Closed mih closed 2 years ago
It seems this now makes things work with NITRC IR:
% dl xnat-init --credential anonymous https://www.nitrc.org/ir -p fcon_1000
[INFO ] XNAT reports 1288 subjects currently on-record for project fcon_1000
xnat_init(ok): . (dataset)
% dl xnat-update --credential anonymous -s xnat_S01288 -f
[INFO ] Querying info for subject xnat_S01288
xnat_parse(ok): (file)
[INFO ] Downloading files for subject xnat_S01288
addurl(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/anat_mprage_anonymized/scan_mprage_anonymized.nii.gz (file) [to xnat_S01288/xnat_E01288/anat_mprage_anonymized/scan_mprage_anonymized.nii.gz]
addurl(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/anat_mprage_skullstripped/scan_mprage_skullstripped.nii.gz (file) [to xnat_S01288/xnat_E01288/anat_mprage_skullstripped/scan_mprage_skullstripped.nii.gz]
addurl(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/func_rest/scan_rest.nii.gz (file) [to xnat_S01288/xnat_E01288/func_rest/scan_rest.nii.gz]
metadata(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/anat_mprage_anonymized/scan_mprage_anonymized.nii.gz (file)
metadata(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/anat_mprage_skullstripped/scan_mprage_skullstripped.nii.gz (file)
metadata(ok): /tmp/nitrc/xnat_S01288/xnat_E01288/func_rest/scan_rest.nii.gz (file)
action summary:
addurl (ok: 3)
metadata (ok: 3)
[INFO ] Files were updated for the following subjects in XNAT project fcon_1000:
[INFO ] xnat_S01288
xnat_update(ok): . (dataset)
action summary:
xnat_parse (ok: 1)
xnat_update (ok: 1)
datalad xnat-update --credential anonymous -s xnat_S01288 -f 8.69s user 1.46s system 46% cpu 21.873 total
Merging #48 (2476555) into master (7aafe53) will decrease coverage by
0.08%
. The diff coverage is100.00%
.:exclamation: Current head 2476555 differs from pull request most recent head 9e3cd3d. Consider uploading reports for the commit 9e3cd3d to get more accurate results
@@ Coverage Diff @@
## master #48 +/- ##
==========================================
- Coverage 81.22% 81.14% -0.09%
==========================================
Files 8 8
Lines 229 228 -1
==========================================
- Hits 186 185 -1
Misses 43 43
Impacted Files | Coverage Δ | |
---|---|---|
datalad_xnat/parser.py | 88.46% <100.00%> (-0.43%) |
:arrow_down: |
datalad_xnat/platform.py | 80.00% <100.00%> (ø) |
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It requires a base url with a trailing slash to do the right thing. Given all URL suffixes are hand-crafted, we can simply not use it.
Fixes datalad/datalad-xnat#47