1515 ],
1616 "format-version": "0.1",
1717 "license": "CC-BY-4.0",
18- "release": "0.4 ",
18+ "release": "0.5 ",
1919 "name": "Assembly-Hifi-Trio-phasing-VGP5",
2020 "report": {
2121 "markdown": "\n# Workflow Execution Report\n\nTime workflow was invoked:\n\n```galaxy\ninvocation_time()\n```\nGalaxy version :\n\n```galaxy\ngenerate_galaxy_version()\n```\n\n## Raw unitig graph\n\n```galaxy\nhistory_dataset_as_image(output=\"raw unitig graph image\")\n```\n\n## Merqury results\n\n### Merqury QV\n\n```galaxy\nhistory_dataset_as_table(output=merqury_stats)\n```\n\n### Merqury completeness\n\n```galaxy\nhistory_dataset_as_table(output=\"merqury_stats\")\n```\n\n### Merqury plots\n\n\nspectra-cn:\n\n\n```galaxy\nhistory_dataset_as_image(output=\"output_merqury.spectra-cn.fl\")\n```\n\nspectra-asm:\n\n```galaxy\nhistory_dataset_as_image(output=\"output_merqury.spectra-asm.fl\")\n```\n\n\nhap1 spectra-cn:\n\n\r\n```galaxy\nhistory_dataset_as_image(output=\"output_merqury.assembly_01.spectra-cn.fl\")\n```\r\n\n\nhap2 spectra-cn:\n\n```galaxy\nhistory_dataset_as_image(output=\"output_merqury.assembly_02.spectra-cn.fl\")\n```\n\n## BUSCO results (Vertebrata database)\n\nHap1\n\n```galaxy\nhistory_dataset_as_image(output=\"Busco Summary Image Hap1\")\n```\n\nHap2\n\n```galaxy\nhistory_dataset_as_image(output=\"Busco Summary Image Hap2\")\n```\n\n## Assembly statistics\n\n\n```galaxy\nhistory_dataset_as_table(output=\"clean_stats\")\n```\n\n\n## Nx and Size plots\n\n\n```galaxy\nhistory_dataset_as_image(output=\"Nx Plot\")\n```\n\n\n```galaxy\nhistory_dataset_as_image(output=\"Size Plot\")\n```\n\n\n\n## Current Workflow\n```galaxy\nworkflow_display()\n```\n"
464464 "output_name": "output"
465465 }
466466 },
467- "inputs": [],
467+ "inputs": [
468+ {
469+ "description": "runtime parameter for tool Cutadapt",
470+ "name": "library"
471+ }
472+ ],
468473 "label": null,
469474 "name": "Cutadapt",
470475 "outputs": [
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697702 "21": {
698703 "annotation": "",
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729734 "name": "multiqc",
730735 "owner": "iuc",
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733738 "tool_state": "{\"comment\": \"\", \"export\": false, \"flat\": false, \"results\": [{\"__index__\": 0, \"software_cond\": {\"software\": \"cutadapt\", \"__current_case__\": 5, \"input\": {\"__class__\": \"ConnectedValue\"}}}], \"saveLog\": \"false\", \"title\": \"\", \"__page__\": null, \"__rerun_remap_job_id__\": null}",
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737742 "when": null,
10311036 "output_name": "output"
10321037 }
10331038 },
1034- "inputs": [],
1039+ "inputs": [
1040+ {
1041+ "description": "runtime parameter for tool Hifiasm",
1042+ "name": "assembly_options"
1043+ },
1044+ {
1045+ "description": "runtime parameter for tool Hifiasm",
1046+ "name": "mode"
1047+ },
1048+ {
1049+ "description": "runtime parameter for tool Hifiasm",
1050+ "name": "mode"
1051+ }
1052+ ],
10351053 "label": null,
10361054 "name": "Hifiasm",
10371055 "outputs": [
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11921210 }
11931211 },
1194- "inputs": [],
1212+ "inputs": [
1213+ {
1214+ "description": "runtime parameter for tool gfastats",
1215+ "name": "mode_condition"
1216+ }
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11951218 "label": null,
11961219 "name": "gfastats",
11971220 "outputs": [
12551278 "output_name": "output"
12561279 }
12571280 },
1258- "inputs": [],
1281+ "inputs": [
1282+ {
1283+ "description": "runtime parameter for tool gfastats",
1284+ "name": "mode_condition"
1285+ }
1286+ ],
12591287 "label": null,
12601288 "name": "gfastats",
12611289 "outputs": [
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1375- "inputs": [],
1403+ "inputs": [
1404+ {
1405+ "description": "runtime parameter for tool gfastats",
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13761409 "label": null,
13771410 "name": "gfastats",
13781411 "outputs": [
14501483 "output_name": "output"
14511484 }
14521485 },
1453- "inputs": [],
1486+ "inputs": [
1487+ {
1488+ "description": "runtime parameter for tool gfastats",
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1490+ }
1491+ ],
14541492 "label": null,
14551493 "name": "gfastats",
14561494 "outputs": [
17281766 "output_name": "output"
17291767 }
17301768 },
1731- "inputs": [],
1769+ "inputs": [
1770+ {
1771+ "description": "runtime parameter for tool Busco",
1772+ "name": "lineage"
1773+ },
1774+ {
1775+ "description": "runtime parameter for tool Busco",
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17341781 "outputs": [
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1846- "inputs": [],
1893+ "inputs": [
1894+ {
1895+ "description": "runtime parameter for tool Busco",
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1899+ "description": "runtime parameter for tool Busco",
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18471903 "label": null,
18481904 "name": "Busco",
18491905 "outputs": [
19662022 "output_name": "output"
19672023 }
19682024 },
1969- "inputs": [],
2025+ "inputs": [
2026+ {
2027+ "description": "runtime parameter for tool Merqury",
2028+ "name": "mode"
2029+ },
2030+ {
2031+ "description": "runtime parameter for tool Merqury",
2032+ "name": "mode"
2033+ },
2034+ {
2035+ "description": "runtime parameter for tool Merqury",
2036+ "name": "mode"
2037+ }
2038+ ],
19702039 "label": null,
19712040 "name": "Merqury",
19722041 "outputs": [
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24682537 },
24692538 "tags": [],
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28512920 "tags": [],
2852- "uuid": "cd145237-3c4a-400d-90d4-9603f3098ce6 "
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37433812 "tags": [],
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39223991 "uuid": "bd09a130-801c-4cb8-b848-ab90b3161322",
39233992 "version": 3
3924- }
3993+ }
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