Sen2Cor exits with "All images contain only invalid pixels"

Hi,

I’m running Sen2Cor to produce Sentinel-2 L2A scenes from L1C data. I’m running into an issue with specific scenes
where the bands (apparently) do not “contain any data”, and so Sen2cor terminates with a non-zero return code.
However, I notice that SciHub does have outputs for these scenes.

Consider the scene S2B_MSIL1C_20221205T140709_N0400_R110_T22PEA_20221205T155328 (I’m not sure how to link to the info page for that scene, but I think
https://scihub.copernicus.eu/dhus/odata/v1/Products(‘e16e69e2-7548-451b-90a3-89c8e097a080’)/$value is the download URL). That has a corresponding
L2A scene of S2B_MSIL2A_20221205T140709_N0400_R110_T22PEA_20221205T162557 (download URL: https://scihub.copernicus.eu/dhus/odata/v1/Products(‘a30a3fb5-c0c5-476a-97be-70382f725eac’)/$value).

I’m not sure how that L2A scene is produced. When running Sen2Cor (version 2.10.01) on a similar scene locally,
it exits with a returncode=1. I’ve copied the stdout from that run below:

    Sen2Cor. Version: 02.10.01, created: 2021.12.13, supporting Level-1C product version 14.2 - 14.9 started ...
    Product version: 14.9
    Operation mode: TOOLBOX
    Processing baseline: 04.00
    Progress[%]: 0.00 : Generating datastrip metadata
    L2A datastrip successfully generated
    No resolution specified, will process 20 and 10 m resolution
    20 m resolution will be downsampled to 60 m
    Progress[%]: 0.05 : PID-109721, L2A_ProcessTile: processing with resolution 20 m, elapsed time[s]: 1.483, total: 0:00:07.132872
    Progress[%]: 0.05 : PID-109721, L2A_ProcessTile: start of pre processing, elapsed time[s]: 0.008, total: 0:00:07.141268
    Progress[%]: 0.05 : PID-109721, L2A_Tables: start import, elapsed time[s]: 0.075, total: 0:00:07.216503
    Progress[%]: 0.10 : PID-109721, L2A_Tables: band B01 imported, elapsed time[s]: 1.242, total: 0:00:08.458796
    Band B02 does not contain any data
    Progress[%]: 0.17 : PID-109721, L2A_Tables: band B02 imported, elapsed time[s]: 2.236, total: 0:00:10.694493
    Progress[%]: 0.26 : PID-109721, L2A_Tables: band B03 imported, elapsed time[s]: 2.472, total: 0:00:13.166692
    Progress[%]: 0.33 : PID-109721, L2A_Tables: band B04 imported, elapsed time[s]: 2.330, total: 0:00:15.496810
    Progress[%]: 0.53 : PID-109721, L2A_Tables: band B05 imported, elapsed time[s]: 5.656, total: 0:00:21.152907
    Progress[%]: 0.59 : PID-109721, L2A_Tables: band B06 imported, elapsed time[s]: 1.930, total: 0:00:23.082575
    Progress[%]: 0.75 : PID-109721, L2A_Tables: band B07 imported, elapsed time[s]: 4.668, total: 0:00:27.750152
    Progress[%]: 0.95 : PID-109721, L2A_Tables: band B8A imported, elapsed time[s]: 5.977, total: 0:00:33.727504
    Progress[%]: 1.01 : PID-109721, L2A_Tables: band B09 imported, elapsed time[s]: 1.506, total: 0:00:35.233142
    Band B10 does not contain any data
    Progress[%]: 1.09 : PID-109721, L2A_Tables: band B10 imported, elapsed time[s]: 2.427, total: 0:00:37.660485
    Band B11 does not contain any data
    Progress[%]: 1.28 : PID-109721, L2A_Tables: band B11 imported, elapsed time[s]: 5.542, total: 0:00:43.202043
    Progress[%]: 1.47 : PID-109721, L2A_Tables: band B12 imported, elapsed time[s]: 5.789, total: 0:00:48.990668
    Progress[%]: 1.47 : PID-109721, L2A_Tables: AUX_CAMS* file found., elapsed time[s]: 0.015, total: 0:00:49.005747
    Progress[%]: 1.96 : PID-109721, L2A_Tables: Visibility map from file AUX_CAMSFO prepared, elapsed time[s]: 14.436, total: 0:01:03.441572
    DEM retrieved data contains no values, switching to flat surface
    Application will continue with a flat terrain
    Progress[%]: 2.64 : PID-109721, L2A_Tables: band WBI imported, elapsed time[s]: 19.993, total: 0:01:23.434911
    Progress[%]: 2.67 : PID-109721, L2A_Tables: band LCM imported, elapsed time[s]: 0.785, total: 0:01:24.220073
    Progress[%]: 2.69 : PID-109721, L2A_Tables: band SNC imported, elapsed time[s]: 0.521, total: 0:01:24.741255
    Progress[%]: 2.69 : PID-109721, L2A_Tables: stop import, elapsed time[s]: 0.093, total: 0:01:24.834009
    Progress[%]: 2.69 : PID-109721, L2A_ProcessTile: start of Scene Classification, elapsed time[s]: 0.001, total: 0:01:24.835052
    Progress[%]: 2.70 : PID-109721, L2A_Tables: band B02 must be resampled, elapsed time[s]: 0.304, total: 0:01:25.138625
    Progress[%]: 2.76 : PID-109721, Pre process , elapsed time[s]: 1.779, total: 0:01:26.918121
    Progress[%]: 2.76 : PID-109721, L2A_Tables: band B01 must be resampled, elapsed time[s]: 0.013, total: 0:01:26.931317
    Progress[%]: 2.93 : PID-109721, L2A_Tables: band B03 must be resampled, elapsed time[s]: 4.845, total: 0:01:31.775878
    Progress[%]: 3.00 : PID-109721, L2A_Tables: band B04 must be resampled, elapsed time[s]: 2.225, total: 0:01:34.000494
    Progress[%]: 3.08 : PID-109721, L2A_Tables: band B09 must be resampled, elapsed time[s]: 2.359, total: 0:01:36.359968
    Progress[%]: 3.15 : PID-109721, L2A_Tables: band B10 must be resampled, elapsed time[s]: 1.888, total: 0:01:38.248152
    All images contain only invalid pixels, processing will terminate
    Progress[%]: 3.24 : PID-109721, Post process , elapsed time[s]: 2.725, total: 0:01:40.972831
    Progress[%]: 3.24 : PID-109721, Post process , elapsed time[s]: 0.007, total: 0:01:40.979697
    Module L2A_T41PKT_A029990_20221203T063230 failed
    Progress[%]: 100.00 : Application terminated with at least one error.

Thanks for any help you can provide,

Tom