Error when reading multiple files of ROMS_native

[MarianoTonini]

Hello everyone,
when I try to read several files with the ROMS_native.py reader from the same simulation (example: croco_avg_00*.nc), it fails to concatenate them. Apparently it does not find the correctly time dimension.
The files already have several records each, they are not single-record files.
I would appreciatte any help on this matter.

The output error is as follows:

Traceback (most recent call last):
File "/home/ubuntu/opendrift/opendrift/readers/reader_ROMS_native.py", line 160, in init
self.Dataset = xr.open_mfdataset(filename,
^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/backends/api.py", line 1607, in open_mfdataset
combined = combine_by_coords(
^^^^^^^^^^^^^^^^^^
File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 973, in combine_by_coords
concatenated_grouped_by_data_vars = tuple(
^^^^^^
File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 974, in
_combine_single_variable_hypercube(
File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 634, in _combine_single_variable_hypercube
combined_ids, concat_dims = _infer_concat_order_from_coords(list(datasets))
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 159, in _infer_concat_order_from_coords
raise ValueError(
ValueError: Could not find any dimension coordinates to use to order the datasets for concatenation

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/home/ubuntu/opendrift/examples/./CROCO_romsnative_drift03_hourly.py", line 27, in
croco_native = reader_ROMS_native.Reader('/media/ubuntu/SATA3/CROCO/croco_v121/GN_GSJOS_22/nest_avg_drift03hourly_opendrift*.nc');
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/home/ubuntu/opendrift/opendrift/readers/reader_ROMS_native.py", line 168, in init
raise ValueError(e)
ValueError: Could not find any dimension coordinates to use to order the datasets for concatenation

[knutfrode]

You can also merge the files manually with xarray.open_mfdataset, and then create a reader from this dataset: ds = xr.open_mfdataset(.....) r = Reader(ds)

…

On Fri, Dec 27, 2024, 17:04 MarianoTonini ***@***.***> wrote: Hello everyone, when I try to read several files with the ROMS_native.py reader from the same simulation (example: croco_avg_00*.nc), it fails to concatenate them. Apparently it does not find the correctly time dimension. The files already have several records each, they are not single-record files. I would appreciatte any help on this matter. The output error is as follows: Traceback (most recent call last): File "/home/ubuntu/opendrift/opendrift/readers/reader_ROMS_native.py", line 160, in *init* self.Dataset = xr.open_mfdataset(filename, ^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/backends/api.py", line 1607, in open_mfdataset combined = combine_by_coords( ^^^^^^^^^^^^^^^^^^ File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 973, in combine_by_coords concatenated_grouped_by_data_vars = tuple( ^^^^^^ File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 974, in _combine_single_variable_hypercube( File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 634, in _combine_single_variable_hypercube combined_ids, concat_dims = _infer_concat_order_from_coords(list(datasets)) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/ubuntu/miniconda3/envs/opendrift/lib/python3.11/site-packages/xarray/core/combine.py", line 159, in _infer_concat_order_from_coords raise ValueError( ValueError: Could not find any dimension coordinates to use to order the datasets for concatenation During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/home/ubuntu/opendrift/examples/./CROCO_romsnative_drift03_hourly.py", line 27, in croco_native = reader_ROMS_native.Reader('/media/ubuntu/SATA3/CROCO/croco_v121/GN_GSJOS_22/nest_avg_drift03hourly_opendrift*.nc'); ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/home/ubuntu/opendrift/opendrift/readers/reader_ROMS_native.py", line 168, in *init* raise ValueError(e) ValueError: Could not find any dimension coordinates to use to order the datasets for concatenation — Reply to this email directly, view it on GitHub <#1467>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABH25IZXSCIEE7EL7SN33XT2HV3ANAVCNFSM6AAAAABUIZVZ6SVHI2DSMVQWIX3LMV43ASLTON2WKOZSG43DCMBUGU3DIMY> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>