Libre Biotech

PacBio CCS (Subreads → HiFi)

CCS: DBA K7-50pM (retry with pbindex) Worker error: PBS submission failed

Type
Custom
Status
succeeded
Engine
ccs 6.4.0
Duration
0.9 h

Software Tools

Results Summary

CCS Reads
187,395
Mean Length
2,607 bp
Mean Passes
0.0
Conversion
36.2%

Output Files

ccs.bam HPC 429.8 MB ccs.bam.pbi HPC 1.7 MB ccs.ccs_report.txt HPC 890 B ccs.report.json HPC 3.4 KB ccs.zmw_metrics.json.gz HPC 19.7 MB results_summary.json HPC 164 B

Provenance

Execution PacBio CCS: subreads to HiFi (mouse_dba_K7_50pM)
Started 2026-03-04T16:37:41+00:00
Completed 2026-03-04T07:32:41+00:00
RO-Crate 1.1 Workflow RO-Crate 1.0 FAIR
This analysis is packaged as a Research Object Crate with machine-readable provenance and FAIR metadata.

RO-Crate Metadata (JSON-LD)

Show/hide raw JSON-LD
{
    "@context": "https://w3id.org/ro/crate/1.1/context",
    "@graph": [
        {
            "@id": "ro-crate-metadata.json",
            "@type": "CreativeWork",
            "about": {
                "@id": "./"
            },
            "conformsTo": [
                {
                    "@id": "https://w3id.org/ro/crate/1.1"
                },
                {
                    "@id": "https://w3id.org/workflowhub/workflow-ro-crate/1.0"
                }
            ]
        },
        {
            "@id": "./",
            "@type": "Dataset",
            "name": "PacBio CCS (mouse_dba_K7_50pM) \u2014 Run #77",
            "description": "PacBio CCS: subreads to HiFi consensus reads",
            "datePublished": "2026-03-04",
            "license": {
                "@id": "https://creativecommons.org/licenses/by/4.0/"
            },
            "hasPart": [
                {
                    "@id": "ccs.bam.pbi"
                },
                {
                    "@id": "ccs.zmw_metrics.json.gz"
                },
                {
                    "@id": "ccs.bam"
                },
                {
                    "@id": "ccs.ccs_report.txt"
                },
                {
                    "@id": "ccs.report.json"
                },
                {
                    "@id": "results_summary.json"
                }
            ],
            "mentions": [
                {
                    "@id": "#execution"
                }
            ]
        },
        {
            "@id": "#ccs",
            "@type": "SoftwareApplication",
            "name": "ccs",
            "softwareVersion": "6.4.0",
            "url": {
                "@id": "https://github.com/PacificBiosciences/ccs"
            }
        },
        {
            "@id": "#pbindex",
            "@type": "SoftwareApplication",
            "name": "pbindex",
            "url": {
                "@id": "https://github.com/PacificBiosciences/pbbam"
            }
        },
        {
            "@id": "ccs.bam.pbi",
            "@type": "File",
            "name": "ccs.bam.pbi",
            "encodingFormat": "application/octet-stream",
            "contentSize": "1.7 MB",
            "sha256": "84f378129b378d88f789d9edcb7fc01379889dcc0ad0e03e7191e83f495c16e9"
        },
        {
            "@id": "ccs.zmw_metrics.json.gz",
            "@type": "File",
            "name": "ccs.zmw_metrics.json.gz",
            "encodingFormat": "application/octet-stream",
            "contentSize": "19.7 MB",
            "sha256": "e23f7d968755a3e57f6b9248a39b36dcec92ddc69f69dd94c88a96ebd856b6ce"
        },
        {
            "@id": "ccs.bam",
            "@type": "File",
            "name": "ccs.bam",
            "encodingFormat": "application/octet-stream",
            "contentSize": "429.8 MB",
            "sha256": "88cfdaf9a78cb40cfd7f6156b8d4a3dc5b12a8f734a1570efd284a47e7704a38"
        },
        {
            "@id": "ccs.ccs_report.txt",
            "@type": "File",
            "name": "ccs.ccs_report.txt",
            "encodingFormat": "application/octet-stream",
            "contentSize": "890 B",
            "sha256": "55f7d78c13ee31a0d0096f890d008fa5c43bfb3557a43566c46b0690af54f962"
        },
        {
            "@id": "ccs.report.json",
            "@type": "File",
            "name": "ccs.report.json",
            "encodingFormat": "application/json",
            "contentSize": "3.4 KB",
            "sha256": "c6c423e90be4c6b317f612cd03d329b872f87832ae58cb61f8188b8e0e16df24"
        },
        {
            "@id": "#execution",
            "@type": "CreateAction",
            "name": "PacBio CCS: subreads to HiFi (mouse_dba_K7_50pM)",
            "instrument": {
                "@id": "#ccs"
            },
            "startTime": "2026-03-04T16:37:41+00:00",
            "endTime": "2026-03-04T07:32:41+00:00",
            "result": [
                {
                    "@id": "ccs.bam.pbi"
                },
                {
                    "@id": "ccs.zmw_metrics.json.gz"
                },
                {
                    "@id": "ccs.bam"
                },
                {
                    "@id": "ccs.ccs_report.txt"
                },
                {
                    "@id": "ccs.report.json"
                }
            ]
        },
        {
            "@id": "results_summary.json",
            "@type": "File",
            "name": "results_summary.json",
            "description": "CCS conversion summary statistics",
            "encodingFormat": "application/json",
            "contentSize": "164 B",
            "sha256": "5c76f30942458a674de702bfccfcc8842279c3c1158dfbc9728827f7bfc99d71"
        }
    ]
}