP.py
+ppanggolin/workflow/workflow.py
+tests/test_edge.py
+tests/test_genefamily.py
+tests/test_genome.py
+tests/test_metadata.py
+tests/test_pangenome.py
+tests/test_region.py

PPanGGOLiN.egg-info/dependency_links.txt

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+

PPanGGOLiN.egg-info/entry_points.txt

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+[console_scripts]
+ppanggolin = ppanggolin.main:main

PPanGGOLiN.egg-info/requires.txt

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+
+[doc]
+sphinx==6.2.1
+sphinx_rtd_theme==1.2.2
+readthedocs-sphinx-search==0.3.2
+sphinx-autobuild==2021.3.14
+myst-parser==2
+docutils==0.18.1
+sphinxcontrib.mermaid==0.9.2
+
+[python_deps]
+tqdm==4.*
+tables==3.*
+pyrodigal==3.*
+networkx==3.*
+scipy==1.*
+plotly==5.*
+gmpy2==2.*
+pandas==2.*
+colorlover==0.3
+numpy==1.24
+bokeh==3.*
+
+[test]
+pytest==7

PPanGGOLiN.egg-info/top_level.txt

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+nem_stats
+ppanggolin

build/lib.linux-x86_64-cpython-310/ppanggolin/RGP/__init__.py

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+from .genomicIsland import subparser, launch
+from .spot import *
+from . import rgp_cluster