Last updated on 2026-06-08 02:51:22 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.2.0 | 30.26 | 120.70 | 150.96 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.2.0 | 18.24 | 84.75 | 102.99 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.2.0 | 52.00 | 185.89 | 237.89 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.2.0 | 58.00 | 214.07 | 272.07 | OK | |
| r-devel-windows-x86_64 | 0.2.0 | 32.00 | 166.00 | 198.00 | OK | |
| r-patched-linux-x86_64 | 0.2.0 | 31.24 | 114.79 | 146.03 | OK | |
| r-release-linux-x86_64 | 0.2.0 | 28.91 | 115.07 | 143.98 | OK | |
| r-release-macos-arm64 | 0.2.0 | 6.00 | 37.00 | 43.00 | OK | |
| r-release-macos-x86_64 | 0.2.0 | 20.00 | 152.00 | 172.00 | OK | |
| r-release-windows-x86_64 | 0.2.0 | 31.00 | 160.00 | 191.00 | OK | |
| r-oldrel-macos-arm64 | 0.2.0 | 6.00 | 38.00 | 44.00 | OK | |
| r-oldrel-macos-x86_64 | 0.2.0 | 21.00 | 166.00 | 187.00 | OK | |
| r-oldrel-windows-x86_64 | 0.2.0 | 40.00 | 185.00 | 225.00 | OK |
Version: 0.2.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [18s/21s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(pizzarr)
pizzarr: running without zarrs backend (pure R).
For parallel I/O and cloud storage, install from r-universe:
install.packages("pizzarr", repos = "https://zarr-developers.r-universe.dev")
>
> test_check("pizzarr")
zarrs backend not available; http_batch_range_requests stored but not applied.
zarrs backend not available; http_batch_range_requests stored but not applied.
Saving _problems/test-utils-9.R
Saving _problems/test-v3-15.R
Saving _problems/test-v3-20.R
Saving _problems/test-v3-31.R
Saving _problems/test-v3-36.R
Saving _problems/test-v3-185.R
Saving _problems/test-v3-202.R
Saving _problems/test-v3-214.R
Saving _problems/test-v3-226.R
Saving _problems/test-v3-238.R
Install pizzarr with the zarrs backend from r-universe:
install.packages("pizzarr", repos = "https://zarr-developers.r-universe.dev")
[ FAIL 10 | WARN 7 | SKIP 78 | PASS 1249 ]
══ Skipped tests (78) ══════════════════════════════════════════════════════════
• zarrs backend not available (73): 'test-config.R:16:3', 'test-config.R:25:3',
'test-config.R:57:3', 'test-config.R:66:3', 'test-onload.R:26:3',
'test-zarrs-bridge.R:8:3', 'test-zarrs-bridge.R:24:3',
'test-zarrs-create.R:11:3', 'test-zarrs-create.R:30:3',
'test-zarrs-create.R:45:3', 'test-zarrs-create.R:63:3',
'test-zarrs-create.R:81:3', 'test-zarrs-create.R:95:3',
'test-zarrs-create.R:110:3', 'test-zarrs-create.R:132:3',
'test-zarrs-create.R:156:3', 'test-zarrs-create.R:169:3',
'test-zarrs-create.R:190:3', 'test-zarrs-create.R:203:3',
'test-zarrs-create.R:215:3', 'test-zarrs-create.R:229:3',
'test-zarrs-create.R:249:3', 'test-zarrs-create.R:267:3',
'test-zarrs-create.R:280:3', 'test-zarrs-dispatch.R:43:3',
'test-zarrs-dispatch.R:53:3', 'test-zarrs-dispatch.R:63:3',
'test-zarrs-dispatch.R:106:3', 'test-zarrs-gcs.R:8:3',
'test-zarrs-gcs.R:16:3', 'test-zarrs-gcs.R:39:3', 'test-zarrs-gcs.R:70:3',
'test-zarrs-http.R:6:3', 'test-zarrs-http.R:12:3', 'test-zarrs-http.R:36:3',
'test-zarrs-http.R:62:3', 'test-zarrs-metadata.R:2:3',
'test-zarrs-metadata.R:20:3', 'test-zarrs-metadata.R:39:3',
'test-zarrs-metadata.R:54:3', 'test-zarrs-metadata.R:65:3',
'test-zarrs-metadata.R:77:3', 'test-zarrs-metadata.R:83:3',
'test-zarrs-retrieve.R:4:3', 'test-zarrs-retrieve.R:18:3',
'test-zarrs-retrieve.R:34:3', 'test-zarrs-retrieve.R:50:3',
'test-zarrs-retrieve.R:64:3', 'test-zarrs-retrieve.R:78:3',
'test-zarrs-retrieve.R:91:3', 'test-zarrs-retrieve.R:104:3',
'test-zarrs-retrieve.R:126:3', 'test-zarrs-retrieve.R:158:3',
'test-zarrs-retrieve.R:192:3', 'test-zarrs-retrieve.R:216:3',
'test-zarrs-retrieve.R:231:3', 'test-zarrs-retrieve.R:247:3',
'test-zarrs-s3.R:6:3', 'test-zarrs-s3.R:14:3', 'test-zarrs-s3.R:30:3',
'test-zarrs-s3.R:58:3', 'test-zarrs-store-cache.R:17:3',
'test-zarrs-store-cache.R:32:3', 'test-zarrs-store-cache.R:46:3',
'test-zarrs-store-cache.R:63:3', 'test-zarrs-store-cache.R:76:3',
'test-zarrs-write.R:4:3', 'test-zarrs-write.R:20:3',
'test-zarrs-write.R:39:3', 'test-zarrs-write.R:62:3',
'test-zarrs-write.R:82:3', 'test-zarrs-write.R:98:3',
'test-zarrs-write.R:132:3'
• {qs} is not installed (5): 'test-compat.R:7:5', 'test-compat.R:18:5',
'test-compat.R:29:5', 'test-compression.R:4:5', 'test-compression.R:71:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-utils.R:9:3'): demo data ───────────────────────────────────────
Error in `utils::unzip(zarr_zips[z], exdir = file.path(tdir, dirname(avail[z])))`: cannot open file '/tmp/check-CRAN-regular-hornik/data/R/pizzarr/pizzarr_sample/fixtures/v3/zarr_python_v3.zarr/int16_2d/c/1/0': No such file or directory
Backtrace:
▆
1. └─pizzarr::pizzarr_sample() at test-utils.R:9:3
2. └─utils::unzip(zarr_zips[z], exdir = file.path(tdir, dirname(avail[z])))
── Failure ('test-v3.R:15:3'): detect_zarr_version returns 3 for V3 store ──────
Expected `detect_zarr_version(store)` to equal 3L.
Differences:
`actual`: NA
`expected`: 3
── Failure ('test-v3.R:20:3'): contains_group detects V3 root group ────────────
Expected `contains_group(store)` to be TRUE.
Differences:
`actual`: FALSE
`expected`: TRUE
── Error ('test-v3.R:31:3'): V3 group can be opened with zarr_open_group ───────
Error in `zarr_open_group(v3_root, mode = "r")`: GroupNotFoundError(path)
Backtrace:
▆
1. └─pizzarr::zarr_open_group(v3_root, mode = "r") at test-v3.R:31:3
── Error ('test-v3.R:36:3'): V3 group can be opened with zarr_open ─────────────
Error in `zarr_open(v3_root, mode = "r")`: PathNotFoundError(path)
Backtrace:
▆
1. └─pizzarr::zarr_open(v3_root, mode = "r") at test-v3.R:36:3
── Error ('test-v3.R:185:3'): V3 3d contiguous int16 ───────────────────────────
Error in `private$store$get_item(mkey)`: KeyError: 3d.contiguous.i2/.zarray
Backtrace:
▆
1. └─ZarrArray$new(store, path = "3d.contiguous.i2", read_only = TRUE) at test-v3.R:185:3
2. └─pizzarr (local) initialize(...)
3. └─private$load_metadata()
4. └─private$load_metadata_nosync()
5. └─private$store$get_item(mkey)
── Error ('test-v3.R:202:3'): V3 3d chunked int16 ──────────────────────────────
Error in `private$store$get_item(mkey)`: KeyError: 3d.chunked.i2/.zarray
Backtrace:
▆
1. └─ZarrArray$new(store, path = "3d.chunked.i2", read_only = TRUE) at test-v3.R:202:3
2. └─pizzarr (local) initialize(...)
3. └─private$load_metadata()
4. └─private$load_metadata_nosync()
5. └─private$store$get_item(mkey)
── Error ('test-v3.R:214:3'): V3 3d chunked mixed C-order int16 ────────────────
Error in `private$store$get_item(mkey)`: KeyError: 3d.chunked.mixed.i2.C/.zarray
Backtrace:
▆
1. └─ZarrArray$new(store, path = "3d.chunked.mixed.i2.C", read_only = TRUE) at test-v3.R:214:3
2. └─pizzarr (local) initialize(...)
3. └─private$load_metadata()
4. └─private$load_metadata_nosync()
5. └─private$store$get_item(mkey)
── Error ('test-v3.R:226:3'): V3 3d chunked mixed F-order int16 ────────────────
Error in `private$store$get_item(mkey)`: KeyError: 3d.chunked.mixed.i2.F/.zarray
Backtrace:
▆
1. └─ZarrArray$new(store, path = "3d.chunked.mixed.i2.F", read_only = TRUE) at test-v3.R:226:3
2. └─pizzarr (local) initialize(...)
3. └─private$load_metadata()
4. └─private$load_metadata_nosync()
5. └─private$store$get_item(mkey)
── Error ('test-v3.R:238:3'): zarr_open auto-detects V3 group and can read child array ──
Error in `zarr_open(v3_root, mode = "r")`: PathNotFoundError(path)
Backtrace:
▆
1. └─pizzarr::zarr_open(v3_root, mode = "r") at test-v3.R:238:3
[ FAIL 10 | WARN 7 | SKIP 78 | PASS 1249 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.2.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘basics.Rmd’ using rmarkdown
--- finished re-building ‘basics.Rmd’
--- re-building ‘ome-ngff.Rmd’ using rmarkdown
--- finished re-building ‘ome-ngff.Rmd’
--- re-building ‘pizzarr.Rmd’ using rmarkdown
--- finished re-building ‘pizzarr.Rmd’
--- re-building ‘remote-anndata.Rmd’ using rmarkdown
--- finished re-building ‘remote-anndata.Rmd’
--- re-building ‘remote-ome-ngff.Rmd’ using rmarkdown
--- finished re-building ‘remote-ome-ngff.Rmd’
--- re-building ‘session_info.Rmd’ using rmarkdown
--- finished re-building ‘session_info.Rmd’
--- re-building ‘v3-interop.Rmd’ using rmarkdown
Quitting from v3-interop.Rmd:61-65 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `root$get_item()`:
! KeyError: item
---
Backtrace:
▆
1. └─root$get_item("int32_1d")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'v3-interop.Rmd' failed with diagnostics:
KeyError: item
--- failed re-building ‘v3-interop.Rmd’
--- re-building ‘v3-read.Rmd’ using rmarkdown
--- finished re-building ‘v3-read.Rmd’
--- re-building ‘zarr-operations.Rmd’ using rmarkdown
--- finished re-building ‘zarr-operations.Rmd’
--- re-building ‘zarrs-backend.Rmd’ using rmarkdown
--- finished re-building ‘zarrs-backend.Rmd’
SUMMARY: processing the following file failed:
‘v3-interop.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc