/
environment.yml
executable file
·194 lines (194 loc) · 5.86 KB
/
environment.yml
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name: snpkit
channels:
- bioconda
- conda-forge
- defaults
- r
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- _r-mutex=1.0.1=anacondar_1
- alsa-lib=1.2.7.2=h166bdaf_0
- bcftools=1.2=h02bfda8_4
- bedtools=2.30.0=h468198e_3
- binutils_impl_linux-64=2.39=h6ceecb4_0
- bioawk=1.0=h7132678_7
- blas=1.0=openblas
- bwa=0.7.17=h7132678_9
- bwidget=1.9.14=ha770c72_1
- bzip2=1.0.8=h7f98852_4
- c-ares=1.18.1=h7f98852_0
- ca-certificates=2022.07.19=h06a4308_0
- cairo=1.16.0=h19f5f5c_2
- curl=7.85.0=h2283fc2_0
- dbus=1.13.18=hb2f20db_0
- expat=2.4.9=h27087fc_0
- font-ttf-dejavu-sans-mono=2.37=hab24e00_0
- font-ttf-inconsolata=3.000=h77eed37_0
- font-ttf-source-code-pro=2.038=h77eed37_0
- font-ttf-ubuntu=0.83=hab24e00_0
- fontconfig=2.14.0=hc2a2eb6_1
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.12.1=hca18f0e_0
- fribidi=1.0.10=h36c2ea0_0
- gatk=3.8=hdfd78af_11
- gatk4=4.3.0.0=py36hdfd78af_0
- gcc_impl_linux-64=12.2.0=hcc96c02_18
- gettext=0.21.1=h27087fc_0
- gfortran_impl_linux-64=12.2.0=h55be85b_18
- giflib=5.2.1=h36c2ea0_2
- glib=2.74.0=h6239696_0
- glib-tools=2.74.0=h6239696_0
- graphite2=1.3.14=h295c915_1
- gsl=2.7.1=h6e86dc7_1
- gxx_impl_linux-64=12.2.0=hcc96c02_18
- harfbuzz=5.3.0=h418a68e_0
- htslib=1.9=h4da6232_3
- icu=70.1=h27087fc_0
- jpeg=9e=h166bdaf_2
- kernel-headers_linux-64=2.6.32=he073ed8_15
- keyutils=1.6.1=h166bdaf_0
- krb5=1.19.3=h08a2579_0
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.39=hc81fddc_0
- lerc=4.0.0=h27087fc_0
- libblas=3.9.0=16_linux64_openblas
- libcblas=3.9.0=16_linux64_openblas
- libcups=2.3.3=h3e49a29_2
- libcurl=7.85.0=h2283fc2_0
- libdeflate=1.14=h166bdaf_0
- libedit=3.1.20210910=h7f8727e_0
- libev=4.33=h516909a_1
- libffi=3.4.2=h7f98852_5
- libgcc=7.2.0=h69d50b8_2
- libgcc-devel_linux-64=12.2.0=h3b97bd3_18
- libgcc-ng=12.2.0=h65d4601_18
- libgfortran-ng=12.2.0=h69a702a_18
- libgfortran5=12.2.0=h337968e_18
- libglib=2.74.0=h7a41b64_0
- libgomp=12.2.0=h65d4601_18
- libiconv=1.17=h166bdaf_0
- liblapack=3.9.0=16_linux64_openblas
- libnghttp2=1.47.0=hff17c54_1
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.21=pthreads_h78a6416_3
- libpng=1.6.38=h753d276_0
- libsanitizer=12.2.0=h46fd767_18
- libsqlite=3.39.4=h753d276_0
- libssh2=1.10.0=hf14f497_3
- libstdcxx-devel_linux-64=12.2.0=h3b97bd3_18
- libstdcxx-ng=12.2.0=h46fd767_18
- libtiff=4.4.0=h55922b4_4
- libuuid=2.32.1=h7f98852_1000
- libwebp-base=1.2.4=h166bdaf_0
- libxcb=1.15=h7f8727e_0
- libxml2=2.10.3=h7463322_0
- libzlib=1.2.13=h166bdaf_4
- make=4.3=hd18ef5c_1
- mash=1.1=0
- mummer=3.23=pl5321h87f3376_14
- ncurses=6.3=h27087fc_1
- openjdk=8.0.152=h7b6447c_3
- openssl=3.0.5=h166bdaf_2
- packaging=21.3=pyhd3eb1b0_0
- pango=1.50.11=h382ae3d_0
- pcre2=10.37=hc3806b6_1
- perl=5.32.1=2_h7f98852_perl5
- picard=2.27.4=hdfd78af_0
- pip=22.3=pyhd8ed1ab_0
- pixman=0.40.0=h36c2ea0_0
- pyfasta=0.5.2=py_1
- python=3.10.6=ha86cf86_0_cpython
- python-dateutil=2.8.2=pyhd3eb1b0_0
- python_abi=3.10=2_cp310
- r-base=4.2.1=ha8c3e7c_1
- r-bitops=1.0_7=r42h76d94ec_0
- r-catools=1.18.2=r42h884c59f_0
- r-cli=3.3.0=r42h884c59f_0
- r-colorspace=2.0_3=r42h76d94ec_0
- r-crayon=1.5.1=r42h6115d3f_0
- r-digest=0.6.29=r42h884c59f_0
- r-ellipsis=0.3.2=r42h76d94ec_0
- r-fansi=1.0.3=r42h76d94ec_0
- r-farver=2.1.0=r42h884c59f_0
- r-ggplot2=3.3.6=r42h6115d3f_0
- r-glue=1.6.2=r42h76d94ec_0
- r-gplots=3.1.3=r42h6115d3f_0
- r-gsalib=2.1=r42h142f84f_0
- r-gtable=0.3.0=r42h6115d3f_0
- r-gtools=3.9.2.1=r42h76d94ec_0
- r-isoband=0.2.5=r42h884c59f_0
- r-kernsmooth=2.23_20=r42h640688f_0
- r-labeling=0.4.2=r42h6115d3f_0
- r-lattice=0.20_45=r42h76d94ec_0
- r-lifecycle=1.0.1=r42h142f84f_0
- r-magrittr=2.0.3=r42h76d94ec_0
- r-mass=7.3_57=r42h76d94ec_0
- r-matrix=1.4_1=r42h76d94ec_0
- r-mgcv=1.8_40=r42h76d94ec_0
- r-munsell=0.5.0=r42h6115d3f_0
- r-nlme=3.1_157=r42h640688f_0
- r-pillar=1.7.0=r42h6115d3f_0
- r-pkgconfig=2.0.3=r42h6115d3f_0
- r-plyr=1.8.7=r42h884c59f_0
- r-r6=2.5.1=r42h6115d3f_0
- r-rcolorbrewer=1.1_3=r42h6115d3f_0
- r-rcpp=1.0.8.3=r42h884c59f_0
- r-reshape=0.8.9=r42h142f84f_0
- r-rlang=1.0.2=r42h884c59f_0
- r-scales=1.2.0=r42h6115d3f_0
- r-tibble=3.1.7=r42h76d94ec_0
- r-utf8=1.2.2=r42h76d94ec_0
- r-vctrs=0.4.1=r42h884c59f_0
- r-viridislite=0.4.0=r42h6115d3f_0
- r-withr=2.5.0=r42h6115d3f_0
- readline=8.1.2=h0f457ee_0
- samclip=0.4.0=hdfd78af_1
- samtools=1.2=2
- sed=4.8=he412f7d_0
- seqtk=1.3=h7132678_4
- setuptools=65.5.0=pyhd8ed1ab_0
- six=1.16.0=pyhd3eb1b0_1
- snpeff=4.3.1t=2
- sysroot_linux-64=2.12=he073ed8_15
- tabix=1.11=hdfd78af_0
- tk=8.6.12=h27826a3_0
- tktable=2.10=hb7b940f_3
- trimmomatic=0.39=hdfd78af_2
- tzdata=2022e=h191b570_0
- vcftools=0.1.16=pl5321hd03093a_7
- wheel=0.37.1=pyhd8ed1ab_0
- xorg-fixesproto=5.0=h7f98852_1002
- xorg-inputproto=2.3.2=h7f98852_1002
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.0.10=h7f98852_0
- xorg-libsm=1.2.3=hd9c2040_1000
- xorg-libx11=1.7.2=h7f98852_0
- xorg-libxext=1.3.4=h7f98852_1
- xorg-libxfixes=5.0.3=h7f98852_1004
- xorg-libxi=1.7.10=h7f98852_0
- xorg-libxrender=0.9.10=h7f98852_1003
- xorg-libxt=1.2.1=h7f98852_2
- xorg-libxtst=1.2.3=h7f98852_1002
- xorg-recordproto=1.14.2=h7f98852_1002
- xorg-renderproto=0.11.1=h7f98852_1002
- xorg-xextproto=7.3.0=h7f98852_1002
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.6=h166bdaf_0
- zlib=1.2.13=h166bdaf_4
- zstd=1.5.2=h6239696_4
- pip:
- biopython==1.79
- bottleneck==1.3.5
- click==8.1.3
- coloredlogs==15.0.1
- cyvcf2==0.30.18
- humanfriendly==10.0
- joblib==1.2.0
- numexpr==2.8.3
- numpy==1.23.4
- pandas==1.4.4
- pyparsing==3.0.9
- pytz==2022.1
prefix: /scratch/esnitkin_root/esnitkin/apirani/Ali/2022_conda_backup/snpkit_py3