:x: sarek/test_full_germline_ncbench_agilent faile...
# sarek_devf
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10/19/2026, 11:39 AM❌ sarek/test_full_germline_ncbench_agilent failed 😿 Run Name
sarek_test_full_germline_ncbench_agilent_2 Duration
1h 44m 10s Status
❌ Failed Error Message
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mark_flag_as_required(flag_name, flag_values)
I1019 11:38:38.416954 139734748553664 make_examples_core.py:3855] model.example_info filename: /opt/models/wes/model.example_info.json
I1019 11:38:38.417414 139734748553664 make_examples_core.py:3859] Reading flags_for_calling from /opt/models/wes/model.example_info.json
I1019 11:38:38.417746 139734748553664 make_examples_core.py:3876] Flags for calling:
pileup_image_height: 100
pileup_image_width: 221
I1019 11:38:38.417341 140599192363456 dv_utils.py:333] From /opt/models/wes/model.example_info.json: Shape of input examples: [100, 221, 7], Channels of input examples: [1, 2, 3, 4, 5, 6, 19].
I1019 11:38:38.417690 140599192363456 make_examples_options.py:1233] Parsing AUX Fields: []
W1019 11:38:38.418130 140599192363456 make_examples_options.py:1284] Automatically setting --trim_reads_for_pileup to True because --alt_aligned_pileup is set.
I1019 11:38:38.420618 140599192363456 make_examples_core.py:384] Task 5/12: Preparing inputs
I1019 11:38:38.418661 140619152122304 genomics_reader.py:223] Reading NA12878_200M.recal.cram with NativeSamReader
I1019 11:38:38.422198 139734748553664 dv_utils.py:333] From /opt/models/wes/model.example_info.json: Shape of input examples: [100, 221, 7], Channels of input examples: [1, 2, 3, 4, 5, 6, 19].
I1019 11:38:38.422613 139734748553664 make_examples_options.py:1233] Parsing AUX Fields: []
W1019 11:38:38.423279 139734748553664 make_examples_options.py:1284] Automatically setting --trim_reads_for_pileup to True because --alt_aligned_pileup is set.
I1019 11:38:38.425888 139734748553664 make_examples_core.py:384] Task 3/12: Preparing inputs
I1019 11:38:38.429782 140368347087296 genomics_reader.py:223] Reading NA12878_200M.recal.cram with NativeSamReader
I1019 11:38:38.430006 139971718414784 genomics_reader.py:223] Reading NA12878_200M.recal.cram with NativeSamReader
I1019 11:38:38.459069 140599192363456 genomics_reader.py:223] Reading NA12878_200M.recal.cram with NativeSam... Copy code
nextflow run '<https://github.com/nf-core/sarek>' -name sarek_test_full_germline_ncbench_agilent_2 -params-file '<https://api.cloud.seqera.io/ephemeral/rhMy9KmF_X9PYXQI-eHHsw.json>' -with-tower -r d0974c995c6b4786561086c4d3cf0e2d7e6ceeff -profile test_full_germline_ncbench_agilent -resume 59f491fc-819e-438f-94a5-72edafb95fca