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environment.yml
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environment.yml
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name: fix_transcripts
channels:
- bioconda
- conda-forge
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- _r-mutex=1.0.1=anacondar_1
- agat=1.0.0=pl5321hdfd78af_1
- binutils_impl_linux-64=2.40=hf600244_0
- bwidget=1.9.14=ha770c72_1
- bzip2=1.0.8=h7f98852_4
- c-ares=1.18.1=h7f98852_0
- ca-certificates=2022.12.7=ha878542_0
- cairo=1.16.0=ha61ee94_1014
- curl=7.87.0=h6312ad2_0
- expat=2.5.0=hcb278e6_1
- 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=2.14.2=h14ed4e7_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.12.1=hca18f0e_1
- fribidi=1.0.10=h36c2ea0_0
- gcc_impl_linux-64=12.2.0=hcc96c02_19
- gettext=0.21.1=h27087fc_0
- gffread=0.12.7=hd03093a_1
- gfortran_impl_linux-64=12.2.0=h55be85b_19
- glpk=5.0=h445213a_0
- gmp=6.2.1=h58526e2_0
- graphite2=1.3.13=h58526e2_1001
- gsl=2.7=he838d99_0
- gxx_impl_linux-64=12.2.0=hcc96c02_19
- harfbuzz=6.0.0=h8e241bc_0
- htslib=1.17=h6bc39ce_0
- icu=70.1=h27087fc_0
- jpeg=9e=h0b41bf4_3
- kernel-headers_linux-64=2.6.32=he073ed8_15
- keyutils=1.6.1=h166bdaf_0
- krb5=1.20.1=hf9c8cef_0
- ld_impl_linux-64=2.40=h41732ed_0
- lerc=4.0.0=h27087fc_0
- libblas=3.9.0=16_linux64_openblas
- libcblas=3.9.0=16_linux64_openblas
- libcurl=7.87.0=h6312ad2_0
- libdb=6.1.26=0
- libdeflate=1.13=h166bdaf_0
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=h516909a_1
- libexpat=2.5.0=hcb278e6_1
- libffi=3.4.2=h7f98852_5
- libgcc=7.2.0=h69d50b8_2
- libgcc-devel_linux-64=12.2.0=h3b97bd3_19
- libgcc-ng=12.2.0=h65d4601_19
- libgfortran-ng=12.2.0=h69a702a_19
- libgfortran5=12.2.0=h337968e_19
- libglib=2.76.1=ha491796_0
- libgomp=12.2.0=h65d4601_19
- libiconv=1.17=h166bdaf_0
- liblapack=3.9.0=16_linux64_openblas
- libnghttp2=1.51.0=hdcd2b5c_0
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.21=pthreads_h78a6416_3
- libpng=1.6.39=h753d276_0
- libsanitizer=12.2.0=h46fd767_19
- libssh2=1.10.0=haa6b8db_3
- libstdcxx-devel_linux-64=12.2.0=h3b97bd3_19
- libstdcxx-ng=12.2.0=h46fd767_19
- libtiff=4.4.0=h0e0dad5_3
- libuuid=2.38.1=h0b41bf4_0
- libwebp-base=1.3.0=h0b41bf4_0
- libxcb=1.13=h7f98852_1004
- libxml2=2.10.3=hca2bb57_4
- libzlib=1.2.13=h166bdaf_4
- make=4.3=hd18ef5c_1
- ncurses=6.3=h27087fc_1
- openssl=1.1.1t=h0b41bf4_0
- pango=1.50.14=hd33c08f_0
- pcre2=10.40=hc3806b6_0
- perl=5.32.1=2_h7f98852_perl5
- perl-apache-test=1.43=pl5321hdfd78af_0
- perl-app-cpanminus=1.7046=pl5321hd8ed1ab_0
- perl-b-cow=0.007=pl5321h166bdaf_0
- perl-base=2.23=pl5321hdfd78af_2
- perl-bioperl-core=1.7.8=pl5321h9ee0642_0
- perl-business-isbn=3.007=pl5321hdfd78af_0
- perl-business-isbn-data=20210112.006=pl5321hdfd78af_0
- perl-carp=1.38=pl5321hdfd78af_4
- perl-class-inspector=1.36=pl5321hdfd78af_0
- perl-class-load=0.25=pl5321hdfd78af_1
- perl-class-load-xs=0.10=pl5321h9f5acd7_6
- perl-class-methodmaker=2.24=pl5321hec16e2b_3
- perl-clone=0.46=pl5321hec16e2b_0
- perl-compress-raw-zlib=2.105=pl5321h87f3376_0
- perl-constant=1.33=pl5321hdfd78af_2
- perl-cpan-meta-check=0.014=pl5321hdfd78af_1
- perl-cpan-meta-requirements=2.140=pl5321hdfd78af_1
- perl-data-dumper=2.183=pl5321hec16e2b_1
- perl-data-optlist=0.113=pl5321ha770c72_0
- perl-devel-globaldestruction=0.14=pl5321hdfd78af_1
- perl-devel-overloadinfo=0.007=pl5321hdfd78af_0
- perl-devel-stacktrace=2.04=pl5321hdfd78af_1
- perl-digest-hmac=1.04=pl5321hdfd78af_0
- perl-digest-md5=2.58=pl5321hec16e2b_1
- perl-dist-checkconflicts=0.11=pl5321hdfd78af_3
- perl-encode=3.19=pl5321hec16e2b_1
- perl-encode-locale=1.05=pl5321hdfd78af_7
- perl-eval-closure=0.14=pl5321h9f5acd7_6
- perl-exporter=5.72=pl5321hdfd78af_2
- perl-exporter-tiny=1.002002=pl5321hdfd78af_0
- perl-extutils-makemaker=7.70=pl5321hd8ed1ab_0
- perl-file-listing=6.15=pl5321hdfd78af_0
- perl-file-share=0.25=pl5321hdfd78af_3
- perl-file-sharedir=1.118=pl5321hdfd78af_0
- perl-file-sharedir-install=0.13=pl5321hdfd78af_1
- perl-file-spec=3.48_01=pl5321hdfd78af_2
- perl-getopt-long=2.54=pl5321hdfd78af_0
- perl-graph=0.9726=pl5321hdfd78af_0
- perl-heap=0.80=pl5321hdfd78af_1
- perl-html-parser=3.81=pl5321h9f5acd7_0
- perl-html-tagset=3.20=pl5321hdfd78af_4
- perl-http-cookies=6.10=pl5321hdfd78af_0
- perl-http-daemon=6.16=pl5321hdfd78af_0
- perl-http-date=6.05=pl5321hdfd78af_0
- perl-http-message=6.36=pl5321hdfd78af_0
- perl-http-negotiate=6.01=pl5321hdfd78af_4
- perl-io-html=1.004=pl5321hdfd78af_0
- perl-io-socket-ssl=2.074=pl5321hdfd78af_0
- perl-libwww-perl=6.39=pl5321hdfd78af_1
- perl-list-moreutils=0.430=pl5321hdfd78af_0
- perl-list-moreutils-xs=0.430=pl5321hec16e2b_1
- perl-lwp-mediatypes=6.04=pl5321hdfd78af_1
- perl-lwp-protocol-https=6.10=pl5321hdfd78af_0
- perl-lwp-simple=6.39=pl5321h9ee0642_5
- perl-mime-base64=3.16=pl5321hec16e2b_2
- perl-module-implementation=0.09=pl5321hdfd78af_3
- perl-module-metadata=1.000037=pl5321hdfd78af_0
- perl-module-runtime=0.016=pl5321hdfd78af_2
- perl-module-runtime-conflicts=0.003=pl5321hdfd78af_1
- perl-moose=2.2202=pl5321hec16e2b_0
- perl-mozilla-ca=20211001=pl5321hdfd78af_0
- perl-mro-compat=0.15=pl5321hdfd78af_0
- perl-net-http=6.22=pl5321hdfd78af_0
- perl-net-ssleay=1.92=pl5321h0e0aaa8_1
- perl-ntlm=1.09=pl5321hdfd78af_5
- perl-package-deprecationmanager=0.17=pl5321hdfd78af_1
- perl-package-stash=0.40=pl5321h87f3376_1
- perl-package-stash-xs=0.30=pl5321h0b41bf4_0
- perl-params-util=1.102=pl5321h9f5acd7_1
- perl-parent=0.236=pl5321hdfd78af_2
- perl-pathtools=3.75=pl5321hec16e2b_3
- perl-pod-escapes=1.07=pl5321hdfd78af_2
- perl-safe=2.37=pl5321hdfd78af_2
- perl-scalar-list-utils=1.62=pl5321hec16e2b_1
- perl-set-object=1.42=pl5321hec16e2b_1
- perl-socket=2.027=pl5321hec16e2b_3
- perl-sort-naturally=1.03=pl5321hdfd78af_3
- perl-storable=3.15=pl5321hec16e2b_3
- perl-sub-exporter=0.988=pl5321hdfd78af_0
- perl-sub-exporter-progressive=0.001013=pl5321hdfd78af_1
- perl-sub-identify=0.14=pl5321hec16e2b_2
- perl-sub-install=0.928=pl5321hdfd78af_3
- perl-sub-name=0.21=pl5321hec16e2b_3
- perl-term-progressbar=2.22=pl5321hdfd78af_1
- perl-test=1.26=pl5321hdfd78af_2
- perl-test-fatal=0.016=pl5321hdfd78af_0
- perl-test-harness=3.44=pl5321hdfd78af_0
- perl-test-requiresinternet=0.05=pl5321hdfd78af_1
- perl-time-local=1.30=pl5321hdfd78af_0
- perl-timedate=2.33=pl5321hdfd78af_2
- perl-try-tiny=0.31=pl5321hdfd78af_1
- perl-uri=5.12=pl5321hdfd78af_0
- perl-url-encode=0.03=pl5321h9ee0642_0
- perl-version=0.9924=pl5321hec16e2b_2
- perl-www-robotrules=6.02=pl5321hdfd78af_4
- perl-xsloader=0.24=pl5321hd8ed1ab_0
- perl-yaml=1.30=pl5321hdfd78af_0
- pixman=0.40.0=h36c2ea0_0
- pthread-stubs=0.4=h36c2ea0_1001
- r-assertthat=0.2.1=r42hc72bb7e_3
- r-backports=1.4.1=r42h06615bd_1
- r-base=4.2.2=h6b4767f_2
- r-base64url=1.4=r42h06615bd_1005
- r-bit=4.0.5=r42h06615bd_0
- r-bit64=4.0.5=r42h06615bd_1
- r-callr=3.7.3=r42hc72bb7e_0
- r-cli=3.6.1=r42h38f115c_0
- r-clipr=0.8.0=r42hc72bb7e_1
- r-codetools=0.2_19=r42hc72bb7e_0
- r-cpp11=0.4.3=r42hc72bb7e_0
- r-crayon=1.5.2=r42hc72bb7e_1
- r-data.table=1.14.8=r42h133d619_0
- r-digest=0.6.31=r42h38f115c_0
- r-dplyr=1.1.1=r42h38f115c_0
- r-ellipsis=0.3.2=r42h06615bd_1
- r-evaluate=0.20=r42hc72bb7e_0
- r-fansi=1.0.4=r42h133d619_0
- r-generics=0.1.3=r42hc72bb7e_1
- r-glue=1.6.2=r42h06615bd_1
- r-here=1.0.1=r42hc72bb7e_1
- r-highr=0.10=r42hc72bb7e_0
- r-hms=1.1.3=r42hc72bb7e_0
- r-igraph=1.4.2=r42h65ed38e_0
- r-knitr=1.42=r42hc72bb7e_1
- r-lattice=0.21_8=r42h133d619_0
- r-lifecycle=1.0.3=r42hc72bb7e_1
- r-magrittr=2.0.3=r42h06615bd_1
- r-matrix=1.5_4=r42he1ae0d6_0
- r-pillar=1.9.0=r42hc72bb7e_0
- r-pkgconfig=2.0.3=r42hc72bb7e_2
- r-prettyunits=1.1.1=r42hc72bb7e_2
- r-processx=3.8.1=r42h133d619_0
- r-progress=1.2.2=r42hc72bb7e_3
- r-ps=1.7.4=r42h133d619_0
- r-purrr=1.0.1=r42h133d619_0
- r-r6=2.5.1=r42hc72bb7e_1
- r-readr=2.1.4=r42h38f115c_0
- r-rlang=1.1.0=r42h38f115c_0
- r-rprojroot=2.0.3=r42hc72bb7e_1
- r-stringi=1.7.12=r42h1ae9187_0
- r-stringr=1.5.0=r42h785f33e_0
- r-targets=0.14.3=r42hc72bb7e_0
- r-tibble=3.2.1=r42h133d619_1
- r-tidyselect=1.2.0=r42hc72bb7e_0
- r-tzdb=0.3.0=r42h7525677_1
- r-utf8=1.2.3=r42h133d619_0
- r-vctrs=0.6.1=r42h38f115c_0
- r-vroom=1.6.1=r42h38f115c_0
- r-withr=2.5.0=r42hc72bb7e_1
- r-xfun=0.38=r42h38f115c_0
- r-yaml=2.3.7=r42h133d619_0
- readline=8.2=h8228510_1
- samtools=1.17=h00cdaf9_0
- sed=4.8=he412f7d_0
- sysroot_linux-64=2.12=he073ed8_15
- tk=8.6.12=h27826a3_0
- tktable=2.10=hb7b940f_3
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.0.10=h7f98852_0
- xorg-libsm=1.2.3=hd9c2040_1000
- xorg-libx11=1.8.4=h0b41bf4_0
- xorg-libxau=1.0.9=h7f98852_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h0b41bf4_2
- xorg-libxrender=0.9.10=h7f98852_1003
- xorg-libxt=1.2.1=h7f98852_2
- 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=h166bdaf_4
- zstd=1.5.2=h3eb15da_6
prefix: /home/jhgille2/mambaforge/envs/fix_transcripts