search

Genome-Bioinformatics-RadboudUMC / DeNovoCNN

A deep learning approach to de novo variant calling in next generation sequencing data
GNU General Public License v3.0
13 stars 3 forks source link

Issue with installing DeNovoCNN on Anaconda #5

Open kangbryan opened 1 year ago

kangbryan commented 1 year ago

Hello!

I am trying to install DeNovoCNN with Anaconda, but I am having trouble with creating the environment.

The error that comes out is as follows:

Package libvorbis conflicts for:
qt==5.12.9=hda022c4_4 -> gst-plugins-base[version='>=1.18.3,<1.19.0a0'] -> libvorbis[version='>=1.3.7,<1.4.0a0']
libvorbis==1.3.7=h9c3ff4c_0
gst-plugins-base==1.18.5=hf529b03_3 -> libvorbis[version='>=1.3.7,<1.4.0a0']The following specifications were found to be incompatible with your system:

  - feature:/linux-64::__glibc==2.17=0
  - feature:/linux-64::__unix==0=0
  - feature:|@/linux-64::__glibc==2.17=0
  - feature:|@/linux-64::__unix==0=0
  - aiohttp==3.8.1=py38h0a891b7_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - alsa-lib==1.2.3=h516909a_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - bcftools==1.15.1=h0ea216a_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - brotlipy==0.7.0=py38h0a891b7_1004 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - bzip2==1.0.8=h7f98852_4 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - c-ares==1.18.1=h7f98852_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - cairo==1.16.0=h6cf1ce9_1008 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - cffi==1.15.0=py38h3931269_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - cryptography==36.0.2=py38h2b5fc30_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - dbus==1.13.6=h5008d03_3 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - expat==2.4.8=h27087fc_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - ffmpeg==4.3.2=h37c90e5_3 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - fontconfig==2.14.0=h8e229c2_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - freetype==2.10.4=h0708190_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - frozenlist==1.3.0=py38h0a891b7_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - gettext==0.19.8.1=h73d1719_1008 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - gmp==6.2.1=h58526e2_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - gnutls==3.6.13=h85f3911_1 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - google-auth-oauthlib==0.4.6=pyhd8ed1ab_0 -> click[version='>=6.0.0'] -> __unix
  - google-auth-oauthlib==0.4.6=pyhd8ed1ab_0 -> click[version='>=6.0.0'] -> __win
  - graphite2==1.3.13=h58526e2_1001 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - grpcio==1.45.0=py38ha0cdfde_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - gsl==2.7=he838d99_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - gst-plugins-base==1.18.5=hf529b03_3 -> gstreamer[version='>=1.18.5,<2.0a0'] -> __glibc[version='>=2.17|>=2.17,<3.0.a0']
  - gstreamer==1.18.5=h9f60fe5_3 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - h5py==2.10.0=nompi_py38h9915d05_106 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - harfbuzz==2.9.1=h83ec7ef_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - hdf5==1.10.6=nompi_h6a2412b_1114 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - htslib==1.15.1=h9753748_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - icu==68.2=h9c3ff4c_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - jasper==1.900.1=h07fcdf6_1006 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - jbig==2.1=h7f98852_2003 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - jpeg==9e=h7f98852_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - keyutils==1.6.1=h166bdaf_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - krb5==1.19.3=h3790be6_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - lame==3.100=h7f98852_1001 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - lcms2==2.11=h396b838_0 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - lerc==3.0=h9c3ff4c_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libclang==11.1.0=default_ha53f305_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libcurl==7.82.0=h7bff187_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - libdeflate==1.10=h7f98852_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libedit==3.1.20191231=he28a2e2_2 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libev==4.33=h516909a_1 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libevent==2.1.10=h9b69904_4 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libffi==3.4.2=h7f98852_5 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libglib==2.70.2=h174f98d_4 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libiconv==1.16=h516909a_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libllvm11==11.1.0=hf817b99_3 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libnghttp2==1.47.0=h727a467_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - libnsl==2.0.0=h7f98852_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libogg==1.3.4=h7f98852_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libopenblas==0.3.20=pthreads_h78a6416_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - libopencv==4.5.1=py38h703c3c0_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libopus==1.3.1=h7f98852_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libpng==1.6.37=h21135ba_2 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libpq==13.5=hd57d9b9_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libprotobuf==3.20.0=h6239696_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - libssh2==1.10.0=ha56f1ee_2 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libtiff==4.3.0=h542a066_3 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libuuid==2.32.1=h7f98852_1000 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libvorbis==1.3.7=h9c3ff4c_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libwebp-base==1.2.2=h7f98852_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libxcb==1.13=h7f98852_1004 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - libxkbcommon==1.0.3=he3ba5ed_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libxml2==2.9.12=h72842e0_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - libzlib==1.2.11=h166bdaf_1014 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - lz4-c==1.9.3=h9c3ff4c_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - multidict==6.0.2=py38h0a891b7_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - mysql-common==8.0.28=haf5c9bc_3 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - mysql-libs==8.0.28=h28c427c_3 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - ncurses==6.3=h27087fc_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - nettle==3.6=he412f7d_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - nspr==4.32=h9c3ff4c_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - nss==3.77=h2350873_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - numpy-base==1.19.1=py38h75fe3a5_0 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - numpy==1.19.1=py38h30dfecb_0 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - openh264==2.1.1=h780b84a_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - openssl==1.1.1n=h166bdaf_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - pandas==1.1.3=py38he6710b0_0 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - pcre==8.45=h9c3ff4c_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - perl==5.32.1=2_h7f98852_perl5 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - pillow==8.0.0=py38h9a89aac_0 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - pixman==0.40.0=h36c2ea0_0 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - protobuf==3.20.0=py38hfa26641_3 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - pthread-stubs==0.4=h36c2ea0_1001 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pysam==0.19.0=py38h8bf8b8d_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - python==3.8.13=h582c2e5_0_cpython -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - qt==5.12.9=hda022c4_4 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17|>=2.17,<3.0.a0']
  - readline==8.1=h46c0cb4_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - scipy==1.8.0=py38h56a6a73_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - sqlite==3.37.1=h4ff8645_0 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - tensorboard-data-server==0.6.0=py38h3e25421_1 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - tensorflow-base==2.3.0=eigen_py38hb57a387_0 -> libgcc-ng[version='>=5.4.0'] -> __glibc[version='>=2.17']
  - tensorflow-estimator==2.6.0=py38h709712a_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - tensorflow==2.3.0=eigen_py38h71ff20e_0 -> tensorflow-estimator[version='>=2.3.0'] -> __glibc[version='>=2.17']
  - tk==8.6.12=h27826a3_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']
  - urllib3==1.26.9=pyhd8ed1ab_0 -> pysocks[version='>=1.5.6,<2.0,!=1.5.7'] -> __unix
  - urllib3==1.26.9=pyhd8ed1ab_0 -> pysocks[version='>=1.5.6,<2.0,!=1.5.7'] -> __win
  - wrapt==1.14.0=py38h0a891b7_1 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - x264==1!161.3030=h7f98852_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-kbproto==1.0.7=h7f98852_1002 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libice==1.0.10=h7f98852_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libsm==1.2.3=hd9c2040_1000 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libx11==1.7.2=h7f98852_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libxau==1.0.9=h7f98852_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libxdmcp==1.1.3=h7f98852_0 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libxext==1.3.4=h7f98852_1 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-libxrender==0.9.10=h7f98852_1003 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-renderproto==0.11.1=h7f98852_1002 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-xextproto==7.3.0=h7f98852_1002 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xorg-xproto==7.0.31=h7f98852_1007 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - xz==5.2.5=h516909a_1 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - yarl==1.7.2=py38h0a891b7_2 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - zlib==1.2.11=h166bdaf_1014 -> libgcc-ng[version='>=10.3.0'] -> __glibc[version='>=2.17']
  - zstd==1.5.2=ha95c52a_0 -> libgcc-ng[version='>=9.4.0'] -> __glibc[version='>=2.17']

Thank you,

Bryan.

gelana commented 1 year ago

Hi @kangbryan,

Could you please specify the commands, that lead to this error? Also, it may be easier to use docker container in order to avoid the environment installation conflicts.