• banded ridge
• used all nodes
• used one alpha (took longer for full range of alpha
• code

• PCA as Xiaochun
• banded ridge
• use only one node
• use all alpha
• code: discovery. ridge_loro_onenode
• BANDEDRIDGE01_SUBMIT_ONENODE.sh
• result dir:

import h5py.highlevel # >= 2.8.0, https://github.com/h5py/h5py/issues/1063 /dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/pydicom/init.py:55: DeprecationWarning: Python 2 will no longer be supported after the pydicom v1.4 release warnings.warn(msg, DeprecationWarning) /dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/mvpa2/testing/tools.py:81: DeprecationWarning: Importing from numpy.testing.decorators is deprecated since numpy 1.15.0, import from numpy.testing instead. from numpy.testing.decorators import skipif /dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/mvpa2/support/nibabel/afni_niml.py:182: DeprecationWarning: The binary mode of fromstring is deprecated, as it behaves surprisingly on unicode inputs. Use frombuffer instead data_1d = np.fromstring(s, dtype=tp) /dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/mvpa2/datasets/gifti.py:77: DeprecationWarning: giftiio.read function deprecated. Use nibabel.load() instead.

• deprecated from version: 2.1
• Will raise <class 'nibabel.deprecator.ExpiredDeprecationError'> as of version: 4.0 samples = giftiio.read(samples) Traceback (most recent call last): File "/dartfs/rc/lab/D/DBIC/DBIC/f0042x1/life-encoding/scripts/s03_banded_cara-alpha_loro/BANDEDRIDGE02_onenode.py", line 427, in test_p, fold_shifted, included, hemi) File "/dartfs/rc/lab/D/DBIC/DBIC/f0042x1/life-encoding/scripts/s03_banded_cara-alpha_loro/BANDEDRIDGE02_onenode.py", line 232, in get_aa_data mv.zscore(resp, chunks_attr=None) File "/dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/mvpa2/mappers/zscore.py", line 292, in zscore mapped = zm.forward(ds) File "/dartfs-hpc/rc/home/1/f0042x1/.conda/envs/haxby_mvpc/lib/python2.7/site-packages/mvpa2/mappers/base.py", line 219, in forward 'Mapper.forward() only support mapping of data with ' ValueError: Mapper.forward() only support mapping of data with at least two dimensions, where the first axis separates samples/observations. Consider using Mapper.forward1() instead.