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nf-core-viralrecon-1.0dev.yml
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nf-core-viralrecon-1.0dev.yml
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name: nf-core-viralrecon-1.0dev
channels:
- pedroscampoy
- bioconda
- hcc
- anaconda
- r
- conda-forge
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=0_gnu
- _r-mutex=1.0.1=anacondar_1
- abacas=1.3.1=0
- alsa-lib=1.1.5=h516909a_1002
- aragorn=1.2.38=h470a237_2
- artemis=18.1.0=0
- barrnap=0.9=3
- bcftools=1.9=h68d8f2e_9
- bedtools=2.29.2=hc088bd4_0
- binutils_impl_linux-64=2.34=h53a641e_0
- binutils_linux-64=2.34=hc952b39_18
- biopython=1.76=py36h516909a_0
- blast=2.9.0=pl526h3066fca_4
- bowtie2=2.3.5.1=py36he513fc3_0
- bwidget=1.9.14=0
- bzip2=1.0.8=h516909a_2
- ca-certificates=2019.11.28=hecc5488_0
- cairo=1.16.0=hcf35c78_1003
- capnproto=0.6.1=hfc679d8_1
- cd-hit=4.8.1=h8b12597_3
- certifi=2019.11.28=py36h9f0ad1d_1
- cffi=1.14.0=py36hd463f26_0
- chardet=3.0.4=py36h9f0ad1d_1006
- circos=0.69.8=0
- click=7.1.1=pyh8c360ce_0
- clustalw=2.1=hc9558a2_5
- coloredlogs=14.0=py36h9f0ad1d_1
- colormath=3.0.0=py_2
- cryptography=2.8=py36h45558ae_2
- curl=7.68.0=hf8cf82a_0
- cycler=0.10.0=py_2
- dbus=1.13.6=he372182_0
- decorator=4.4.2=py_0
- entrez-direct=13.3=pl526h375a9b1_0
- expat=2.2.9=he1b5a44_2
- fastq_utils=0.23.0=hf89b575_0
- fastqc=0.11.9=0
- font-ttf-dejavu-sans-mono=2.37=hab24e00_0
- fontconfig=2.13.1=h86ecdb6_1001
- freebayes=1.3.2=py36hc088bd4_0
- freetype=2.10.1=he06d7ca_0
- fribidi=1.0.9=h516909a_0
- future=0.18.2=py36h9f0ad1d_1
- gawk=5.0.1=h516909a_1
- gcc_impl_linux-64=7.3.0=hd420e75_5
- gcc_linux-64=7.3.0=h553295d_18
- gettext=0.19.8.1=hc5be6a0_1002
- gfortran_impl_linux-64=7.3.0=hdf63c60_5
- gfortran_linux-64=7.3.0=h553295d_18
- giflib=5.2.1=h516909a_2
- glib=2.58.3=py36hd3ed26a_1003
- glimmerhmm=3.0.4=pl526hf484d3e_3
- graphite2=1.3.13=he1b5a44_1001
- graphviz=2.42.3=h0511662_0
- gsl=2.5=h294904e_1
- gst-plugins-base=1.14.5=h0935bb2_2
- gstreamer=1.14.5=h36ae1b5_2
- gxx_impl_linux-64=7.3.0=hdf63c60_5
- gxx_linux-64=7.3.0=h553295d_18
- harfbuzz=2.4.0=h9f30f68_3
- hmmer=3.3=he1b5a44_0
- htslib=1.9=h4da6232_3
- humanfriendly=8.1=py36h9f0ad1d_1
- icu=64.2=he1b5a44_1
- idna=2.9=py_1
- infernal=1.1.2=h14c3975_2
- ivar=1.1_beta=h3ae53b1_0
- jinja2=2.11.1=py_0
- joblib=0.14.1=py_0
- jpeg=9c=h14c3975_1001
- kiwisolver=1.1.0=py36hdb11119_1
- kraken2=2.0.8_beta=pl526hc9558a2_1
- krb5=1.16.4=h2fd8d38_0
- lcms2=2.9=hbd6801e_1
- ld_impl_linux-64=2.34=h53a641e_0
- libblas=3.8.0=14_openblas
- libcblas=3.8.0=14_openblas
- libclang=9.0.1=default_hde54327_0
- libcurl=7.68.0=hda55be3_0
- libdb=6.1.26=he1b5a44_2001
- libdeflate=1.5=h516909a_0
- libedit=3.1.20170329=hf8c457e_1001
- libfaketime=0.9.8=h516909a_0
- libffi=3.2.1=he1b5a44_1007
- libgcc-ng=9.2.0=h24d8f2e_2
- libgd=2.2.5=h307a58e_1007
- libgfortran-ng=7.3.0=hdf63c60_5
- libgomp=9.2.0=h24d8f2e_2
- libiconv=1.15=h516909a_1006
- libidn11=1.34=h1cef754_0
- libidn2=2.3.0=h516909a_0
- liblapack=3.8.0=14_openblas
- libllvm9=9.0.1=hc9558a2_0
- libopenblas=0.3.7=h5ec1e0e_6
- libpng=1.6.37=hed695b0_1
- libssh2=1.8.2=h22169c7_2
- libstdcxx-ng=9.2.0=hdf63c60_2
- libtiff=4.1.0=hc3755c2_3
- libtool=2.4.6=h14c3975_1002
- libunistring=0.9.10=h14c3975_0
- libuuid=2.32.1=h14c3975_1000
- libwebp=1.0.2=h56121f0_5
- libxcb=1.13=h14c3975_1002
- libxkbcommon=0.10.0=he1b5a44_0
- libxml2=2.9.10=hee79883_0
- libxslt=1.1.33=h31b3aaa_0
- llvm-openmp=8.0.1=hc9558a2_0
- lz4-c=1.8.3=he1b5a44_1001
- lzstring=1.0.4=py_1001
- make=4.3=h516909a_0
- markdown=3.1.1=py_0
- markupsafe=1.1.1=py36h8c4c3a4_1
- mash=2.2.2=h3d38be6_1
- matplotlib=3.1.1=py36_2
- matplotlib-base=3.1.1=py36h250f245_2
- minced=0.4.2=0
- miniasm=0.3_r179=ha92aebf_0
- multiqc=1.8=py_2
- mummer=3.23=pl526he1b5a44_11
- ncurses=6.1=hf484d3e_1002
- networkx=2.2=py_1
- nspr=4.25=he1b5a44_0
- nss=3.47=he751ad9_0
- numpy=1.18.1=py36h7314795_1
- openjdk=11.0.1=h600c080_1018
- openmp=8.0.1=0
- openssl=1.1.1f=h516909a_0
- paml=4.9=h516909a_5
- pandas=1.0.3=py36h830a2c2_0
- pango=1.42.4=h7062337_3
- parallel=20200322=0
- pcre=8.44=he1b5a44_0
- perl=5.26.2=h516909a_1006
- perl-aceperl=1.92=pl526_2
- perl-algorithm-diff=1.1903=pl526_2
- perl-algorithm-munkres=0.08=pl526_1
- perl-apache-test=1.40=pl526_1
- perl-app-cpanminus=1.7044=pl526_1
- perl-appconfig=1.71=pl526_1
- perl-archive-tar=2.32=pl526_0
- perl-array-compare=3.0.1=pl526_1
- perl-autoloader=5.74=pl526_2
- perl-base=2.23=pl526_1
- perl-bio-asn1-entrezgene=1.73=pl526_1
- perl-bio-coordinate=1.007001=pl526_1
- perl-bio-featureio=1.6.905=pl526_2
- perl-bio-phylo=0.58=pl526_2
- perl-bio-samtools=1.43=pl526h1341992_1
- perl-bio-tools-phylo-paml=1.7.3=pl526_1
- perl-bio-tools-run-alignment-clustalw=1.7.4=pl526_1
- perl-bio-tools-run-alignment-tcoffee=1.7.4=pl526_2
- perl-bioperl=1.7.2=pl526_11
- perl-bioperl-core=1.007002=pl526_2
- perl-bioperl-run=1.007002=pl526_4
- perl-business-isbn=3.004=pl526_0
- perl-business-isbn-data=20140910.003=pl526_0
- perl-cache-cache=1.08=pl526_0
- perl-capture-tiny=0.48=pl526_0
- perl-carp=1.38=pl526_3
- perl-cgi=4.44=pl526h14c3975_1
- perl-class-data-inheritable=0.08=pl526_1
- perl-class-inspector=1.34=pl526_0
- perl-class-load=0.25=pl526_0
- perl-class-load-xs=0.10=pl526h6bb024c_2
- perl-class-method-modifiers=2.12=pl526_0
- perl-clone=0.42=pl526h516909a_0
- perl-common-sense=3.74=pl526_2
- perl-compress-raw-bzip2=2.087=pl526he1b5a44_0
- perl-compress-raw-zlib=2.087=pl526hc9558a2_0
- perl-config-general=2.63=pl526_0
- perl-constant=1.33=pl526_1
- perl-convert-binary-c=0.78=pl526h6bb024c_3
- perl-convert-binhex=1.125=pl526_1
- perl-crypt-rc4=2.02=pl526_1
- perl-data-dumper=2.173=pl526_0
- perl-data-optlist=0.110=pl526_2
- perl-data-stag=0.14=pl526_1
- perl-date-format=2.30=pl526_2
- perl-db-file=1.852=pl526h14c3975_0
- perl-dbd-sqlite=1.64=pl526h516909a_0
- perl-dbi=1.642=pl526_0
- perl-devel-globaldestruction=0.14=pl526_0
- perl-devel-overloadinfo=0.005=pl526_0
- perl-devel-stacktrace=2.04=pl526_0
- perl-digest-hmac=1.03=pl526_3
- perl-digest-md5=2.55=pl526_0
- perl-digest-perl-md5=1.9=pl526_1
- perl-digest-sha1=2.13=pl526h6bb024c_1
- perl-dist-checkconflicts=0.11=pl526_2
- perl-dynaloader=1.25=pl526_1
- perl-email-date-format=1.005=pl526_2
- perl-encode=2.88=pl526_1
- perl-encode-locale=1.05=pl526_6
- perl-error=0.17027=pl526_1
- perl-eval-closure=0.14=pl526h6bb024c_4
- perl-exception-class=1.44=pl526_0
- perl-exporter=5.72=pl526_1
- perl-exporter-tiny=1.002001=pl526_0
- perl-extutils-makemaker=7.36=pl526_1
- perl-file-listing=6.04=pl526_1
- perl-file-path=2.16=pl526_0
- perl-file-slurp-tiny=0.004=pl526_1
- perl-file-sort=1.01=pl526_2
- perl-file-temp=0.2304=pl526_2
- perl-file-which=1.23=pl526_0
- perl-font-afm=1.20=pl526_2
- perl-font-ttf=1.06=pl526_0
- perl-gd=2.71=pl526he860b03_0
- perl-getopt-long=2.50=pl526_1
- perl-graph=0.9704=pl526_1
- perl-graphviz=2.24=pl526h734ff71_0
- perl-html-element-extended=1.18=pl526_1
- perl-html-entities-numbered=0.04=pl526_1
- perl-html-formatter=2.16=pl526_0
- perl-html-parser=3.72=pl526h6bb024c_5
- perl-html-tableextract=2.13=pl526_2
- perl-html-tagset=3.20=pl526_3
- perl-html-tidy=1.60=pl526_0
- perl-html-tree=5.07=pl526_1
- perl-html-treebuilder-xpath=0.14=pl526_1
- perl-http-cookies=6.04=pl526_0
- perl-http-daemon=6.01=pl526_1
- perl-http-date=6.02=pl526_3
- perl-http-message=6.18=pl526_0
- perl-http-negotiate=6.01=pl526_3
- perl-image-info=1.38=pl526_1
- perl-image-size=3.300=pl526_2
- perl-io-compress=2.087=pl526he1b5a44_0
- perl-io-html=1.001=pl526_2
- perl-io-sessiondata=1.03=pl526_1
- perl-io-socket-ssl=2.066=pl526_0
- perl-io-string=1.08=pl526_3
- perl-io-stringy=2.111=pl526_1
- perl-io-tty=1.12=pl526_1
- perl-io-zlib=1.10=pl526_2
- perl-ipc-run=20180523.0=pl526_0
- perl-ipc-sharelite=0.17=pl526h6bb024c_1
- perl-jcode=2.07=pl526_2
- perl-json=4.02=pl526_0
- perl-json-xs=2.34=pl526h6bb024c_3
- perl-lib=0.63=pl526_1
- perl-libwww-perl=6.39=pl526_0
- perl-libxml-perl=0.08=pl526_2
- perl-list-moreutils=0.428=pl526_1
- perl-list-moreutils-xs=0.428=pl526_0
- perl-lwp-mediatypes=6.04=pl526_0
- perl-lwp-protocol-https=6.07=pl526_4
- perl-lwp-simple=6.15=pl526h470a237_4
- perl-mailtools=2.21=pl526_0
- perl-math-bezier=0.01=pl526_1
- perl-math-cdf=0.1=pl526h14c3975_5
- perl-math-derivative=1.01=pl526_0
- perl-math-random=0.72=pl526h14c3975_2
- perl-math-round=0.07=pl526_1
- perl-math-spline=0.02=pl526_2
- perl-math-vecstat=0.08=pl526_1
- perl-mime-base64=3.15=pl526_1
- perl-mime-lite=3.030=pl526_1
- perl-mime-tools=5.508=pl526_1
- perl-mime-types=2.17=pl526_0
- perl-mldbm=2.05=pl526_1
- perl-module-implementation=0.09=pl526_2
- perl-module-runtime=0.016=pl526_1
- perl-module-runtime-conflicts=0.003=pl526_0
- perl-moo=2.003004=pl526_0
- perl-moose=2.2011=pl526hf484d3e_1
- perl-mozilla-ca=20180117=pl526_1
- perl-mro-compat=0.13=pl526_0
- perl-net-http=6.19=pl526_0
- perl-net-ssleay=1.88=pl526h90d6eec_0
- perl-ntlm=1.09=pl526_4
- perl-number-format=1.75=pl526_3
- perl-ole-storage_lite=0.19=pl526_3
- perl-package-deprecationmanager=0.17=pl526_0
- perl-package-stash=0.38=pl526hf484d3e_1
- perl-package-stash-xs=0.28=pl526hf484d3e_1
- perl-params-util=1.07=pl526h6bb024c_4
- perl-params-validate=1.29=pl526h14c3975_1
- perl-parent=0.236=pl526_1
- perl-parse-recdescent=1.967015=pl526_0
- perl-pathtools=3.75=pl526h14c3975_1
- perl-pdf-api2=2.035=pl526_0
- perl-pod-escapes=1.07=pl526_1
- perl-pod-usage=1.69=pl526_1
- perl-postscript=0.06=pl526_2
- perl-readonly=2.05=pl526_0
- perl-regexp-common=2017060201=pl526_0
- perl-role-tiny=2.000008=pl526_0
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- perl-set-intspan=1.19=pl526_1
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- perl-soap-lite=1.19=pl526_1
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- perl-spreadsheet-parseexcel=0.65=pl526_2
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- perl-svg=2.84=pl526_0
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- perl-test=1.26=pl526_1
- perl-test-deep=1.128=pl526_1
- perl-test-differences=0.67=pl526_0
- perl-test-exception=0.43=pl526_2
- perl-test-harness=3.42=pl526_0
- perl-test-leaktrace=0.16=pl526h14c3975_2
- perl-test-most=0.35=pl526_0
- perl-test-requiresinternet=0.05=pl526_0
- perl-test-warn=0.36=pl526_1
- perl-text-diff=1.45=pl526_0
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- perl-tie-ixhash=1.23=pl526_2
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- perl-xml-filter-buffertext=1.01=pl526_2
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- perl-xml-sax=1.02=pl526_0
- perl-xml-sax-base=1.09=pl526_0
- perl-xml-sax-expat=0.51=pl526_3
- perl-xml-sax-writer=0.57=pl526_0
- perl-xml-simple=2.25=pl526_1
- perl-xml-twig=3.52=pl526_2
- perl-xml-writer=0.625=pl526_2
- perl-xml-xpath=1.44=pl526_0
- perl-xml-xpathengine=0.14=pl526_2
- perl-xsloader=0.24=pl526_0
- perl-yaml=1.29=pl526_0
- picard=2.22.2=0
- pigz=2.3.4=hed695b0_1
- pilon=1.23=2
- pip=20.0.2=py_2
- pixman=0.38.0=h516909a_1003
- plasmidid=1.5.0=py36_0
- popt=1.16=h299ea2f_2002
- prodigal=2.6.3=h516909a_2
- prokka=1.14.6=pl526_0
- pthread-stubs=0.4=h14c3975_1001
- pycparser=2.20=py_0
- pygments=2.6.1=py_0
- pymdown-extensions=6.0=py_0
- pyopenssl=19.1.0=py_1
- pyparsing=2.4.6=py_0
- pyqt=5.12.3=py36hcca6a23_1
- pysocks=1.7.1=py36h9f0ad1d_1
- python=3.6.10=h9d8adfe_1009_cpython
- python-dateutil=2.8.1=py_0
- python_abi=3.6=1_cp36m
- pytz=2019.3=py_0
- pyyaml=5.3.1=py36h8c4c3a4_0
- qt=5.12.5=hd8c4c69_1
- quast=5.0.2=py36pl526ha92aebf_0
- r-base=3.6.2=h3a67422_0
- racon=1.4.13=he513fc3_0
- readline=8.0=hf8c457e_0
- requests=2.23.0=pyh8c360ce_2
- rsync=3.1.3=hed695b0_1002
- samtools=1.9=h10a08f8_12
- scikit-learn=0.22.2.post1=py36hcdab131_0
- scipy=1.4.1=py36h2d22cac_2
- sed=4.7=h1bed415_1000
- setuptools=46.1.3=py36h9f0ad1d_0
- simplejson=3.17.0=py36h516909a_0
- six=1.14.0=py_1
- snpeff=4.3.1t=3
- snpsift=4.3.1t=1
- spades=3.14.0=h2d02072_0
- spectra=0.0.11=py_1
- sqlite=3.30.1=hcee41ef_0
- t_coffee=11.0.8=py36hea885bf_8
- tar=1.32=hd4ba37b_0
- tbb=2020.1=hc9558a2_0
- tbl2asn-forever=25.7.1f=0
- tidyp=1.04=1
- tk=8.6.10=hed695b0_0
- tktable=2.10=h555a92e_3
- tornado=6.0.4=py36h8c4c3a4_1
- trimmomatic=0.39=1
- unicycler=0.4.7=py36hdbcaa40_0
- urllib3=1.25.7=py36h9f0ad1d_1
- varscan=2.4.4=0
- wget=1.20.1=h22169c7_0
- wheel=0.34.2=py_1
- wkhtmltopdf=0.12.4=1
- xorg-fixesproto=5.0=h14c3975_1002
- xorg-inputproto=2.3.2=h14c3975_1002
- xorg-kbproto=1.0.7=h14c3975_1002
- xorg-libice=1.0.10=h516909a_0
- xorg-libsm=1.2.3=h84519dc_1000
- xorg-libx11=1.6.9=h516909a_0
- xorg-libxau=1.0.9=h14c3975_0
- xorg-libxdmcp=1.1.3=h516909a_0
- xorg-libxext=1.3.4=h516909a_0
- xorg-libxfixes=5.0.3=h516909a_1004
- xorg-libxi=1.7.10=h516909a_0
- xorg-libxpm=3.5.13=h516909a_0
- xorg-libxrender=0.9.10=h516909a_1002
- xorg-libxt=1.1.5=h516909a_1003
- xorg-libxtst=1.2.3=h516909a_1002
- xorg-recordproto=1.14.2=h516909a_1002
- xorg-renderproto=0.11.1=h14c3975_1002
- xorg-xextproto=7.3.0=h14c3975_1002
- xorg-xproto=7.0.31=h14c3975_1007
- xz=5.2.4=h516909a_1002
- yaml=0.2.2=h516909a_1
- zlib=1.2.11=h516909a_1006
- zstd=1.4.4=h3b9ef0a_2
- pip:
- pyqt5-sip==4.19.18
- pyqtwebengine==5.12.1
prefix: /processing_Data/bioinformatics/pipelines/miniconda3/envs/nf-core-viralrecon-1.0dev