diff --git a/legacy/environment.yaml b/legacy/environment.yaml deleted file mode 100644 index f36bab9..0000000 --- a/legacy/environment.yaml +++ /dev/null @@ -1,215 +0,0 @@ -name: scansnv -channels: - - jluquette - - anaconda - - bioconda - - conda-forge - - defaults -dependencies: - - blas=1.0=mkl - - bwidget=1.9.11=1 - - conda-env=2.6.0=1 - - datrie=0.7.1=py36h7b6447c_1 - - gsl=2.2.1=h0c605f7_3 - - intel-openmp=2019.1=144 - - libedit=3.1.20170329=h6b74fdf_2 - - libffi=3.2.1=hd88cf55_4 - - libgcc-ng=8.2.0=hdf63c60_1 - - libgfortran=3.0.0=1 - - libgfortran-ng=7.2.0=hdf63c60_3 - - liblief=0.9.0=h7725739_1 - - libstdcxx-ng=8.2.0=hdf63c60_1 - - mkl=2019.1=144 - - ncurses=6.1=hf484d3e_0 - - py-lief=0.9.0=py36h7725739_1 - - readline=7.0=h7b6447c_5 - - requests=2.13.0=py36_0 - - sqlite=3.25.3=h7b6447c_0 - - tk=8.6.8=hbc83047_0 - - tktable=2.10=h14c3975_0 - - wheel=0.32.3=py36_0 - - xz=5.2.4=h14c3975_4 - - yaml=0.1.7=had09818_2 - - zlib=1.2.11=ha838bed_2 - - bedtools=2.27.1=he941832_2 - - filechunkio=1.6=py36_0 - - ftputil=3.2=py36_0 - - gatk=3.8=py36_0 - - libdeflate=1.0=h470a237_0 - - pyasn1-modules=0.0.5=py36_0 - - pygraphviz=1.3.1=py36_0 - - rsa=3.1.4=py36_0 - - samtools=1.9=h8ee4bcc_1 - - shapeit=2.r837=h09b0a5c_1 - - snakemake=5.3.1=0 - - snakemake-minimal=5.3.1=py_0 - - urllib3=1.12=py36_0 - - aioeasywebdav=2.2.0=py36_0 - - aiohttp=3.4.4=py36h470a237_0 - - anaconda-client=1.7.1=py_0 - - appdirs=1.4.3=py_1 - - asn1crypto=0.24.0=py36_1003 - - async-timeout=3.0.1=py_1000 - - attrs=18.2.0=py_0 - - bcrypt=3.1.4=py36h470a237_0 - - beautifulsoup4=4.6.3=py36_1000 - - boost=1.66.0=py36_1 - - boost-cpp=1.66.0=1 - - boto3=1.7.84=py_0 - - botocore=1.10.84=py_0 - - bzip2=1.0.6=h470a237_2 - - ca-certificates=2018.11.29=ha4d7672_0 - - cachetools=2.1.0=py_0 - - cairo=1.14.12=h276e583_5 - - certifi=2018.11.29=py36_1000 - - cffi=1.11.5=py36h5e8e0c9_1 - - chardet=3.0.4=py36_1003 - - clyent=1.2.2=py_1 - - conda=4.5.12=py36_1000 - - conda-build=3.17.5=py36_0 - - configargparse=0.13.0=py_1 - - cryptography=2.3.1=py36hdffb7b8_0 - - cryptography-vectors=2.3.1=py36_1000 - - curl=7.63.0=h74213dd_0 - - decorator=4.3.0=py_0 - - docutils=0.14=py36_1001 - - dropbox=7.3.1=py36_0 - - expat=2.2.5=hfc679d8_2 - - filelock=3.0.10=py_0 - - fontconfig=2.13.1=h65d0f4c_0 - - freetype=2.9.1=h6debe1e_4 - - gettext=0.19.8.1=h5e8e0c9_1 - - gitdb2=2.0.5=py_0 - - gitpython=2.1.11=py_0 - - glib=2.56.2=h464dc38_1 - - glob2=0.6=py_0 - - google-auth=1.2.1=py_0 - - google-auth-httplib2=0.0.3=py_2 - - google-cloud-core=0.24.1=py36_0 - - google-cloud-storage=1.1.1=py36_0 - - google-resumable-media=0.0.2=py36_0 - - googleapis-common-protos=1.5.5=py_0 - - graphite2=1.3.12=hfc679d8_1 - - graphviz=2.38.0=h08bfae6_9 - - harfbuzz=1.9.0=h04dbb29_1 - - httplib2=0.12.0=py36_1000 - - icu=58.2=hfc679d8_0 - - idna=2.8=py36_1000 - - idna_ssl=1.0.0=0 - - ipython_genutils=0.2.0=py_1 - - jinja2=2.10=py_1 - - jmespath=0.9.3=py_1 - - jpeg=9c=h470a237_1 - - jsonschema=3.0.0a3=py36_1000 - - jupyter_core=4.4.0=py_0 - - krb5=1.16.2=hbb41f41_0 - - libarchive=3.3.3=h823be47_0 - - libcurl=7.63.0=hbdb9355_0 - - libiconv=1.15=h470a237_3 - - libpng=1.6.36=ha92aebf_0 - - libprotobuf=3.6.1=hd28b015_0 - - libssh2=1.8.0=h5b517e9_3 - - libtiff=4.0.10=he6b73bb_1 - - libtool=2.4.6=h470a237_2 - - libuuid=2.32.1=h470a237_2 - - libxcb=1.13=h470a237_2 - - libxml2=2.9.8=h422b904_5 - - make=4.2.1=h470a237_1002 - - markupsafe=1.1.0=py36h470a237_0 - - mkl_fft=1.0.10=py36_0 - - mkl_random=1.0.2=py36_0 - - multidict=4.5.1=py36h470a237_0 - - nbformat=4.4.0=py_1 - - networkx=2.2=py_1 - - openblas=0.3.4=ha44fe06_0 - - openjdk=8.0.192=h470a237_2 - - openssl=1.0.2p=h470a237_1 - - pandas=0.23.4=py36hf8a1672_0 - - pango=1.40.14=he752989_2 - - paramiko=2.4.2=py36_1000 - - patchelf=0.9=hfc679d8_2 - - pcre=8.41=hfc679d8_3 - - pip=18.1=py36_1000 - - pixman=0.34.0=h470a237_3 - - pkginfo=1.4.2=py_1 - - prettytable=0.7.2=py_2 - - protobuf=3.6.1=py36hfc679d8_1 - - psutil=5.4.8=py36h470a237_0 - - pthread-stubs=0.4=h470a237_1 - - pyasn1=0.4.4=py_1 - - pycosat=0.6.3=py36h470a237_1 - - pycparser=2.19=py_0 - - pynacl=1.3.0=py36h470a237_0 - - pyopenssl=18.0.0=py36_1000 - - pyrsistent=0.14.7=py36h470a237_0 - - pysftp=0.2.9=py36_0 - - pysocks=1.6.8=py36_1002 - - python=3.6.6=h5001a0f_3 - - python-dateutil=2.7.5=py_0 - - python-irodsclient=0.7.0=py_0 - - python-libarchive-c=2.8=py36_1004 - - pytz=2018.7=py_0 - - pyyaml=3.13=py36h470a237_1 - - r-assertthat=0.2.0=r351h6115d3f_1001 - - r-base=3.5.1=h391c2eb_4 - - r-bh=1.66.0_1=r351_2001 - - r-bindr=0.1.1=r351h6115d3f_1001 - - r-bindrcpp=0.2.2=r351h9d2a408_1 - - r-bit=1.1_12=r351h470a237_2 - - r-bit64=0.9_7=r351hc070d10_0 - - r-blob=1.1.1=r351_1001 - - r-cli=1.0.1=r351h6115d3f_1000 - - r-crayon=1.3.4=r351h6115d3f_1001 - - r-dbi=1.0.0=r351h6115d3f_1001 - - r-dbplyr=1.2.2=r351h6115d3f_1001 - - r-digest=0.6.18=r351hc070d10_0 - - r-dplyr=0.7.8=r351h9d2a408_0 - - r-fansi=0.3.0=r351hc070d10_0 - - r-glue=1.3.0=r351h470a237_2 - - r-magrittr=1.5=r351h6115d3f_1001 - - r-memoise=1.1.0=r351h6115d3f_1001 - - r-pillar=1.3.0=r351h6115d3f_1000 - - r-pkgconfig=2.0.2=r351h6115d3f_1001 - - r-plogr=0.2.0=r351h6115d3f_1001 - - r-prettyunits=1.0.2=r351h6115d3f_1001 - - r-purrr=0.2.5=r351hc070d10_2 - - r-r6=2.2.2=r351h6115d3f_1001 - - r-rcpp=1.0.0=r351h9d2a408_0 - - r-rlang=0.3.0.1=r351h470a237_0 - - r-rsqlite=2.1.1=r351h9d2a408_0 - - r-tibble=1.4.2=r351hc070d10_2 - - r-tidyselect=0.2.5=r351h9d2a408_0 - - r-utf8=1.1.4=r351hc070d10_0 - - ratelimiter=1.2.0=py36_1000 - - rpy2=2.9.4=py36r351h941a26a_1 - - ruamel_yaml=0.15.71=py36h470a237_0 - - s3transfer=0.1.13=py36_1001 - - setuptools=40.6.3=py36_0 - - six=1.12.0=py36_1000 - - smmap2=2.0.5=py_0 - - tqdm=4.28.1=py_0 - - traitlets=4.3.2=py36_1000 - - tzlocal=1.5.1=py_0 - - wrapt=1.10.11=py36h470a237_1 - - xmlrunner=1.7.7=py_0 - - xorg-kbproto=1.0.7=h470a237_2 - - xorg-libice=1.0.9=h470a237_4 - - xorg-libsm=1.2.3=h8c8a85c_0 - - xorg-libx11=1.6.6=h470a237_0 - - xorg-libxau=1.0.8=h470a237_6 - - xorg-libxdmcp=1.1.2=h470a237_7 - - xorg-libxext=1.3.3=h470a237_4 - - xorg-libxpm=3.5.12=h470a237_2 - - xorg-libxrender=0.9.10=h470a237_2 - - xorg-libxt=1.1.5=h470a237_2 - - xorg-renderproto=0.11.1=h470a237_2 - - xorg-xextproto=7.3.0=h470a237_2 - - xorg-xproto=7.0.31=h470a237_7 - - yarl=1.3.0=py36h470a237_0 - - _r-mutex=1.0.0=anacondar_1 - - numpy=1.15.4=py36h7e9f1db_0 - - numpy-base=1.15.4=py36hde5b4d6_0 - - r-fastghquad=1.0=r351h29659fb_0 - - pip: - - libarchive-c==2.8 - - lief==0.9.0 diff --git a/recipes/scansnv/meta.yaml b/recipes/scansnv/meta.yaml index 2924c7f..d9cbfc3 100644 --- a/recipes/scansnv/meta.yaml +++ b/recipes/scansnv/meta.yaml @@ -209,7 +209,8 @@ requirements: - numpy-base 1.15.4 py36hde5b4d6_0 - r-fastghquad 1.0 r351h29659fb_0 - r-scansnv - - pip + - natefoo-slurm-drmaa + - python-drmaa source: git_url: https://github.com/parklab/scan-snv.git