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jodyphelan authored Jul 16, 2024
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22 changes: 9 additions & 13 deletions conda/linux-latest.txt
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# $ conda create --name <env> --file <this file>
# platform: linux-64
@EXPLICIT
https://conda.anaconda.org/bioconda/linux-64/seqkit-2.8.0-h9ee0642_0.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/ca-certificates-2024.2.2-hbcca054_0.conda
https://conda.anaconda.org/conda-forge/linux-64/ca-certificates-2024.6.2-hbcca054_0.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/noarch/font-ttf-dejavu-sans-mono-2.37-hab24e00_0.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/noarch/font-ttf-inconsolata-3.000-h77eed37_0.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/noarch/font-ttf-source-code-pro-2.038-h77eed37_0.tar.bz2
Expand Down Expand Up @@ -49,7 +48,7 @@ https://conda.anaconda.org/conda-forge/linux-64/libxcrypt-4.4.36-hd590300_1.cond
https://conda.anaconda.org/conda-forge/linux-64/libzlib-1.2.13-hd590300_5.conda
https://conda.anaconda.org/conda-forge/linux-64/ncurses-6.4-h59595ed_2.conda
https://conda.anaconda.org/conda-forge/linux-64/oniguruma-6.9.9-hd590300_0.conda
https://conda.anaconda.org/conda-forge/linux-64/openssl-3.2.1-hd590300_0.conda
https://conda.anaconda.org/conda-forge/linux-64/openssl-3.3.1-h4ab18f5_0.conda
https://conda.anaconda.org/conda-forge/linux-64/pixman-0.43.2-h59595ed_0.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/linux-64/pthread-stubs-0.4-h36c2ea0_1001.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/linux-64/wfa2-lib-2.3.4-h4ac6f70_0.tar.bz2
Expand Down Expand Up @@ -115,7 +114,7 @@ https://conda.anaconda.org/conda-forge/noarch/bitstring-3.1.9-pyhd8ed1ab_0.tar.b
https://conda.anaconda.org/conda-forge/linux-64/brotli-1.1.0-hd590300_1.conda
https://conda.anaconda.org/conda-forge/linux-64/brotli-python-1.1.0-py310hc6cd4ac_1.conda
https://conda.anaconda.org/conda-forge/noarch/cachetools-4.2.4-pyhd8ed1ab_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/certifi-2024.2.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/certifi-2024.6.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.3.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/cycler-0.12.1-pyhd8ed1ab_0.conda
Expand All @@ -138,10 +137,8 @@ https://conda.anaconda.org/conda-forge/linux-64/openjpeg-2.5.0-h488ebb8_3.conda
https://conda.anaconda.org/conda-forge/noarch/packaging-23.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/pygments-2.17.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.1.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/pyparsing-3.1.1-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/pysocks-1.7.1-pyha2e5f31_6.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/python-tzdata-2023.4-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/pytz-2023.4-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/setuptools-69.0.3-pyhd8ed1ab_0.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/noarch/six-1.16.0-pyh6c4a22f_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/tomli-2.0.1-pyhd8ed1ab_0.tar.bz2
Expand All @@ -155,7 +152,7 @@ https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/linux-64/cairo-1.18.0-h3faef2a_0.conda
https://conda.anaconda.org/conda-forge/linux-64/cffi-1.16.0-py310h2fee648_0.conda
https://conda.anaconda.org/conda-forge/noarch/deprecation-2.1.0-pyh9f0ad1d_0.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.49.0-py310h2372a71_0.conda
https://conda.anaconda.org/conda-forge/linux-64/fonttools-4.47.2-py310h2372a71_0.conda
https://conda.anaconda.org/bioconda/linux-64/htslib-1.19.1-h81da01d_0.tar.bz2
https://conda.anaconda.org/bioconda/noarch/itol-config-0.1.0-pyhdfd78af_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/jinja2-3.1.3-pyhd8ed1ab_0.conda
Expand All @@ -172,7 +169,7 @@ https://conda.anaconda.org/conda-forge/noarch/python-docx-1.1.0-pyhd8ed1ab_0.con
https://conda.anaconda.org/conda-forge/noarch/screed-1.1.3-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/tqdm-4.66.1-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/typing-extensions-4.9.0-hd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/urllib3-2.1.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/urllib3-2.2.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/linux-64/xorg-libxi-1.7.10-h7f98852_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/annotated-types-0.6.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/bioconda/linux-64/delly-1.2.6-hb7e2ac5_0.tar.bz2
Expand All @@ -191,17 +188,16 @@ https://conda.anaconda.org/conda-forge/linux-64/contourpy-1.2.0-py310hd41b1e2_0.
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/linux-64/lofreq-2.1.5-py310h47ef89e_10.tar.bz2
https://conda.anaconda.org/bioconda/linux-64/mash-2.3-ha9a2dd8_3.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/conda-forge/linux-64/openjdk-17.0.8-hbf40d96_2.conda
https://conda.anaconda.org/conda-forge/linux-64/pandas-2.2.0-py310hcc13569_0.conda
https://conda.anaconda.org/conda-forge/noarch/pydantic-2.6.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/rich-argparse-1.4.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/linux-64/scipy-1.12.0-py310hb13e2d6_2.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/linux-64/tabixpp-1.1.2-hd68fcf3_1.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/noarch/gatk4-4.4.0.0-py36hdfd78af_0.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.3-py310h62c0568_0.conda
https://conda.anaconda.org/conda-forge/linux-64/matplotlib-base-3.8.2-py310h62c0568_0.conda
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/noarch/pilon-1.24-hdfd78af_0.tar.bz2
https://conda.anaconda.org/bioconda/noarch/snpeff-5.2-hdfd78af_0.tar.bz2
https://conda.anaconda.org/t/no-15126f85-4dce-4462-b48d-9bc580ca6641/bioconda/noarch/trimmomatic-0.39-hdfd78af_2.tar.bz2
https://conda.anaconda.org/bioconda/linux-64/vcflib-1.0.9-h146fbdb_4.tar.bz2
https://conda.anaconda.org/bioconda/linux-64/freebayes-1.3.6-hb0f3ef8_7.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/sourmash-minimal-4.8.6-py310h373cc83_0.conda
https://conda.anaconda.org/bioconda/noarch/sourmash-4.8.6-hdfd78af_0.tar.bz2
https://conda.anaconda.org/conda-forge/linux-64/sourmash-minimal-4.8.5-py310h373cc83_0.conda
https://conda.anaconda.org/bioconda/noarch/sourmash-4.8.5-hdfd78af_0.tar.bz2
8 changes: 6 additions & 2 deletions conda/macos-latest.txt
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Expand Up @@ -8,13 +8,14 @@ https://conda.anaconda.org/conda-forge/osx-64/tree-2.1.1-h0dc2134_0.conda
https://conda.anaconda.org/conda-forge/osx-64/bc-1.07.1-h0d85af4_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/bzip2-1.0.8-h0d85af4_4.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/c-ares-1.19.1-h0dc2134_0.conda
https://conda.anaconda.org/conda-forge/osx-64/ca-certificates-2024.2.2-h8857fd0_0.conda
https://conda.anaconda.org/conda-forge/osx-64/ca-certificates-2024.6.2-h8857fd0_0.conda
https://conda.anaconda.org/conda-forge/osx-64/isa-l-2.30.0-h0d85af4_4.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/jpeg-9e-hac89ed1_2.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/libbrotlicommon-1.0.9-hb7f2c08_9.conda
https://conda.anaconda.org/conda-forge/osx-64/libcxx-16.0.6-hd57cbcb_0.conda
https://conda.anaconda.org/conda-forge/osx-64/libdeflate-1.13-h775f41a_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/libev-4.33-haf1e3a3_1.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/libexpat-2.6.2-h73e2aa4_0.conda
https://conda.anaconda.org/conda-forge/osx-64/libffi-3.4.2-h0d85af4_5.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/libiconv-1.17-hac89ed1_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/libogg-1.3.4-h35c211d_1.tar.bz2
Expand All @@ -37,6 +38,7 @@ https://conda.anaconda.org/conda-forge/osx-64/xorg-libxdmcp-1.1.3-h35c211d_0.tar
https://conda.anaconda.org/conda-forge/osx-64/xz-5.2.6-h775f41a_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/yaml-0.2.5-h0d85af4_2.tar.bz2
https://conda.anaconda.org/bioconda/osx-64/bedtools-2.31.0-h6372da2_2.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/expat-2.6.2-h73e2aa4_0.conda
https://conda.anaconda.org/conda-forge/osx-64/gettext-0.21.1-h8a4c099_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/htop-3.2.2-h908806b_0.conda
https://conda.anaconda.org/conda-forge/osx-64/icu-70.1-h96cf925_0.tar.bz2
Expand All @@ -61,6 +63,7 @@ https://conda.anaconda.org/conda-forge/osx-64/openssl-1.1.1w-h8a1eda9_0.conda
https://conda.anaconda.org/conda-forge/osx-64/pandoc-3.1.3-h9d075a6_0.conda
https://conda.anaconda.org/conda-forge/osx-64/parallel-20230522-h694c41f_0.conda
https://conda.anaconda.org/conda-forge/osx-64/pcre2-10.40-h1c4e4bc_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/pigz-2.8-h92b6c6a_0.conda
https://conda.anaconda.org/conda-forge/osx-64/readline-8.2-h9e318b2_1.conda
https://conda.anaconda.org/bioconda/noarch/samclip-0.4.0-hdfd78af_1.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/tk-8.6.12-h5dbffcc_0.tar.bz2
Expand Down Expand Up @@ -97,7 +100,7 @@ https://conda.anaconda.org/conda-forge/noarch/bitstring-3.1.9-pyhd8ed1ab_0.tar.b
https://conda.anaconda.org/conda-forge/osx-64/brotli-1.0.9-hb7f2c08_9.conda
https://conda.anaconda.org/conda-forge/osx-64/brotli-python-1.0.9-py310h7a76584_9.conda
https://conda.anaconda.org/conda-forge/noarch/cachetools-4.2.4-pyhd8ed1ab_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/certifi-2024.2.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/certifi-2024.6.2-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/charset-normalizer-3.2.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/colorama-0.4.6-pyhd8ed1ab_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/cycler-0.11.0-pyhd8ed1ab_0.tar.bz2
Expand Down Expand Up @@ -224,6 +227,7 @@ https://conda.anaconda.org/bioconda/osx-64/usher-0.6.2-hdcdf62d_0.tar.bz2
https://conda.anaconda.org/conda-forge/noarch/annotated-types-0.6.0-pyhd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/osx-64/argon2-cffi-bindings-21.2.0-py310h90acd4f_3.tar.bz2
https://conda.anaconda.org/bioconda/osx-64/delly-1.1.6-h69f7742_0.tar.bz2
https://conda.anaconda.org/conda-forge/osx-64/git-2.39.1-pl5321h00ebd2c_0.conda
https://conda.anaconda.org/conda-forge/osx-64/gstreamer-1.22.4-h840fbdc_1.conda
https://conda.anaconda.org/conda-forge/noarch/importlib_metadata-6.8.0-hd8ed1ab_0.conda
https://conda.anaconda.org/conda-forge/noarch/jsonschema-specifications-2023.6.1-pyhd8ed1ab_0.conda
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2 changes: 1 addition & 1 deletion pathogenprofiler/__init__.py
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from .cli import *
from .rules import *
from .models import *
__version__ = "4.2.0"
__version__ = "4.3.0"
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