Conda: cannot install jaffa

[readmanchiu]

Hello,

I have a problem while installing jaffa:

Could you help?

Current conda install:

           platform : linux-64
      conda version : 4.3.11
   conda is private : False
  conda-env version : 4.3.11
conda-build version : 1.21.3
     python version : 2.7.12.final.0
   requests version : 2.12.4
   root environment : /home/rchiu/anaconda2  (writable)
default environment : /home/rchiu/anaconda2/envs/fusions
   envs directories : /home/rchiu/anaconda2/envs
                      /home/rchiu/.conda/envs
      package cache : /home/rchiu/anaconda2/pkgs
                      /home/rchiu/.conda/pkgs
       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://conda.anaconda.org/r/linux-64
                      https://conda.anaconda.org/r/noarch
                      https://conda.anaconda.org/dranew/linux-64
                      https://conda.anaconda.org/dranew/noarch
                      https://repo.continuum.io/pkgs/free/linux-64
                      https://repo.continuum.io/pkgs/free/noarch
                      https://repo.continuum.io/pkgs/r/linux-64
                      https://repo.continuum.io/pkgs/r/noarch
                      https://repo.continuum.io/pkgs/pro/linux-64
                      https://repo.continuum.io/pkgs/pro/noarch
        config file : /home/rchiu/.condarc
       offline mode : False
         user-agent : conda/4.3.11 requests/2.12.4 CPython/2.7.12 Linux/2.6.32-573.8.1.el6.x86_64 CentOS/6.7 glibc/2.12
            UID:GID : 528:577

$ /home/rchiu/anaconda2/envs/fusions/bin/conda install jaffa

Traceback (most recent call last):
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/exceptions.py", line 616, in conda_exception_handler
    return_value = func(*args, **kwargs)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/cli/main.py", line 137, in _main
    exit_code = args.func(args, p)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/cli/main_install.py", line 80, in execute
    install(args, parser, 'install')
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/cli/install.py", line 359, in install
    execute_actions(actions, index, verbose=not context.quiet)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/plan.py", line 825, in execute_actions
    execute_instructions(plan, index, verbose)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/instructions.py", line 258, in execute_instructions
    cmd(state, arg)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/instructions.py", line 118, in UNLINKLINKTRANSACTION_CMD
    txn = UnlinkLinkTransaction.create_from_dists(index, prefix, unlink_dists, link_dists)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/core/link.py", line 123, in create_from_dists
    for dist, pkg_dir in zip(link_dists, pkg_dirs_to_link))
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/core/link.py", line 123, in <genexpr>
    for dist, pkg_dir in zip(link_dists, pkg_dirs_to_link))
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/gateways/disk/read.py", line 88, in read_package_info
    paths_data = read_paths_json(extracted_package_directory)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/gateways/disk/read.py", line 150, in read_paths_json
    paths=(PathDataV1(**f) for f in data['paths']),
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 702, in __call__
    instance = super(EntityType, cls).__call__(*args, **kwargs)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 719, in __init__
    setattr(self, key, kwargs[key])
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 424, in __set__
    instance.__dict__[self.name] = self.validate(instance, self.box(instance, val))
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 581, in box
    return self._type(v if isinstance(v, et) else et(**v) for v in val)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 581, in <genexpr>
    return self._type(v if isinstance(v, et) else et(**v) for v in val)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/gateways/disk/read.py", line 150, in <genexpr>
    paths=(PathDataV1(**f) for f in data['paths']),
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 702, in __call__
    instance = super(EntityType, cls).__call__(*args, **kwargs)
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 719, in __init__
    setattr(self, key, kwargs[key])
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 424, in __set__
    instance.__dict__[self.name] = self.validate(instance, self.box(instance, val))
  File "/home/rchiu/anaconda2/lib/python2.7/site-packages/conda/_vendor/auxlib/entity.py", line 465, in validate
    raise ValidationError(getattr(self, 'name', 'undefined name'), val)
ValidationError: Value for sha256 cannot be None.

Could you help?

Thanks,
Readman

[kalefranz]

Looks like a bad package on the bioconda channel. Probably should report that up to them.

[mbargull]

Package looks fine, the error was just due to an outdated conda version. Issue should be fixed by https://github.com/conda/conda/pull/4759 in conda >=4.3.14.

[kalefranz]

I actually forgot that we had that problem and fixed it a while ago. Sorry for the noise. Bioconda is great! 😁