{"action":"closed","issue":{"url":"https://api.github.com/repos/edickie/ciftify/issues/93","repository_url":"https://api.github.com/repos/edickie/ciftify","labels_url":"https://api.github.com/repos/edickie/ciftify/issues/93/labels{/name}","comments_url":"https://api.github.com/repos/edickie/ciftify/issues/93/comments","events_url":"https://api.github.com/repos/edickie/ciftify/issues/93/events","html_url":"https://github.com/edickie/ciftify/issues/93","id":372670387,"node_id":"MDU6SXNzdWUzNzI2NzAzODc=","number":93,"title":"Image generated by docker/singularity has issue importing python module","user":{"login":"ljhearne","id":22673244,"node_id":"MDQ6VXNlcjIyNjczMjQ0","avatar_url":"https://avatars0.githubusercontent.com/u/22673244?v=4","gravatar_id":"","url":"https://api.github.com/users/ljhearne","html_url":"https://github.com/ljhearne","followers_url":"https://api.github.com/users/ljhearne/followers","following_url":"https://api.github.com/users/ljhearne/following{/other_user}","gists_url":"https://api.github.com/users/ljhearne/gists{/gist_id}","starred_url":"https://api.github.com/users/ljhearne/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ljhearne/subscriptions","organizations_url":"https://api.github.com/users/ljhearne/orgs","repos_url":"https://api.github.com/users/ljhearne/repos","events_url":"https://api.github.com/users/ljhearne/events{/privacy}","received_events_url":"https://api.github.com/users/ljhearne/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2018-10-22T19:47:16Z","updated_at":"2018-11-01T14:41:04Z","closed_at":"2018-11-01T14:41:04Z","author_association":"NONE","body":"Hi Erin,\r\n\r\nThanks for the fantastic tool / all the work you have put in.\r\n\r\nI'm trying to get ciftify up and running on the local HPC. To do so I created a singularity container using:\r\n`singularity pull docker://tigrlab/fmriprep_ciftify:latest`\r\n\r\nThen to check it was working I open a shell in the container and ask for help on a ciftify function:\r\n`Singularity shell --cleanenv <path-to-img>`\r\n`(within the container):~> ciftify_recon_all --help`\r\n\r\nHowever, I get an error when trying to import some pandas modules (below). I have been following the scripts on [https://github.com/edickie/bids-on-scinet/blob/master/examples/sbatch_fmriprep_ciftify_p08.sh](https://github.com/edickie/bids-on-scinet/blob/master/examples/sbatch_fmriprep_ciftify_p08.sh) so it doesn't seem like I need to import anything else other than the container... Let me know if you have any thoughts!\r\n\r\n```\r\n> Traceback (most recent call last):\r\n>   File \"/home/code/ciftify/ciftify/bin/ciftify_recon_all\", line 76, in <module>\r\n>     import ciftify\r\n>   File \"/home/code/ciftify/ciftify/__init__.py\", line 11, in <module>\r\n>     from . import niio\r\n>   File \"/home/code/ciftify/ciftify/niio.py\", line 11, in <module>\r\n>     import pandas as pd\r\n>   File \"/usr/local/miniconda/lib/python3.6/site-packages/pandas/__init__.py\", line 42, in <module>\r\n>     from pandas.core.api import *\r\n>   File \"/usr/local/miniconda/lib/python3.6/site-packages/pandas/core/api.py\", line 10, in <module>\r\n>     from pandas.core.groupby import Grouper\r\n>   File \"/usr/local/miniconda/lib/python3.6/site-packages/pandas/core/groupby/__init__.py\", line 2, in <module>\r\n>     from pandas.core.groupby.groupby import (\r\n>   File \"/usr/local/miniconda/lib/python3.6/site-packages/pandas/core/groupby/groupby.py\", line 42, in <module>\r\n>     from pandas.core.dtypes.missing import isna, isnull, notna, _maybe_fill\r\n> ImportError: cannot import name 'isna'\r\n\r\n```"}}
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