From 20092aea27c958dfb0b398e3993f99fa2a48277e Mon Sep 17 00:00:00 2001
From: Swastik Mishra <swastik.mishra@hhu.de>
Date: Fri, 9 May 2025 11:27:32 +0000
Subject: [PATCH] update mamba env yml files

---
 mamba_packages.yml => hgt_analyses.yml |  27 ++++--
 hgt_analyses_py2.yml                   | 119 +++++++++++++++++++++++++
 2 files changed, 140 insertions(+), 6 deletions(-)
 rename mamba_packages.yml => hgt_analyses.yml (95%)
 create mode 100644 hgt_analyses_py2.yml

diff --git a/mamba_packages.yml b/hgt_analyses.yml
similarity index 95%
rename from mamba_packages.yml
rename to hgt_analyses.yml
index 29e6d6e..c33c445 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 0000000..36c85fe
--- /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
-- 
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