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AttributeError: 'NoneType' object has no attribute 'path'

See original GitHub issue

I might be invoking incorrectly etc, but at least it must crash more informatively

(git-annex)hopa:~/.tmp/datalad_temp_tree_test_within_ds_file_searchn0QiIy[master]git
$> python -c 'import  bids as b; print(b.__version__); print(b.BIDSLayout(".").get_metadata("./participants.tsv"));'           
0.7.1+1.g13c857f
Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/home/yoh/proj/bids/pybids/bids/layout/layout.py", line 482, in get_metadata
    self.metadata_index.index_file(path)
  File "/home/yoh/proj/bids/pybids/bids/layout/layout.py", line 677, in index_file
    if f.path in self.file_index and not overwrite:
AttributeError: 'NoneType' object has no attribute 'path'


$> tree
.
├── dataset_description.json -> .git/annex/objects/7W/Jm/MD5E-s328--28119d1fde6310f8119eda16bb00aead.json/MD5E-s328--28119d1fde6310f8119eda16bb00aead.json
├── derivatives
│   └── empty
├── participants.tsv -> .git/annex/objects/k4/gM/MD5E-s134--7f970918cea1615f0f3c9500907935a8.tsv/MD5E-s134--7f970918cea1615f0f3c9500907935a8.tsv
├── stim
├── sub-01
│   └── func
│       └── sub-01_task-some_bold.nii.gz -> ../../.git/annex/objects/W4/ZZ/MD5E-s15920--acfb708aa74951cfff1a9d466f6d77be.nii.gz/MD5E-s15920--acfb708aa74951cfff1a9d466f6d77be.nii.gz
└── sub-03
    └── func
        └── sub-03_task-other_bold.nii.gz -> ../../.git/annex/objects/W4/ZZ/MD5E-s15920--acfb708aa74951cfff1a9d466f6d77be.nii.gz/MD5E-s15920--acfb708aa74951cfff1a9d466f6d77be.nii.gz

7 directories, 4 files

Issue Analytics

State:
Created 5 years ago
Comments:10

Top GitHub Comments

1reaction

yarikopticcommented, Feb 10, 2019

… then we have to systematically check each available layout (starting with the parent)

why? just expand them right away using the parent’s path. So for derivatives it would be derivatives/<name> . if derivative is not under derivatives/ then I guess full path would be needed. This way at least it shouldn’t be worse than current situation.

0reactions

tyarkonicommented, Feb 12, 2019

Actually, hold that thought. There’s still a problem when initializing a layout with path='.'; will push a fix shortly.

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