diff --git a/mamba_packages.yml b/hgt_analyses.yml similarity index 95% rename from mamba_packages.yml rename to hgt_analyses.yml index 29e6d6ef823400498f8a1aa22cb71b99f5e3ba3b..c33c445a46e29a08ecea8c2406d8c6baf1f0b047 100644 --- a/mamba_packages.yml +++ b/hgt_analyses.yml @@ -15,6 +15,7 @@ dependencies: - argon2-cffi-bindings=21.2.0=py312h66e93f0_5 - aria2=1.37.0=h347180d_1 - arrow=1.3.0=pyhd8ed1ab_0 + - asteval=1.0.6=pyhd8ed1ab_0 - asttokens=2.4.1=pyhd8ed1ab_0 - async-lru=2.0.4=pyhd8ed1ab_0 - atk-1.0=2.38.0=h04ea711_2 @@ -42,21 +43,23 @@ dependencies: - blast=2.15.0=pl5321h6f7f691_1 - bleach=6.1.0=pyhd8ed1ab_0 - bokeh=3.5.2=pyhd8ed1ab_0 + - brokenaxes=0.4.2=pyhd8ed1ab_0 - brotli=1.1.0=hb9d3cd8_2 - brotli-bin=1.1.0=hb9d3cd8_2 - brotli-python=1.1.0=py312h2ec8cdc_2 - bzip2=1.0.8=h4bc722e_7 - c-ares=1.34.1=heb4867d_0 - - ca-certificates=2024.8.30=hbcca054_0 + - ca-certificates=2025.1.31=hbcca054_0 - cached-property=1.5.2=hd8ed1ab_1 - cached_property=1.5.2=pyha770c72_1 - cairo=1.18.0=h3faef2a_0 - - certifi=2024.8.30=pyhd8ed1ab_0 + - certifi=2025.1.31=pyhd8ed1ab_0 - cffi=1.17.1=py312h06ac9bb_0 - charset-normalizer=3.4.0=pyhd8ed1ab_0 - click=8.1.7=unix_pyh707e725_0 - cloudpickle=3.0.0=pyhd8ed1ab_0 - colorama=0.4.6=pyhd8ed1ab_0 + - colorcet=3.1.0=pyhd8ed1ab_1 - comm=0.2.2=pyhd8ed1ab_0 - contourpy=1.3.0=py312h68727a3_2 - curl=8.8.0=he654da7_1 @@ -65,12 +68,14 @@ dependencies: - dask=2024.9.1=pyhd8ed1ab_0 - dask-core=2024.9.1=pyhd8ed1ab_0 - dask-expr=1.1.15=pyhd8ed1ab_0 + - datashader=0.17.0=pyhd8ed1ab_0 - dbus=1.13.6=h5008d03_3 - debugpy=1.8.7=py312h2ec8cdc_0 - decorator=5.1.1=pyhd8ed1ab_0 - defusedxml=0.7.1=pyhd8ed1ab_0 - dendropy=4.6.1=pyhdfd78af_0 - diamond=2.1.9=h43eeafb_0 + - dill=0.3.9=pyhd8ed1ab_1 - distributed=2024.9.1=pyhd8ed1ab_0 - docopt=0.6.2=py_1 - easel=0.49=h031d066_0 @@ -96,6 +101,7 @@ dependencies: - fribidi=1.0.10=h36c2ea0_0 - fsspec=2024.9.0=pyhff2d567_0 - ftpretty=0.4.0=pyhd8ed1ab_0 + - future=1.0.0=pyhd8ed1ab_2 - gawk=5.3.1=hcd3d067_0 - gdk-pixbuf=2.42.12=hb9ae30d_0 - gettext=0.22.5=he02047a_3 @@ -211,6 +217,7 @@ dependencies: - libidn2=2.3.7=hd590300_0 - libjpeg-turbo=3.0.0=hd590300_1 - liblapack=3.9.0=24_linux64_openblas + - libllvm14=14.0.6=hcd5def8_4 - libllvm15=15.0.7=hb3ce162_4 - libllvm16=16.0.6=hb3ce162_3 - libllvm18=18.1.7=hb77312f_0 @@ -250,6 +257,8 @@ dependencies: - libxslt=1.1.39=h76b75d6_0 - libzlib=1.2.13=h4ab18f5_6 - littleutils=0.2.4=pyhd8ed1ab_0 + - llvmlite=0.42.0=py312hb06c811_1 + - lmfit=1.3.3=pyhd8ed1ab_0 - locket=1.0.0=pyhd8ed1ab_0 - loguru=0.7.2=py312h7900ff3_2 - lxml=5.2.2=py312hb90d8a5_0 @@ -268,6 +277,7 @@ dependencies: - mpi=1.0=openmpi - mpmath=1.3.0=pyhd8ed1ab_0 - msgpack-python=1.1.0=py312h68727a3_0 + - multipledispatch=0.6.0=pyhd8ed1ab_1 - munkres=1.1.4=pyh9f0ad1d_0 - mysql-common=8.3.0=hf1915f5_4 - mysql-libs=8.3.0=hca2cd23_4 @@ -287,11 +297,12 @@ dependencies: - notebook-shim=0.2.4=pyhd8ed1ab_0 - nspr=4.35=h27087fc_0 - nss=3.100=hca3bf56_0 - - numpy=2.1.2=py312h58c1407_0 + - numba=0.59.1=py312hacefee8_0 + - numpy=1.26.4=py312heda63a1_0 - openjpeg=2.5.2=h488ebb8_0 - openmpi=4.1.6=hc5af2df_101 - openpyxl=3.1.5=py312h710cb58_1 - - openssl=3.4.0=hb9d3cd8_0 + - openssl=3.4.1=h7b32b05_0 - orc=2.0.1=h17fec99_1 - outdated=0.2.2=pyhd8ed1ab_1 - overrides=7.7.0=pyhd8ed1ab_0 @@ -301,6 +312,7 @@ dependencies: - pandoc=3.5=ha770c72_0 - pandocfilters=1.5.0=pyhd8ed1ab_0 - pango=1.54.0=h84a9a3c_0 + - param=2.2.0=pyhd8ed1ab_0 - parso=0.8.4=pyhd8ed1ab_0 - partd=1.4.2=pyhd8ed1ab_0 - patsy=0.5.6=pyhd8ed1ab_0 @@ -348,10 +360,11 @@ dependencies: - ptyprocess=0.7.0=pyhd3deb0d_0 - pulseaudio-client=17.0=hb77b528_0 - pure_eval=0.2.3=pyhd8ed1ab_0 - - pyarrow=16.1.0=py312h9cebb41_2 - - pyarrow-core=16.1.0=py312h0983c49_2_cpu + - pyarrow=16.1.0=py312h8da182e_1 + - pyarrow-core=16.1.0=py312h5429d62_1_cpu - pyarrow-hotfix=0.6=pyhd8ed1ab_0 - pycparser=2.22=pyhd8ed1ab_0 + - pyct=0.5.0=pyhd8ed1ab_1 - pydot=3.0.1=py312h7900ff3_1 - pyfaidx=0.8.1.1=pyhdfd78af_0 - pygments=2.18.0=pyhd8ed1ab_0 @@ -398,6 +411,7 @@ dependencies: - seaborn-base=0.13.2=pyhd8ed1ab_2 - send2trash=1.8.3=pyh0d859eb_0 - setuptools=75.1.0=pyhd8ed1ab_0 + - setuptools-scm=8.2.1=pyhd8ed1ab_0 - simplejson=3.19.3=py312h66e93f0_1 - sip=6.7.12=py312h30efb56_0 - six=1.16.0=pyh6c4a22f_0 @@ -429,6 +443,7 @@ dependencies: - typing_utils=0.1.0=pyhd8ed1ab_0 - tzdata=2024b=hc8b5060_0 - ucx=1.16.0=h209287a_5 + - uncertainties=3.2.2=pyhd8ed1ab_2 - uri-template=1.3.0=pyhd8ed1ab_0 - urllib3=2.2.3=pyhd8ed1ab_0 - wcwidth=0.2.13=pyhd8ed1ab_0 diff --git a/hgt_analyses_py2.yml b/hgt_analyses_py2.yml new file mode 100644 index 0000000000000000000000000000000000000000..36c85feac7d3616ef25be4ace117594d45ddb019 --- /dev/null +++ b/hgt_analyses_py2.yml @@ -0,0 +1,119 @@ +name: hgt_analyses_py2 +channels: + - plotly + - bioconda + - etetoolkit + - conda-forge +dependencies: + - _libgcc_mutex=0.1=conda_forge + - _openmp_mutex=4.5=2_gnu + - argtable2=2.13=0 + - ca-certificates=2024.2.2=hbcca054_0 + - cairo=1.14.6=4 + - certifi=2019.11.28=py27h8c360ce_1 + - clustalo=1.2.4=hdbdd923_8 + - curl=7.64.0=h646f8bb_0 + - dendropy=4.6.0=pyh7cba7a3_0 + - dialigntx=1.0.2=hdce4c0c_0 + - ete3=3.1.1=pyh24bf2e0_1 + - ete_toolchain=3.0.0=h73706c9_0 + - expat=2.6.2=h59595ed_0 + - fasttree=2.1.11=h031d066_3 + - fontconfig=2.12.1=4 + - freetype=2.7=1 + - gettext=0.22.5=h59595ed_2 + - gettext-tools=0.22.5=h59595ed_2 + - glib=2.51.4=0 + - graphite2=1.3.13=h59595ed_1003 + - harfbuzz=1.4.3=0 + - icu=58.2=hf484d3e_1000 + - iqtree=1.5.5=he941832_2 + - jpeg=9e=h0b41bf4_3 + - kalign=2.03=h29c49b8_0 + - krb5=1.16.3=hc83ff2d_1000 + - ld_impl_linux-64=2.40=h55db66e_0 + - libasprintf=0.22.5=h661eb56_2 + - libasprintf-devel=0.22.5=h661eb56_2 + - libblas=3.9.0=8_openblas + - libcblas=3.9.0=8_openblas + - libcurl=7.64.0=h01ee5af_0 + - libedit=3.1.20191231=he28a2e2_2 + - libexpat=2.6.2=h59595ed_0 + - libffi=3.2.1=he1b5a44_1007 + - libgcc=7.2.0=h69d50b8_2 + - libgcc-ng=13.2.0=h77fa898_6 + - libgettextpo=0.22.5=h59595ed_2 + - libgettextpo-devel=0.22.5=h59595ed_2 + - libgfortran-ng=7.5.0=h14aa051_20 + - libgfortran4=7.5.0=h14aa051_20 + - libgomp=13.2.0=h77fa898_6 + - libiconv=1.17=hd590300_2 + - liblapack=3.9.0=8_openblas + - libopenblas=0.3.12=pthreads_hb3c22a3_1 + - libpng=1.6.43=h2797004_0 + - libsqlite=3.45.3=h2797004_0 + - libssh2=1.8.0=h1ad7b7a_1003 + - libstdcxx-ng=13.2.0=hc0a3c3a_6 + - libtiff=4.0.10=hc3755c2_1005 + - libuuid=2.38.1=h0b41bf4_0 + - libxcb=1.15=h0b41bf4_0 + - libxcrypt=4.4.36=hd590300_1 + - libxml2=2.9.9=h13577e0_2 + - libxslt=1.1.32=hae48121_1003 + - libzlib=1.2.13=hd590300_5 + - lxml=4.4.1=py27h7ec2d77_0 + - lz4-c=1.9.3=h9c3ff4c_1 + - mafft=6.861=h7f9ae3c_0 + - muscle=3.8.31=0 + - ncurses=6.4.20240210=h59595ed_0 + - numpy=1.16.5=py27h95a1406_0 + - openblas=0.3.12=pthreads_h43bd3aa_1 + - openssl=1.0.2u=h516909a_0 + - paml=4.8=h48adae2_0 + - pandas=0.24.2=py27hb3f55d8_0 + - pango=1.40.4=0 + - patsy=0.5.1=py_0 + - pcre=8.45=h9c3ff4c_0 + - perl=5.32.1=7_hd590300_perl5 + - phylobayes=4.1c=hac87e47_0 + - phyml=20160115.patched=hee5dff1_0 + - pip=20.1.1=pyh9f0ad1d_0 + - pixman=0.34.0=h14c3975_1003 + - plotly=4.14.3=py_0 + - pmodeltest=1.4=py27hb4d0d57_0 + - pthread-stubs=0.4=h36c2ea0_1001 + - pyqt=4.11.4=py27_3 + - python=2.7.15=h938d71a_1006 + - python-dateutil=2.8.1=py_0 + - python_abi=2.7=1_cp27mu + - pytz=2020.1=pyh9f0ad1d_0 + - qt=4.8.7=ha8c56c7_9 + - raxml=8.2.11=h6db2ed4_0 + - readline=7.0=hf8c457e_1001 + - retrying=1.3.3=py_2 + - scipy=1.2.1=py27h921218d_2 + - setuptools=44.0.0=py27_0 + - sip=4.18=py27_1 + - six=1.16.0=pyh6c4a22f_0 + - slr=1.4.3=h816ab49_0 + - sqlite=3.28.0=h8b20d00_0 + - statsmodels=0.10.2=py27hc1659b7_0 + - t_coffee=11.0.8=py27h075ee95_7 + - tk=8.6.13=noxft_h4845f30_101 + - trimal=1.4.1=h4ac6f70_9 + - wheel=0.37.1=pyhd8ed1ab_0 + - xorg-kbproto=1.0.7=h7f98852_1002 + - xorg-libice=1.1.1=hd590300_0 + - xorg-libsm=1.2.4=h7391055_0 + - xorg-libx11=1.8.9=h8ee46fc_0 + - xorg-libxau=1.0.11=hd590300_0 + - xorg-libxdmcp=1.1.3=h7f98852_0 + - xorg-libxext=1.3.4=h0b41bf4_2 + - xorg-libxrender=0.9.11=hd590300_0 + - xorg-libxt=1.3.0=hd590300_1 + - xorg-renderproto=0.11.1=h7f98852_1002 + - xorg-xextproto=7.3.0=h0b41bf4_1003 + - xorg-xproto=7.0.31=h7f98852_1007 + - xz=5.2.6=h166bdaf_0 + - zlib=1.2.13=hd590300_5 + - zstd=1.4.9=ha95c52a_0