From 9bc36bcd8963d34405ca01f6d68446f5981e5435 Mon Sep 17 00:00:00 2001 From: "Pavel V. Dimens" Date: Fri, 3 Dec 2021 16:28:14 -0500 Subject: [PATCH] Update gust_env.yaml --- .other/gust_env.yaml | 105 ++++++++++++++++++++++++++++++++++++++++--- 1 file changed, 100 insertions(+), 5 deletions(-) diff --git a/.other/gust_env.yaml b/.other/gust_env.yaml index 423dd32..2348e2c 100644 --- a/.other/gust_env.yaml +++ b/.other/gust_env.yaml @@ -6,6 +6,7 @@ channels: dependencies: - _libgcc_mutex=0.1=conda_forge - _openmp_mutex=4.5=1_gnu + - _r-mutex=1.0.1=anacondar_1 - aioeasywebdav=2.4.0=py39hf3d152e_1001 - aiohttp=3.8.1=py39h3811e60_0 - aiosignal=1.2.0=pyhd8ed1ab_0 @@ -21,17 +22,22 @@ dependencies: - bc=1.07.1=h516909a_0 - bcftools=1.12=h45bccc9_1 - bcrypt=3.2.0=py39h3811e60_2 + - binutils_impl_linux-64=2.36.1=h193b22a_2 + - binutils_linux-64=2.36=hf3e587d_1 + - bioconductor-ggtree=3.2.0=r41hdfd78af_0 + - bioconductor-treeio=1.18.0=r41hdfd78af_0 - boto3=1.20.8=pyhd8ed1ab_0 - botocore=1.23.8=pyhd8ed1ab_0 - brotli=1.0.9=h7f98852_6 - brotli-bin=1.0.9=h7f98852_6 - brotlipy=0.7.0=py39h3811e60_1003 - bwa=0.7.17=h5bf99c6_8 + - bwidget=1.9.14=ha770c72_1 - bzip2=1.0.8=h7f98852_4 - c-ares=1.18.1=h7f98852_0 - ca-certificates=2021.10.8=ha878542_0 - cachetools=4.2.4=pyhd8ed1ab_0 - - cairo=1.16.0=ha00ac49_1009 + - cairo=1.16.0=h6cf1ce9_1008 - certifi=2021.10.8=py39hf3d152e_1 - cffi=1.15.0=py39h4bc2ebd_0 - chardet=4.0.0=py39hf3d152e_2 @@ -43,6 +49,7 @@ dependencies: - configargparse=1.5.3=pyhd8ed1ab_0 - connection_pool=0.0.3=pyhd3deb0d_0 - cryptography=35.0.0=py39h95dcef6_2 + - curl=7.80.0=h2574ce0_0 - cycler=0.11.0=pyhd8ed1ab_0 - datrie=0.8.2=py39h3811e60_3 - docutils=0.18=py39hf3d152e_1 @@ -64,12 +71,17 @@ dependencies: - fribidi=1.0.10=h516909a_0 - frozenlist=1.2.0=py39h3811e60_1 - ftputil=5.0.2=pyhd8ed1ab_0 + - gcc_impl_linux-64=9.4.0=h03d3576_11 + - gcc_linux-64=9.4.0=h391b98a_1 - gdk-pixbuf=2.42.6=h04a7f16_0 - gettext=0.19.8.1=h73d1719_1008 + - gfortran_impl_linux-64=9.4.0=h0003116_11 + - gfortran_linux-64=9.4.0=hf0ab688_1 - ghostscript=9.54.0=h9c3ff4c_1 - giflib=5.2.1=h516909a_2 - gitdb=4.0.9=pyhd8ed1ab_0 - gitpython=3.1.24=pyhd8ed1ab_0 + - gmp=6.2.1=h58526e2_0 - google-api-core=2.2.2=pyhd8ed1ab_0 - google-api-python-client=2.31.0=pyhd8ed1ab_0 - google-auth=2.3.3=pyh6c4a22f_0 @@ -85,10 +97,12 @@ dependencies: - gsl=2.6=he838d99_2 - gtk2=2.24.33=h539f30e_1 - gts=0.7.6=h64030ff_2 - - harfbuzz=3.1.1=hb4a5f5f_1 + - gxx_impl_linux-64=9.4.0=h03d3576_11 + - gxx_linux-64=9.4.0=h0316aca_1 + - harfbuzz=3.1.1=h83ec7ef_0 - htslib=1.12=h9093b5e_1 - httplib2=0.20.2=pyhd8ed1ab_1 - - icu=69.1=h9c3ff4c_0 + - icu=68.2=h9c3ff4c_0 - idna=3.1=pyhd3deb0d_0 - imagemagick=7.0.11_14=pl5320hb118871_0 - importlib-metadata=4.8.2=py39hf3d152e_0 @@ -101,6 +115,7 @@ dependencies: - jpeg=9d=h516909a_0 - jsonschema=4.2.1=pyhd8ed1ab_0 - jupyter_core=4.9.1=py39hf3d152e_1 + - kernel-headers_linux-64=2.6.32=he073ed8_15 - kiwisolver=1.3.2=py39h1a9c180_1 - krb5=1.19.2=hcc1bbae_3 - lcms2=2.12=hddcbb42_0 @@ -118,8 +133,9 @@ dependencies: - libedit=3.1.20191231=he28a2e2_2 - libev=4.33=h516909a_1 - libffi=3.4.2=h7f98852_5 + - libgcc-devel_linux-64=9.4.0=hd854feb_11 - libgcc-ng=11.2.0=h1d223b6_11 - - libgd=2.3.3=h3cfcdeb_1 + - libgd=2.3.3=h6ad9fb6_0 - libgfortran-ng=11.2.0=h69a702a_11 - libgfortran5=11.2.0=h5c6108e_11 - libglib=2.70.1=h174f98d_0 @@ -133,9 +149,11 @@ dependencies: - libpng=1.6.37=hed695b0_2 - libprotobuf=3.19.1=h780b84a_0 - librsvg=2.52.4=hc3c00ef_0 + - libsanitizer=9.4.0=h79bfe98_11 - libsodium=1.0.18=h516909a_1 - libsolv=0.7.19=h780b84a_5 - libssh2=1.10.0=ha56f1ee_2 + - libstdcxx-devel_linux-64=9.4.0=hd854feb_11 - libstdcxx-ng=11.2.0=he4da1e4_11 - libtiff=4.3.0=hf544144_1 - libtool=2.4.6=h9c3ff4c_1008 @@ -143,16 +161,19 @@ dependencies: - libwebp=1.2.1=h3452ae3_0 - libwebp-base=1.2.1=h7f98852_0 - libxcb=1.13=h7f98852_1004 - - libxml2=2.9.12=h885dcf4_1 + - libxml2=2.9.12=h72842e0_0 - libzlib=1.2.11=h36c2ea0_1013 - logmuse=0.2.6=pyh8c360ce_0 - lz4-c=1.9.3=h9c3ff4c_1 - lzo=2.10=h516909a_1000 + - make=4.3=hd18ef5c_1 - markupsafe=2.0.1=py39h3811e60_1 - matplotlib-base=3.5.0=py39h2fa2bec_0 - more-itertools=8.11.0=pyhd8ed1ab_0 + - mpi=1.0=openmpi - multidict=5.2.0=py39h3811e60_1 - munkres=1.1.4=pyh9f0ad1d_0 + - muscle=3.8.1551=h7d875b9_6 - nbformat=5.1.3=pyhd8ed1ab_0 - ncurses=6.2=h58526e2_4 - networkx=2.6.3=pyhd8ed1ab_1 @@ -160,6 +181,7 @@ dependencies: - oauth2client=4.1.3=py_0 - olefile=0.46=pyh9f0ad1d_1 - openjpeg=2.4.0=hb52868f_1 + - openmpi=4.1.2=hbfc84c5_0 - openssl=1.1.1l=h7f98852_0 - packaging=21.3=pyhd8ed1ab_0 - pandas=1.3.4=py39hde0f152_1 @@ -167,6 +189,7 @@ dependencies: - parallel=20170422=pl5.22.0_0 - paramiko=2.8.0=pyhd8ed1ab_0 - pcre=8.45=h9c3ff4c_0 + - pcre2=10.37=h032f7d1_0 - peppy=0.31.2=pyhd8ed1ab_0 - perl=5.22.0.1=0 - pillow=8.4.0=py39ha612740_0 @@ -198,11 +221,78 @@ dependencies: - python=3.9.7=hb7a2778_3_cpython - python-dateutil=2.8.2=pyhd8ed1ab_0 - python-irodsclient=1.0.0=pyhd8ed1ab_0 + - python-tzdata=2021.5=pyhd8ed1ab_0 - python_abi=3.9=2_cp39 - pytz=2021.3=pyhd8ed1ab_0 + - pytz-deprecation-shim=0.1.0.post0=py39hf3d152e_1 - pyu2f=0.1.5=pyhd8ed1ab_0 - pyyaml=6.0=py39h3811e60_3 + - r-ape=5.5=r41h306847c_0 + - r-aplot=0.1.1=r41hc72bb7e_0 + - r-assertthat=0.2.1=r41hc72bb7e_2 + - r-backports=1.4.0=r41hcfec24a_0 + - r-base=4.1.1=hb67fd72_0 + - r-brio=1.1.3=r41hcfec24a_0 + - r-callr=3.7.0=r41hc72bb7e_0 + - r-cli=3.1.0=r41h03ef668_0 + - r-colorspace=2.0_2=r41hcfec24a_0 + - r-crayon=1.4.2=r41hc72bb7e_0 + - r-desc=1.4.0=r41hc72bb7e_0 + - r-diffobj=0.3.5=r41hcfec24a_0 + - r-digest=0.6.29=r41h03ef668_0 + - r-dplyr=1.0.7=r41h03ef668_0 + - r-ellipsis=0.3.2=r41hcfec24a_0 + - r-evaluate=0.14=r41hc72bb7e_2 + - r-fansi=0.4.2=r41hcfec24a_0 + - r-farver=2.1.0=r41h03ef668_0 + - r-generics=0.1.1=r41hc72bb7e_0 + - r-ggfun=0.0.4=r41hc72bb7e_0 + - r-ggplot2=3.3.5=r41hc72bb7e_0 + - r-ggplotify=0.1.0=r41hc72bb7e_0 + - r-glue=1.5.1=r41hcfec24a_0 + - r-gridgraphics=0.5_1=r41hc72bb7e_0 + - r-gtable=0.3.0=r41hc72bb7e_3 + - r-isoband=0.2.5=r41h03ef668_0 + - r-jsonlite=1.7.2=r41hcfec24a_0 + - r-labeling=0.4.2=r41hc72bb7e_0 + - r-lattice=0.20_45=r41hcfec24a_0 + - r-lazyeval=0.2.2=r41hcfec24a_2 + - r-lifecycle=1.0.1=r41hc72bb7e_0 + - r-magrittr=2.0.1=r41hcfec24a_1 + - r-mass=7.3_54=r41hcfec24a_0 + - r-matrix=1.3_4=r41he454529_0 + - r-mgcv=1.8_38=r41he454529_0 + - r-munsell=0.5.0=r41hc72bb7e_1003 + - r-nlme=3.1_153=r41h859d828_0 + - r-patchwork=1.1.1=r41hc72bb7e_0 + - r-pillar=1.6.4=r41hc72bb7e_0 + - r-pkgconfig=2.0.3=r41hc72bb7e_1 + - r-pkgload=1.2.4=r41h03ef668_0 + - r-praise=1.0.0=r41hc72bb7e_1004 + - r-processx=3.5.2=r41hcfec24a_0 + - r-ps=1.6.0=r41hcfec24a_0 + - r-purrr=0.3.4=r41hcfec24a_1 + - r-r6=2.5.1=r41hc72bb7e_0 + - r-rcolorbrewer=1.1_2=r41h785f33e_1003 + - r-rcpp=1.0.7=r41h03ef668_0 + - r-rematch2=2.1.2=r41hc72bb7e_1 + - r-rlang=0.4.12=r41hcfec24a_0 + - r-rprojroot=2.0.2=r41hc72bb7e_0 + - r-rstudioapi=0.13=r41hc72bb7e_0 + - r-scales=1.1.1=r41hc72bb7e_0 + - r-testthat=3.1.0=r41h03ef668_0 + - r-tibble=3.1.6=r41hcfec24a_0 + - r-tidyr=1.1.4=r41h03ef668_0 + - r-tidyselect=1.1.1=r41hc72bb7e_0 + - r-tidytree=0.3.6=r41hc72bb7e_0 + - r-utf8=1.2.2=r41hcfec24a_0 + - r-vctrs=0.3.8=r41hcfec24a_1 + - r-viridislite=0.4.0=r41hc72bb7e_0 + - r-waldo=0.3.1=r41hc72bb7e_0 + - r-withr=2.4.3=r41hc72bb7e_0 + - r-yulab.utils=0.0.4=r41hc72bb7e_0 - ratelimiter=1.2.0=py_1002 + - raxml-ng=1.0.3=h32fcf60_0 - readline=8.1=h46c0cb4_0 - reproc=14.2.3=h7f98852_0 - reproc-cpp=14.2.3=h9c3ff4c_0 @@ -212,9 +302,11 @@ dependencies: - s3transfer=0.5.0=pyhd8ed1ab_0 - samtools=1.12=h9aed4be_1 - scipy=1.7.2=py39hee8e79c_0 + - sed=4.8=he412f7d_0 - seqkit=2.1.0=h9ee0642_0 - seqtk=1.3=h5bf99c6_3 - setuptools=59.1.1=py39hf3d152e_0 + - simplegeneric=0.8.1=py_1 - simplejson=3.17.6=py39h3811e60_0 - six=1.16.0=pyh6c4a22f_0 - slacker=0.14.0=py_0 @@ -225,9 +317,11 @@ dependencies: - sqlite=3.36.0=h9cd32fc_2 - stone=3.2.1=pyhd8ed1ab_0 - stopit=1.1.2=py_0 + - sysroot_linux-64=2.12=he073ed8_15 - tabixpp=1.1.0=he28291e_6 - tabulate=0.8.9=pyhd8ed1ab_0 - tk=8.6.11=h27826a3_1 + - tktable=2.10=hb7b940f_3 - toml=0.10.2=pyhd8ed1ab_0 - toposort=1.7=pyhd8ed1ab_0 - tqdm=4.62.3=pyhd8ed1ab_0 @@ -235,6 +329,7 @@ dependencies: - typing-extensions=4.0.0=hd8ed1ab_0 - typing_extensions=4.0.0=pyha770c72_0 - tzdata=2021e=he74cb21_0 + - tzlocal=4.1=py39hf3d152e_1 - ubiquerg=0.6.1=pyh9f0ad1d_0 - uritemplate=3.0.1=py_0 - urllib3=1.26.7=pyhd8ed1ab_0