Skip to content

Save _combined file as .nc4. #82

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

Merged
MBARIMike merged 1 commit into from
Dec 3, 2025
Merged

Save _combined file as .nc4. #82

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
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 .vscode/launch.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -358,11 +358,11 @@
// Plankitvore deployment for CeNCOOS Syncro - whole month of April 2025
//"args": ["-v", "1", "--auv_name", "ahi", "--start", "20250401T000000", "--end", "20250502T000000", "--noinput", "--num_cores", "1", "--no_cleanup"]
// Fails with ValueError: different number of dimensions on data and dims: 2 vs 1 for wetlabsubat_digitized_raw_ad_counts variable
//"args": ["-v", "1", "--log_file", "pontus/missionlogs/2025/20250604_20250616/20250608T020852/202506080209_202506081934.nc4", "--no_cleanup"]
"args": ["-v", "1", "--log_file", "pontus/missionlogs/2025/20250604_20250616/20250608T020852/202506080209_202506081934.nc4", "--no_cleanup"]
// Full month of June 2025 for Pontus with WetLabsUBAT Group data
//"args": ["-v", "1", "--auv_name", "pontus", "--start", "20250601T000000", "--end", "20250702T000000", "--noinput", "--num_cores", "1", "--no_cleanup"]
//"args": ["-v", "1", "--auv_name", "pontus", "--start", "20250601T000000", "--end", "20250702T000000", "--noinput", "--num_cores", "1", "--no_cleanup", "--clobber"]
"args": ["-v", "1", "--log_file", "pontus/missionlogs/2025/20250623_20250707/20250707T043011/slate.nc4", "--no_cleanup"]
//"args": ["-v", "1", "--log_file", "pontus/missionlogs/2025/20250623_20250707/20250707T043011/slate.nc4", "--no_cleanup"]
},

]
Expand Down
4 changes: 2 additions & 2 deletions src/data/align.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -428,9 +428,9 @@ def process_cal(self) -> Path: # noqa: C901, PLR0912, PLR0915
return netcdfs_dir

def process_combined(self) -> Path: # noqa: C901, PLR0912, PLR0915
"""Process combined LRAUV data from *_combined.nc files created by combine.py"""
"""Process combined LRAUV data from *_combined.nc4 files created by combine.py"""
netcdfs_dir = Path(BASE_LRAUV_PATH, f"{Path(self.log_file).parent}")
src_file = Path(netcdfs_dir, f"{Path(self.log_file).stem}_combined.nc")
src_file = Path(netcdfs_dir, f"{Path(self.log_file).stem}_combined.nc4")

self.combined_nc = xr.open_dataset(src_file)
self.logger.info("Processing %s", src_file)
Expand Down
2 changes: 1 addition & 1 deletion src/data/archive.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -108,7 +108,7 @@ def copy_to_AUVTCD(self, nc_file_base: Path, freq: str = FREQ) -> None: # noqa:
)
ftypes = (ft_ending,)
else:
ftypes = (f"{freq}.nc", "cal.nc", "align.nc")
ftypes = (f"{freq}.nc", "cal.nc4", "align.nc4")
for ftype in ftypes:
src_file = Path(f"{nc_file_base}_{ftype}")
dst_file = Path(surveynetcdfs_dir, src_file.name)
Expand Down
4 changes: 2 additions & 2 deletions src/data/combine.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -934,7 +934,7 @@ def _intermediate_write_netcdf(self) -> None:
def write_netcdf(self) -> None:
"""Write combined netCDF file using instance attributes."""
netcdfs_dir = Path(BASE_LRAUV_PATH, Path(self.log_file).parent)
out_fn = Path(netcdfs_dir, f"{Path(self.log_file).stem}_combined.nc")
out_fn = Path(netcdfs_dir, f"{Path(self.log_file).stem}_combined.nc4")

self.combined_nc.attrs = self.global_metadata()
self.logger.info("Writing combined group data to %s", out_fn)
Expand All @@ -945,7 +945,7 @@ def write_netcdf(self) -> None:
"Data variables written: %s",
", ".join(sorted(self.combined_nc.variables)),
)
self.logger.info("Wrote combined (_combined.nc) netCDF file: %s", out_fn)
self.logger.info("Wrote combined (_combined.nc4) netCDF file: %s", out_fn)

return netcdfs_dir

Expand Down