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@edeno edeno released this 06 Aug 16:41
· 28 commits to master since this release
0.5.5
4a198e5
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Learn about vigilant mode.

What's Changed

New Contributors

Database Changes

To update your database to reflect these changes, we recommend running the following script. If you have any issues, please contact maintainers via our Discussions page.

# -- For TrackGraph --
from spyglass.linearization.v1.main import TrackGraph  # noqa

TrackGraph.alter()  # Add edge map parameter

# -- For dropping deprecated tables --
import datajoint as dj

dj.FreeTable(dj.conn(), "common_nwbfile.analysis_nwbfile_log").drop()
dj.FreeTable(dj.conn(), "common_session.session_group").drop()

# -- For v0 recompute --
from spyglass.spikesorting.v0.spikesorting_recording import (
    SpikeSortingRecording,
    SpikeSortingRecordingSelection,
    IntervalList,
)

SpikeSortingRecording().alter()
SpikeSortingRecording().update_ids()

# -- For v1 recompute --
from spyglass.spikesorting.v1.recording import (
    SpikeSortingRecording,
    SpikeSortingRecordingSelection,
    AnalysisNwbfile,
)

SpikeSortingRecording().alter()
SpikeSortingRecording().update_ids()

# -- For LFP pipeline --
from spyglass.lfp.lfp_imported import ImportedLFP
from spyglass.lfp.lfp_merge import LFPOutput

if len(ImportedLFP()) or len(LFPOutput.ImportedLFP()):
    raise ValueError(
        "Existing entries found and would be dropped in update. Please delete "
        + "entries or start a GitHub discussion for migration assistance."
        + f"\nImportedLFP: {len(ImportedLFP())}"
        + f"\nLFPOutput.ImportedLFP: {len(LFPOutput.ImportedLFP())}"
    )

table = LFPOutput().ImportedLFP()
table_name = table.full_table_name

if len(drop_list := table.connection.dependencies.descendants(table_name)) > 1:
    drop_list = [x for x in drop_list if x != table_name]
    raise ValueError(
        "Downstream tables exist and would be dropped in update."
        + "Please drop the following tables first: \n"
        + "\n ".join([str(t) for t in drop_list])
    )

LFPOutput().ImportedLFP().drop_quick()
ImportedLFP().drop()

Full Changelog: 0.5.4...0.5.5

Contributors

kabilar, edeno, and 6 other contributors
Assets 2
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