# TileDBError: \[TileDB::S3\] error storing h5ad with SOMA format

**URL:** <https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602>\
**Category:** Uncategorized\
**Created:** [July 24, 2023, 11:18am UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602 "2023-07-24T11:18:44Z")\
**Posts on this page:** 17\
**Page:** 1

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 11:18am UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/1 "2023-07-24T11:18:44Z")

</div>

Hello,  
I am trying to create a SOMA file from h5ad.  
I was able to generate the SOMA file using the local hard disk but when I try to generate the file on S3 I get the following error:

START Experiment.from\_h5ad input/pbmc3k.h5ad  
START READING input/pbmc3k.h5ad  
/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/ **init**.py:229: FutureWarning: Moving element from .uns[‘neighbors’][‘distances’] to .obsp[‘distances’].  
…

File “tiledb/libtiledb.pyx”, line 353, in tiledb.libtiledb.\_raise\_tiledb\_error  
tiledb.cc.TileDBError: [TileDB::S3] Error: Error while listing with prefix ‘s3://…/pbmc3k/ms/RNA/uns/draw\_graph/params/random\_state/\_\_schema/’ and delimiter ‘/’  
Exception: PermanentRedirect  
Error message: Unable to parse ExceptionName: PermanentRedirect Message: The bucket you are attempting to access must be addressed using the specified endpoint. Please send all future requests to this endpoint.

The output is partially created but something went wrong.

I am using  
python 3.10  
tiledb==0.22.0  
tiledbsoma==1.3.0

```auto
import tiledb
import tiledbsoma
import tiledbsoma.io
import tiledbsoma.logging

from tiledbsoma.options import SOMATileDBContext

tiledbsoma.logging.debug()

config = tiledb.Config()
config["vfs.s3.scheme"] = "https" 
config["vfs.s3.region"] = "us-east-2"
config["vfs.s3.endpoint_override"] = ""
config["vfs.s3.use_virtual_addressing"] = "true"
config["vfs.s3.use_multipart_upload"] = "true"

tdb_ctx = tiledb.Ctx(config=config)
soma_ctx = SOMATileDBContext(tiledb_ctx=tdb_ctx)
pbmc3k_uri = tiledbsoma.io.from_h5ad("s3://.../pbmc3k", input_path = "input/pbmc3k.h5ad", measurement_name = "RNA", context=soma_ctx)

```

The debug output for the config parameters

```auto
Default settings:
"config.env_var_prefix" : "TILEDB_"
"config.logging_format" : "DEFAULT"
"config.logging_level" : "0"
"filestore.buffer_size" : "104857600"
"rest.curl.buffer_size" : "524288"
"rest.curl.verbose" : "false"
"rest.http_compressor" : "any"
"rest.load_metadata_on_array_open" : "true"
"rest.load_non_empty_domain_on_array_open" : "true"
"rest.retry_count" : "25"
"rest.retry_delay_factor" : "1.25"
"rest.retry_http_codes" : "503"
"rest.retry_initial_delay_ms" : "500"
"rest.server_address" : "https://api.tiledb.com"
"rest.server_serialization_format" : "CAPNP"
"rest.use_refactored_array_open" : "false"
"rest.use_refactored_array_open_and_query_submit" : "false"
"sm.allow_separate_attribute_writes" : "false"
"sm.allow_updates_experimental" : "false"
"sm.check_coord_dups" : "true"
"sm.check_coord_oob" : "true"
"sm.check_global_order" : "true"
"sm.compute_concurrency_level" : "8"
"sm.consolidation.amplification" : "1.0"
"sm.consolidation.buffer_size" : "50000000"
"sm.consolidation.max_fragment_size" : "18446744073709551615"
"sm.consolidation.mode" : "fragments"
"sm.consolidation.purge_deleted_cells" : "false"
"sm.consolidation.step_max_frags" : "4294967295"
"sm.consolidation.step_min_frags" : "4294967295"
"sm.consolidation.step_size_ratio" : "0.0"
"sm.consolidation.steps" : "4294967295"
"sm.consolidation.timestamp_end" : "18446744073709551615"
"sm.consolidation.timestamp_start" : "0"
"sm.dedup_coords" : "false"
"sm.enable_signal_handlers" : "true"
"sm.encryption_key" : ""
"sm.encryption_type" : "NO_ENCRYPTION"
"sm.fragment_info.preload_mbrs" : "false"
"sm.group.timestamp_end" : "18446744073709551615"
"sm.group.timestamp_start" : "0"
"sm.io_concurrency_level" : "8"
"sm.max_tile_overlap_size" : "314572800"
"sm.mem.malloc_trim" : "true"
"sm.mem.reader.sparse_global_order.ratio_array_data" : "0.1"
"sm.mem.reader.sparse_global_order.ratio_coords" : "0.5"
"sm.mem.reader.sparse_global_order.ratio_tile_ranges" : "0.1"
"sm.mem.reader.sparse_unordered_with_dups.ratio_array_data" : "0.1"
"sm.mem.reader.sparse_unordered_with_dups.ratio_coords" : "0.5"
"sm.mem.reader.sparse_unordered_with_dups.ratio_tile_ranges" : "0.1"
"sm.mem.tile_upper_memory_limit" : "1073741824"
"sm.mem.total_budget" : "10737418240"
"sm.memory_budget" : "5368709120"
"sm.memory_budget_var" : "10737418240"
"sm.partial_tile_offsets_loading" : "false"
"sm.query.dense.qc_coords_mode" : "false"
"sm.query.dense.reader" : "refactored"
"sm.query.sparse_global_order.reader" : "refactored"
"sm.query.sparse_unordered_with_dups.reader" : "refactored"
"sm.read_range_oob" : "warn"
"sm.skip_checksum_validation" : "false"
"sm.skip_est_size_partitioning" : "false"
"sm.skip_unary_partitioning_budget_check" : "false"
"sm.vacuum.mode" : "fragments"
"sm.var_offsets.bitsize" : "64"
"sm.var_offsets.extra_element" : "false"
"sm.var_offsets.mode" : "bytes"
"vfs.azure.blob_endpoint" : ""
"vfs.azure.block_list_block_size" : "5242880"
"vfs.azure.max_parallel_ops" : "8"
"vfs.azure.max_retries" : "5"
"vfs.azure.max_retry_delay_ms" : "60000"
"vfs.azure.retry_delay_ms" : "800"
"vfs.azure.storage_account_key" : ""
"vfs.azure.storage_account_name" : ""
"vfs.azure.storage_sas_token" : ""
"vfs.azure.use_block_list_upload" : "true"
"vfs.file.max_parallel_ops" : "1"
"vfs.file.posix_directory_permissions" : "755"
"vfs.file.posix_file_permissions" : "644"
"vfs.gcs.max_parallel_ops" : "8"
"vfs.gcs.multi_part_size" : "5242880"
"vfs.gcs.project_id" : ""
"vfs.gcs.request_timeout_ms" : "3000"
"vfs.gcs.use_multi_part_upload" : "true"
"vfs.hdfs.kerb_ticket_cache_path" : ""
"vfs.hdfs.name_node_uri" : ""
"vfs.hdfs.username" : ""
"vfs.max_batch_size" : "104857600"
"vfs.min_batch_gap" : "512000"
"vfs.min_batch_size" : "20971520"
"vfs.min_parallel_size" : "10485760"
"vfs.read_ahead_cache_size" : "10485760"
"vfs.read_ahead_size" : "102400"
"vfs.s3.aws_access_key_id" : ""
"vfs.s3.aws_external_id" : ""
"vfs.s3.aws_load_frequency" : ""
"vfs.s3.aws_role_arn" : ""
"vfs.s3.aws_secret_access_key" : ""
"vfs.s3.aws_session_name" : ""
"vfs.s3.aws_session_token" : ""
"vfs.s3.bucket_canned_acl" : "NOT_SET"
"vfs.s3.ca_file" : ""
"vfs.s3.ca_path" : ""
"vfs.s3.config_source" : "auto"
"vfs.s3.connect_max_tries" : "5"
"vfs.s3.connect_scale_factor" : "25"
"vfs.s3.connect_timeout_ms" : "60800"
"vfs.s3.endpoint_override" : ""
"vfs.s3.logging_level" : "Off"
"vfs.s3.max_parallel_ops" : "8"
"vfs.s3.multipart_part_size" : "5242880"
"vfs.s3.no_sign_request" : "false"
"vfs.s3.object_canned_acl" : "NOT_SET"
"vfs.s3.proxy_host" : ""
"vfs.s3.proxy_password" : ""
"vfs.s3.proxy_port" : "0"
"vfs.s3.proxy_scheme" : "http"
"vfs.s3.proxy_username" : ""
"vfs.s3.region" : "us-east-2"
"vfs.s3.request_timeout_ms" : "3000"
"vfs.s3.requester_pays" : "false"
"vfs.s3.scheme" : "https"
"vfs.s3.skip_init" : "false"
"vfs.s3.sse" : ""
"vfs.s3.sse_kms_key_id" : ""
"vfs.s3.use_multipart_upload" : "true"
"vfs.s3.use_virtual_addressing" : "true"
"vfs.s3.verify_ssl" : "true"

```

Any idea about how to fix this issue, please?

Cinzia

---

<div class="post-metadata">

**Author:** ![seth](https://avatars.discourse-cdn.com/v4/letter/s/f14d63/32.png) [@seth](https://forum.tiledb.com/u/seth)\
**Post date:** [July 24, 2023, 11:22am UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/2 "2023-07-24T11:22:00Z")

</div>

Hello @cinzia ! The message from s3 usually means the region is either not set or set incorrectly. I see from your configuration the `"vfs.s3.region"` has been set to `us-east-2`. Is this the region of the bucket? If not can you modify the config to set the correct region?

```auto
config["vfs.s3.region"] = "REGION"

```

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 1:02pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/3 "2023-07-24T13:02:25Z")

</div>

Hi @seth  
thank you for your reply.

The region is correct. Before this attempt I used the wrong region and I got a different error.  
So the region is correct otherwise I could not explain why the partial creation of the files on S3 (obs is created properly)

FINISH READING input/pbmc3k.h5ad TIME 0.042 seconds  
START DECATEGORICALIZING  
FINISH DECATEGORICALIZING TIME 0.000 seconds  
START WRITING s3://…-us-east-2/output/pbmc3k  
START WRITING s3://…-us-east-2/output/pbmc3k/obs  
FINISH WRITING s3://…-us-east-2/output/pbmc3k/obs TIME 1.674 seconds

These files are created properly on S3 but for some reason the file  
‘s3://…/pbmc3k/ms/RNA/uns/draw\_graph/params/random\_state/\_\_schema/’  
cannot be created properly

I tried with another big h5ad file (tabula\_immune.h5ad) and I got a similar behaviour  
s3://…-us-east-2/output/tabula/ms/RNA/uns/\_scvi/categorical\_mappings/\_scvi\_labels/mapping/\_\_schema/

Any idea, please ?

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 1:37pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/4 "2023-07-24T13:37:47Z")

</div>

Another interesting thing.  
I copied manually the SOMA files to S3 and I tried to read the files using the same tiledb context defined above and it worked.

```auto
pbmc3k_uri = "s3://...-us-east-2/output/pbmc3k"
with tiledbsoma.open(pbmc3k_uri, context=soma_ctx) as pbmc3k_soma:
    pbmc3k_obs_slice = pbmc3k_soma.obs.read(
        value_filter="n_genes >500 and louvain in ['Megakaryocytes', 'CD4 T cells']"
    )
    
    # Concatenate iterator to pyarrow.Table
    print("Output from S3")
    print(pbmc3k_obs_slice.concat())

```

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 3:27pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/5 "2023-07-24T15:27:06Z")

</div>

@cinzia I’ll be in touch soon – thank you for reporting!

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 6:06pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/6 "2023-07-24T18:06:19Z")

</div>

Hello @cinzia – I cannot reproduce this with my own data on a cross-region write. Can you please show the output from the following, so I can compare it to the data I’m using?

```auto
import anndata as ad
adata = ad.read_h5ad('input/pbmc3k.h5ad')
type(adata.uns['draw_graph']['params']['random_state'])
adata.uns['draw_graph']['params']['random_state'].dtype

```

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 6:21pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/7 "2023-07-24T18:21:57Z")

</div>

@cinzia also, in your original report

```auto
/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/init.py:229: FutureWarning: Moving element from .uns[‘neighbors’][‘distances’] to .obsp[‘distances’].
…

File “tiledb/libtiledb.pyx”, line 353, in tiledb.libtiledb._raise_tiledb_error

```

can you please send all the lines that were omitted with `...`?

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 6:48pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/8 "2023-07-24T18:48:16Z")

</div>

Here we go:

The file was downloaded from  
[https://github.com/chanzuckerberg/cellxgene/raw/main/example-dataset/pbmc3k.h5ad](https://github.com/chanzuckerberg/cellxgene/raw/main/example-dataset/pbmc3k.h5ad)

/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/ **init**.py:229: FutureWarning: Moving element from .uns[‘neighbors’][‘distances’] to .obsp[‘distances’].

This is where adjacency matrices should go now.  
warn(  
/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/ **init**.py:229: FutureWarning: Moving element from .uns[‘neighbors’][‘connectivities’] to .obsp[‘connectivities’].

This is where adjacency matrices should go now.  
warn(

The message is truncated as you see.

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 6:55pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/9 "2023-07-24T18:55:02Z")

</div>

File get from  
[https://github.com/chanzuckerberg/cellxgene/raw/main/example-dataset/pbmc3k.h5ad](https://github.com/chanzuckerberg/cellxgene/raw/main/example-dataset/pbmc3k.h5ad)  
This is the output.

```auto
/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/ __init__.py:229: FutureWarning: Moving element from .uns['neighbors']['distances'] to .obsp['distances'].

This is where adjacency matrices should go now.
  warn(
/home/ubuntu/soma/venv/lib/python3.10/site-packages/anndata/compat/ __init__.py:229: FutureWarning: Moving element from .uns['neighbors']['connectivities'] to .obsp['connectivities'].

This is where adjacency matrices should go now.
  warn(
AnnData object with n_obs × n_vars = 2638 × 1838
    obs: 'n_genes', 'percent_mito', 'n_counts', 'louvain'
    var: 'n_cells'
    uns: 'draw_graph', 'louvain', 'louvain_colors', 'neighbors', 'pca', 'rank_genes_groups'
    obsm: 'X_pca', 'X_tsne', 'X_umap', 'X_draw_graph_fr'
    varm: 'PCs'
    obsp: 'distances', 'connectivities'
<class 'numpy.ndarray'>
int64

```

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 7:01pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/10 "2023-07-24T19:01:18Z")

</div>

@cinzia thank you!

What were the lines above

```auto
File “tiledb/libtiledb.pyx”, line 353, in tiledb.libtiledb._raise_tiledb_error

```

? Did you see literally on your screen `...` on the line just above the `libtiledb._raise_tiledb_error` line?

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 7:03pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/11 "2023-07-24T19:03:57Z")

</div>

(@cinzia I suspect this is fixed by [[python] Adding missing context in ingest uns ndarray by johnkerl · Pull Request #1552 · single-cell-data/TileDB-SOMA · GitHub](https://github.com/single-cell-data/TileDB-SOMA/pull/1552) – however, I’m puzzled by my inability to reproduce the error myself – hence my questions about the stack trace you saw)

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 24, 2023, 7:18pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/12 "2023-07-24T19:18:17Z")

</div>

```auto
....
FINISH WRITING s3://....-us-east-2/output/pbmc3k_test/obs TIME 2.012 seconds
Traceback (most recent call last):
  File "/home/ubuntu/soma/create_soma_aws.py", line 58, in <module>
    pbmc3k_uri = tiledbsoma.io.from_h5ad("s3://....-us-east-2/output/pbmc3k_test", input_path = "input/pbmc3k.h5ad", measurement_name = "RNA", context=soma_ctx)
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 169, in from_h5ad
    uri = from_anndata(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 319, in from_anndata
    _maybe_ingest_uns(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1298, in _maybe_ingest_uns
    _ingest_uns_dict(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1329, in _ingest_uns_dict
    _ingest_uns_node(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1366, in _ingest_uns_node
    _ingest_uns_dict(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1329, in _ingest_uns_dict
    _ingest_uns_node(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1366, in _ingest_uns_node
    _ingest_uns_dict(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1329, in _ingest_uns_dict
    _ingest_uns_node(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1411, in _ingest_uns_node
    _ingest_uns_ndarray(
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/io/ingest.py", line 1501, in _ingest_uns_ndarray
    soma_arr = _factory.open(arr_uri, "w", soma_type=DenseNDArray)
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/_factory.py", line 114, in open
    obj = _open_internal(_tdb_handles.open, uri, mode, context, tiledb_timestamp)
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/_factory.py", line 143, in _open_internal
    handle = opener(uri, mode, context, timestamp)
  File "/home/ubuntu/soma/venv/lib/python3.10/site-packages/tiledbsoma/_tdb_handles.py", line 48, in open
    obj_type = tiledb.object_type(uri, ctx=context.tiledb_ctx)
  File "tiledb/libtiledb.pyx", line 3171, in tiledb.libtiledb.object_type
  File "tiledb/libtiledb.pyx", line 374, in tiledb.libtiledb.check_error
  File "tiledb/libtiledb.pyx", line 368, in tiledb.libtiledb._raise_ctx_err
  File "tiledb/libtiledb.pyx", line 353, in tiledb.libtiledb._raise_tiledb_error
tiledb.cc.TileDBError: [TileDB::S3] Error: Error while listing with prefix 's3://....-us-east-2/output/pbmc3k_test/ms/RNA/uns/draw_graph/params/random_state/__schema/' and delimiter '/'
Exception: PermanentRedirect
Error message: Unable to parse ExceptionName: PermanentRedirect Message: The bucket you are attempting to access must be addressed using the specified endpoint. Please send all future requests to this endpoint.

```

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 24, 2023, 7:21pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/13 "2023-07-24T19:21:55Z")

</div>

Thank you @cinzia ! This indeed points to

> <https://github.com/single-cell-data/TileDB-SOMA/pull/1552>
>
> \*\*Issue and/or context:\*\* Hypothesized cause of https://forum.tiledb.com/t/tiled…berror-tiledb-s3-error-storing-h5ad-with-soma-format/602/1 -- although I cannot yet repro this myself on a cross-region write.
> 
> \*\*Changes:\*\* Add the visibly missing \`context\` argument in the particular \`.open\`
> 
> \*\*Notes for Reviewer:\*\*

We’ll have a TileDB-SOMA 1.3.1 release out very soon – I’ll be in touch!

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [July 25, 2023, 7:07am UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/14 "2023-07-25T07:07:10Z")

</div>

Perfect. I am happy to try the new release.  
Thank you for the help

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [July 25, 2023, 1:34pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/15 "2023-07-25T13:34:29Z")

</div>

@cinzia fantastic, thank you!

---

<div class="post-metadata">

**Author:** ![cinzia](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/cinzia/32/277_2.png) [@cinzia](https://forum.tiledb.com/u/cinzia)\
**Post date:** [September 1, 2023, 4:50pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/16 "2023-09-01T16:50:53Z")

</div>

Dear @johnkerl  
I tried to run the code above with  
tiledb==0.22.3  
tiledbsoma==1.4.3  
and it worked.

Many thanks  
Cinzia

---

<div class="post-metadata">

**Author:** ![johnkerl](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.tiledb.com/johnkerl/32/159_2.png) [@johnkerl](https://forum.tiledb.com/u/johnkerl)\
**Post date:** [September 1, 2023, 5:07pm UTC](https://forum.tiledb.com/t/tiledberror-tiledb-s3-error-storing-h5ad-with-soma-format/602/17 "2023-09-01T17:07:48Z")

</div>

@cinzia fantastic – thank you! 🙂