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Added merge_bam_stats test for sample with no rq.
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williamrowell committed Dec 10, 2024
1 parent 8445aed commit 015dfc6
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58 changes: 58 additions & 0 deletions wdl-ci.config.json
Original file line number Diff line number Diff line change
Expand Up @@ -1098,6 +1098,64 @@
]
}
}
},
{
"inputs": {
"sample_id": "HG002",
"bam_stats": [
"${resources_file_path}/pbmm2_align_wgs/vega_10k_no_rq/HG002.vega_10k.no_rq.hifi_reads.read_length_and_quality.tsv.gz"
],
"runtime_attributes": "${default_runtime_attributes}"
},
"output_tests": {
"read_length_and_quality": {
"value": "${resources_file_path}/merge_bam_stats/two_inputs/HG002.read_length_and_quality.tsv.gz",
"test_tasks": [
"compare_file_basename",
"check_tab_delimited",
"count_columns",
"check_gzip"
]
},
"read_length_plot": {
"value": "${resources_file_path}/merge_bam_stats/two_inputs/HG002.read_length_histogram.png",
"test_tasks": [
"calculate_md5sum",
"compare_file_basename",
"png_validator"
]
},
"stat_num_reads": {
"value": "20000",
"test_tasks": [
"compare_string"
]
},
"stat_read_length_mean": {
"value": "22673.07",
"test_tasks": [
"compare_string"
]
},
"stat_read_length_median": {
"value": "22281.5",
"test_tasks": [
"compare_string"
]
},
"stat_read_quality_mean": {
"value": "29.32",
"test_tasks": [
"compare_string"
]
},
"stat_read_quality_median": {
"value": "29.0",
"test_tasks": [
"compare_string"
]
}
}
}
]
}
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2 changes: 1 addition & 1 deletion workflows/wdl-common

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