Skip to content

Commit 566226f

Browse files
author
planemo-autoupdate
committed
Updating workflows/VGP-assembly-v2/Assembly-Hifi-Trio-phasing-VGP5 from 0.4 to 0.5
1 parent b08cc14 commit 566226f

File tree

2 files changed

+92
-18
lines changed

2 files changed

+92
-18
lines changed

workflows/VGP-assembly-v2/Assembly-Hifi-Trio-phasing-VGP5/Assembly-Hifi-Trio-phasing-VGP5.ga

Lines changed: 87 additions & 18 deletions
Original file line numberDiff line numberDiff line change
@@ -15,7 +15,7 @@
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"
@@ -464,7 +464,12 @@
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": [
@@ -696,7 +701,7 @@
696701
},
697702
"21": {
698703
"annotation": "",
699-
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0",
704+
"content_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.27+galaxy0",
700705
"errors": null,
701706
"id": 21,
702707
"input_connections": {
@@ -723,15 +728,15 @@
723728
"top": 79.2265625
724729
},
725730
"post_job_actions": {},
726-
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0",
731+
"tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.27+galaxy0",
727732
"tool_shed_repository": {
728-
"changeset_revision": "f7e2f1eb3a16",
733+
"changeset_revision": "a7e081ceb76a",
729734
"name": "multiqc",
730735
"owner": "iuc",
731736
"tool_shed": "toolshed.g2.bx.psu.edu"
732737
},
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}",
734-
"tool_version": "1.24.1+galaxy0",
739+
"tool_version": "1.27+galaxy0",
735740
"type": "tool",
736741
"uuid": "b64b5b58-cf21-4fb6-af57-2e8a56e85142",
737742
"when": null,
@@ -1031,7 +1036,20 @@
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": [
@@ -1191,7 +1209,12 @@
11911209
"output_name": "output"
11921210
}
11931211
},
1194-
"inputs": [],
1212+
"inputs": [
1213+
{
1214+
"description": "runtime parameter for tool gfastats",
1215+
"name": "mode_condition"
1216+
}
1217+
],
11951218
"label": null,
11961219
"name": "gfastats",
11971220
"outputs": [
@@ -1255,7 +1278,12 @@
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": [
@@ -1372,7 +1400,12 @@
13721400
"output_name": "output"
13731401
}
13741402
},
1375-
"inputs": [],
1403+
"inputs": [
1404+
{
1405+
"description": "runtime parameter for tool gfastats",
1406+
"name": "mode_condition"
1407+
}
1408+
],
13761409
"label": null,
13771410
"name": "gfastats",
13781411
"outputs": [
@@ -1450,7 +1483,12 @@
14501483
"output_name": "output"
14511484
}
14521485
},
1453-
"inputs": [],
1486+
"inputs": [
1487+
{
1488+
"description": "runtime parameter for tool gfastats",
1489+
"name": "mode_condition"
1490+
}
1491+
],
14541492
"label": null,
14551493
"name": "gfastats",
14561494
"outputs": [
@@ -1728,7 +1766,16 @@
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",
1776+
"name": "lineage_conditional"
1777+
}
1778+
],
17321779
"label": null,
17331780
"name": "Busco",
17341781
"outputs": [
@@ -1843,7 +1890,16 @@
18431890
"output_name": "output"
18441891
}
18451892
},
1846-
"inputs": [],
1893+
"inputs": [
1894+
{
1895+
"description": "runtime parameter for tool Busco",
1896+
"name": "lineage"
1897+
},
1898+
{
1899+
"description": "runtime parameter for tool Busco",
1900+
"name": "lineage_conditional"
1901+
}
1902+
],
18471903
"label": null,
18481904
"name": "Busco",
18491905
"outputs": [
@@ -1966,7 +2022,20 @@
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": [
@@ -2467,7 +2536,7 @@
24672536
}
24682537
},
24692538
"tags": [],
2470-
"uuid": "857e24f8-fb7a-4a3f-a55c-aea22e32a282"
2539+
"uuid": "45a56829-3c02-421f-bd8e-33571a6551bb"
24712540
},
24722541
"tool_id": null,
24732542
"type": "subworkflow",
@@ -2849,7 +2918,7 @@
28492918
}
28502919
},
28512920
"tags": [],
2852-
"uuid": "cd145237-3c4a-400d-90d4-9603f3098ce6"
2921+
"uuid": "31ca169e-9cb6-4e38-b356-8ced1da32bf3"
28532922
},
28542923
"tool_id": null,
28552924
"type": "subworkflow",
@@ -3741,7 +3810,7 @@
37413810
}
37423811
},
37433812
"tags": [],
3744-
"uuid": "37bb5ce3-a485-4340-b37a-7f3ab5c655fa"
3813+
"uuid": "8cc09c34-e184-4acc-bc4c-7242f362e838"
37453814
},
37463815
"tool_id": null,
37473816
"type": "subworkflow",
@@ -3921,4 +3990,4 @@
39213990
],
39223991
"uuid": "bd09a130-801c-4cb8-b848-ab90b3161322",
39233992
"version": 3
3924-
}
3993+
}

workflows/VGP-assembly-v2/Assembly-Hifi-Trio-phasing-VGP5/CHANGELOG.md

Lines changed: 5 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1,5 +1,10 @@
11
# Changelog
22

3+
## [0.5] 2025-01-27
4+
5+
### Automatic update
6+
- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.24.1+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.27+galaxy0`
7+
38
## [0.4] 2024-12-16
49

510
### Automatic update

0 commit comments

Comments
 (0)