Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

tools/nwb-read-tests: Update pynwb and dandi-cli #2359

Merged
merged 2 commits into from
Mar 4, 2025
Merged

tools/nwb-read-tests: Update pynwb and dandi-cli #2359

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
0bdb7ee
tools/nwb-read-tests: Update pynwb and dandi-cli
t-b Feb 27, 2025
28abc1a
nwb-read-tests/nwbv2-read-test.py: Update for API breakages
t-b Feb 28, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 2 additions & 2 deletions tools/nwb-read-tests/nwbv2-read-test.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -25,7 +25,7 @@ def checkFile(path):
return 1

# 1.) pynwb Validation
comp = run(["python", "-m", "pynwb.validate", path],
comp = run(["pynwb-validate", path],
stdout=PIPE, stderr=STDOUT, universal_newlines=True, timeout=120)

if comp.returncode != 0:
Expand All @@ -49,7 +49,7 @@ def checkFile(path):
nwbfile = io.read()

print(f"nwbfile: {nwbfile}")
print(f"ic_electrodes: {nwbfile.ic_electrodes}")
print(f"icephys_electrodes: {nwbfile.icephys_electrodes}")
print(f"sweep_table: {nwbfile.sweep_table}")
print(f"lab_meta_data: {nwbfile.lab_meta_data}")
print(f"acquisition: {nwbfile.acquisition}")
Expand Down
4 changes: 2 additions & 2 deletions tools/nwb-read-tests/requirements.in
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,3 +1,3 @@
# needs to be pip-compile'd on debian bookworm
pynwb==2.8.3
dandi==0.65.0
pynwb==3.0.0
dandi==0.67.0
24 changes: 12 additions & 12 deletions tools/nwb-read-tests/requirements.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -363,13 +363,13 @@ cryptography==44.0.0 \
--hash=sha256:f5e7cb1e5e56ca0933b4873c0220a78b773b24d40d186b6738080b73d3d0a756 \
--hash=sha256:f677e1268c4e23420c3acade68fac427fffcb8d19d7df95ed7ad17cdef8404f4
# via secretstorage
dandi==0.65.0 \
--hash=sha256:20aaef9e0753a795d870a6721c9e154375a93c36c0fe2be6dfbae943ad1318dd \
--hash=sha256:dfe1a23e24a864de4f2880c6c12eb4611fabdfd953c9f78c095c83e6dad4197f
dandi==0.67.0 \
--hash=sha256:43158310123f8ff2ec304d9327bc65e8a6e801cf9ed3c8ea7e7c79dc341330f1 \
--hash=sha256:8c45bc071718a68016baba2865a6a267df8c65e962bf3d2f63c8cb576400f3a3
# via -r requirements.in
dandischema==0.10.4 \
--hash=sha256:34c24c1c85146ac62dd0a4858b112ea147948d90fea19b74a8725870561bc459 \
--hash=sha256:bef83ee03b9ee4c406a667771ca129541f1a27e9e1f0bed581eb1104ebc326aa
dandischema==0.11.0 \
--hash=sha256:ad8d6f358b3512e789afc9c528a3b9cc9c83de298c3552b03c5e681cb416e865 \
--hash=sha256:f9784f1e83037be94bbd0104ef75ee4aefa39a46402e7f30ec0ddf9009777b3b
# via dandi
dnspython==2.7.0 \
--hash=sha256:b4c34b7d10b51bcc3a5071e7b8dee77939f1e878477eeecc965e9835f63c6c86 \
Expand Down Expand Up @@ -551,9 +551,9 @@ importlib-metadata==8.5.0 \
--hash=sha256:45e54197d28b7a7f1559e60b95e7c567032b602131fbd588f1497f47880aa68b \
--hash=sha256:71522656f0abace1d072b9e5481a48f07c138e00f079c38c8f883823f9c26bd7
# via keyring
interleave==0.2.2 \
--hash=sha256:0cdc1462acad1f5d5643aa4e9c5fffa7ea874c0777f40c95cfc2a750a5065ad2 \
--hash=sha256:371e94071e5a7b1f62764f8a72925e2b3fe7c7c3a854cc917c42b65dfef0f737
interleave==0.3.0 \
--hash=sha256:09d772693b958c0cbb11e3cd8a6b726c6995c7e12b0530a10ae31a943b458c39 \
--hash=sha256:4c4595e05c5c3286d306db7459972bada9a38088fb8649c1199782c8e4a60a32
# via dandi
isodate==0.7.2 \
--hash=sha256:28009937d8031054830160fce6d409ed342816b543597cece116d966c6d99e15 \
Expand Down Expand Up @@ -1084,9 +1084,9 @@ pydantic-core==2.27.1 \
--hash=sha256:f69ed81ab24d5a3bd93861c8c4436f54afdf8e8cc421562b0c7504cf3be58206 \
--hash=sha256:f82d068a2d6ecfc6e054726080af69a6764a10015467d7d7b9f66d6ed5afa23b
# via pydantic
pynwb==2.8.3 \
--hash=sha256:3ed35db747caa2b511edd8b243f6112034e5dd056f965b9f89a9c5dd1756dda0 \
--hash=sha256:e0683a9525ae389e87341eed9bd7908d4d0a7c35def74ce5822a707cca230959
pynwb==3.0.0 \
--hash=sha256:5a4c442a5c6c0a159ac92ea3364c4df3669a6cd5f06b803143bf9ecb8769d7e4 \
--hash=sha256:9eb88e11ab185f1769e2f1165ac5049c93a280bd705c03d1d472b873534f2887
# via
# -r requirements.in
# dandi
Expand Down