python - Conda Snakemake 安装问题：UnsatisfiableError

问题描述

我正在尝试snakemake在 linux 机器上安装。运行conda install -c bioconda snakemake时出现错误：

-bash-4.2$ conda install -c bioconda snakemake 解决环境：失败 UnsatisfiableError：发现以下规范存在冲突： - backports.functools_lru_cache -snakemake 使用“conda info”查看每个包的依赖关系。

Python 版本是3.4.5. 操作系统信息：

lsb_release -a
LSB Version:    :core-4.1-amd64:core-4.1-noarch:cxx-4.1-amd64:cxx-4.1- 
noarch:desktop-4.1-amd64:desktop-4.1-noarch:languages-4.1- 
amd64:languages-4.1-noarch:printing-4.1-amd64:printing-4.1-noarch
Distributor ID: CentOS
Description:    CentOS Linux release 7.3.1611 (Core) 
Release:    7.3.1611
Codename:   Core

任何建议将不胜感激

更新

我试过conda install -c conda-forge backports了，它安装成功，但没有帮助。

更新

我之前也尝试过使用 long 命令：conda install -c bioconda -c conda-forge snakemake但由于某些依赖项冲突而失败。现在我又试了一次，得到unexpected error了另一种：

-bash-4.2$ conda install -c bioconda -c conda-forge snakemake
Solving environment: failed

# >>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

Traceback (most recent call last):
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/exceptions.py", line 819, in __call__
    return func(*args, **kwargs)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/cli/main.py", line 78, in _main
    exit_code = do_call(args, p)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/cli/conda_argparse.py", line 77, in do_call
    exit_code = getattr(module, func_name)(args, parser)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/cli/main_install.py", line 11, in execute
    install(args, parser, 'install')
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/cli/install.py", line 235, in install
    force_reinstall=context.force,
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/solve.py", line 505, in solve_for_transaction
    force_remove, force_reinstall)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/solve.py", line 438, in solve_for_diff
    final_precs = self.solve_final_state(deps_modifier, prune, ignore_pinned, force_remove)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/solve.py", line 179, in solve_final_state
    index, r = self._prepare(prepared_specs)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/solve.py", line 560, in _prepare
    self.subdirs, prepared_specs)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/index.py", line 215, in get_reduced_index
    new_records = query_all(spec)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/index.py", line 184, in query_all
    return tuple(concat(future.result() for future in as_completed(futures)))
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/subdir_data.py", line 94, in query
    self.load()
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/subdir_data.py", line 148, in load
    _internal_state = self._load()
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/subdir_data.py", line 222, in _load
    mod_etag_headers.get('_mod'))
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/subdir_data.py", line 269, in _read_local_repdata
    _internal_state = self._process_raw_repodata_str(raw_repodata_str)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/site-packages/conda/core/subdir_data.py", line 306, in _process_raw_repodata_str
    json_obj = json.loads(raw_repodata_str or '{}')
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/json/__init__.py", line 339, in loads
    return _default_decoder.decode(s)
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/json/decoder.py", line 364, in decode
    obj, end = self.raw_decode(s, idx=_w(s, 0).end())
  File "/sfs/nfs/blue/nv4e/anaconda2/lib/python2.7/json/decoder.py", line 380, in raw_decode
    obj, end = self.scan_once(s, idx)
ValueError: Expecting : delimiter: line 1 column 8388609 (char 8388608)

`$ /sfs/nfs/blue/nv4e/anaconda2/bin/conda install -c bioconda -c conda-forge snakemake`

environment variables:
             CIO_TEST=<not set>
           CONDA_ROOT=/sfs/nfs/blue/nv4e/anaconda2

LD_INCLUDE_PATH=/opt/slurm/17.02.1b/include:/share/rci_apps/common/inc

LD_LIBRARY_PATH=/opt/slurm/17.02.1b/lib:/share/rci_apps/common/lib64
              MANPATH=/usr/share/lmod/lmod/share/man::

 MODULEPATH=/apps/modulefiles/standard/core:/apps/modulefiles/standard/
toolchains



PATH=/scratch/nv4e/cellranger:/scratch/nv4e/bcl2fastq/build/bin:
/scratch/nv
                      4e/spark/bin:/scratch/nv4e/scala/bin:/sfs/nfs/blue/nv4e/private/bin:/s
                      fs/nfs/blue/nv4e/anaconda2/bin:/sfs/nfs/blue/nv4e/.local/bin:/usr/lib6
                      4/qt-3.3/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/sl
                      urm/current/bin:/opt/slurm/current/sbin:/opt/singularity/current/bin:/
                      opt/rci/bin:/opt/rci/sbin:/opt/nhc/current/sbin:/share/rci_apps/common
                      /bin:/share/resources/HPCtools/
       QT_PLUGIN_PATH=/usr/lib64/kde4/plugins:/usr/lib/kde4/plugins
   REQUESTS_CA_BUNDLE=<not set>
        SSL_CERT_FILE=<not set>

 active environment : None
   user config file : /home/nv4e/.condarc
 populated config files : 
      conda version : 4.5.4
 conda-build version : 3.0.27
     python version : 2.7.14.final.0
   base environment : /sfs/nfs/blue/nv4e/anaconda2  (writable)
       channel URLs : https://conda.anaconda.org/bioconda/linux-64
                      https://conda.anaconda.org/bioconda/noarch
                      https://conda.anaconda.org/conda-forge/linux-64
                      https://conda.anaconda.org/conda-forge/noarch
                      https://repo.anaconda.com/pkgs/main/linux-64
                      https://repo.anaconda.com/pkgs/main/noarch
                      https://repo.anaconda.com/pkgs/free/linux-64
                      https://repo.anaconda.com/pkgs/free/noarch
                      https://repo.anaconda.com/pkgs/r/linux-64
                      https://repo.anaconda.com/pkgs/r/noarch
                      https://repo.anaconda.com/pkgs/pro/linux-64
                      https://repo.anaconda.com/pkgs/pro/noarch
      package cache : /sfs/nfs/blue/nv4e/anaconda2/pkgs
                      /home/nv4e/.conda/pkgs
   envs directories : /sfs/nfs/blue/nv4e/anaconda2/envs
                      /home/nv4e/.conda/envs
           platform : linux-64
         user-agent : conda/4.5.4 requests/2.18.4 CPython/2.7.14 Linux/3.10.0-514.21.2.el7.x86_64 centos/7 glibc/2.17
            UID:GID : 1096641:100
         netrc file : None
       offline mode : False


An unexpected error has occurred. Conda has prepared the above report.
If submitted, this report will be used by core maintainers to improve
future releases of conda.
Would you like conda to send this report to the core maintainers?
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标签： pythonsnakemake

python - Conda Snakemake 安装问题：UnsatisfiableError

问题描述

解决方案

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