I am unable to figure out how to solve for this error. Can anyone please help. Thanks.

REQUIRED for all errors and issues:
a) GATK version used:

The Genome Analysis Toolkit (GATK) v4.6.1.0
HTSJDK Version: 4.1.3
Picard Version: 3.3.0
 
b) Exact command used:

gatk GermlineCNVCaller --run-mode COHORT --contig-ploidy-calls ${wdir}/hdf5/PLOIDY_COHORT-calls/ \
    --output ${wdir}/hdf5/ --output-prefix PLOIDY_COHORT_RUN \
    -L /rsrch5/home/rsrch/name/GATK4/Homo_sapiens/GRCh38.filtered.intervals \
    --interval-merging-rule OVERLAPPING_ONLY \
    --annotated-intervals /rsrch5/home/rsrch/name/GATK4/Homo_sapiens/GRCh38.preprocessed.interval_list.anno.tsv \
    ${SAMPLE_INPUT} --verbosity DEBUG

 
c) Entire program log:
Traceback (most recent call last):
  File "/tmp/cohort_denoising_calling.15835403171985346891.py", line 146, in <module>
    shared_workspace = gcnvkernel.DenoisingCallingWorkspace(
  File "/rsrch5/home/rsrch/name/miniforge3/envs/gatk4.6.1.0/lib/python3.10/site-packages/gcnvkernel-0.9-py3.10.egg/gcnvkernel/models/model_denoising_calling.py", line 389, in __init__
  File "/rsrch5/home/rsrch/name/miniforge3/envs/gatk4.6.1.0/lib/python3.10/site-packages/gcnvkernel-0.9-py3.10.egg/gcnvkernel/models/model_denoising_calling.py", line 634, in _get_baseline_copy_number_and_read_depth
AssertionError: Some samples do not have read depth metadata
14:01:46.080 INFO  GermlineCNVCaller - Shutting down engine
[November 19, 2024 at 2:01:46 PM CST] org.broadinstitute.hellbender.tools.copynumber.GermlineCNVCaller done. Elapsed time: 3.39 minutes.
Runtime.totalMemory()=29209133056
org.broadinstitute.hellbender.utils.python.PythonScriptExecutorException:
python exited with 1
Command Line: python /tmp/cohort_denoising_calling.15835403171985346891.py --ploidy_calls_path=/rsrch5/home/rsrch/name/project/hdf5/PLOIDY_COHORT-calls --output_calls_path=/rsrch5/home/rsrch/name/project/hdf5/PLOIDY_COHORT_RUN-calls --output_tracking_path=/rsrch5/home/rsrch/name/project/hdf5/PLOIDY_COHORT_RUN-tracking --random_seed=1984 --modeling_interval_list=/tmp/intervals11515188705086268749.tsv --output_model_path=/rsrch5/home/rsrch/name/project/hdf5/PLOIDY_COHORT_RUN-model --enable_explicit_gc_bias_modeling=True --read_count_tsv_files /tmp/sampleXXXXX.rc13402331463704911309.tsv /tmp/sampleXXXXX.rc9162085982634963414.tsv /tmp/sampleXXXXX.rc15632061791572929519.tsv /tmp/sampleXXXXX.rc12135784994783049012.tsv /tmp/sampleXXXXX.rc430747418122575965.tsv /tmp/sampleXXXXX.rc14100083836932384600.tsv /tmp/sampleXXXXX.rc4749128214540875296.tsv /tmp/sampleXXXXX.rc8318840780860732792.tsv /tmp/sampleXXXXX.rc11414521834826895451.tsv /tmp/sampleXXXXX.rc3219421133382692130.tsv /tmp/sampleXXXXX.rc4386926073403609910.tsv /tmp/sampleXXXXX.rc7368782073389059702.tsv /tmp/sampleXXXXX.rc7208545983456729911.tsv /tmp/sampleXXXXX.rc15558723279796366096.tsv /tmp/sampleXXXXX.rc2451027049655416054.tsv --psi_s_scale=1.000000e-02 --mapping_error_rate=1.000000e-02 --depth_correction_tau=1.000000e+04 --q_c_expectation_mode=hybrid --num_samples_copy_ratio_approx=200 --max_bias_factors=6 --psi_t_scale=1.000000e-02 --log_mean_bias_std=1.000000e-01 --init_ard_rel_unexplained_variance=1.000000e-01 --num_gc_bins=20 --gc_curve_sd=1.000000e+00 --active_class_padding_hybrid_mode=50000 --enable_bias_factors=True --disable_bias_factors_in_active_class=False --p_alt=5.000000e-04 --cnv_coherence_length=1.000000e+04 --max_copy_number=5 --p_active=0.100000 --class_coherence_length=10000.000000 --learning_rate=1.000000e-02 --adamax_beta1=9.000000e-01 --adamax_beta2=9.900000e-01 --log_emission_samples_per_round=50 --log_emission_sampling_rounds=10 --log_emission_sampling_median_rel_error=5.000000e-03 --max_advi_iter_first_epoch=5000 --max_advi_iter_subsequent_epochs=200 --min_training_epochs=10 --max_training_epochs=50 --initial_temperature=1.500000e+00 --num_thermal_advi_iters=2500 --convergence_snr_averaging_window=500 --convergence_snr_trigger_threshold=1.000000e-01 --convergence_snr_countdown_window=10 --max_calling_iters=10 --caller_update_convergence_threshold=1.000000e-03 --caller_internal_admixing_rate=7.500000e-01 --caller_external_admixing_rate=1.000000e+00 --disable_caller=false --disable_sampler=false --disable_annealing=false
        at org.broadinstitute.hellbender.utils.python.PythonExecutorBase.getScriptException(PythonExecutorBase.java:75)
        at org.broadinstitute.hellbender.tools.copynumber.GermlineCNVCaller.doWork(GermlineCNVCaller.java:380)
        at org.broadinstitute.hellbender.cmdline.CommandLineProgram.runTool(CommandLineProgram.java:150)
        at org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMainPostParseArgs(CommandLineProgram.java:203)
        at org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:222)
        at org.broadinstitute.hellbender.Main.runCommandLineProgram(Main.java:166)
        at org.broadinstitute.hellbender.Main.mainEntry(Main.java:209)
        at org.broadinstitute.hellbender.Main.main(Main.java:306)