Skip to content

Commit

Permalink
Merge pull request #267 from planemo-autoupdate/workflows/VGP-assembl…
Browse files Browse the repository at this point in the history
…y-v2/Assembly-decontamination-VGP9

Updating workflows/VGP-assembly-v2/Assembly-decontamination-VGP9 from 0.1 to 0.2
  • Loading branch information
mvdbeek authored Nov 13, 2023
2 parents 35ded53 + dc703ad commit 587cc10
Show file tree
Hide file tree
Showing 2 changed files with 17 additions and 16 deletions.
Original file line number Diff line number Diff line change
Expand Up @@ -10,7 +10,7 @@
],
"format-version": "0.1",
"license": "BSD-3-Clause",
"release": "0.1",
"release": "0.1.1",
"name": "Assembly-decontamination-VGP9",
"steps": {
"0": {
Expand Down Expand Up @@ -116,7 +116,7 @@
},
"3": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.10.1+galaxy2",
"content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.14.1+galaxy0",
"errors": null,
"id": 3,
"input_connections": {
Expand All @@ -139,15 +139,15 @@
"top": 176.06640625
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.10.1+galaxy2",
"tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.14.1+galaxy0",
"tool_shed_repository": {
"changeset_revision": "0e3cf9594bb7",
"changeset_revision": "a52d2d93e595",
"name": "ncbi_blast_plus",
"owner": "devteam",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"db_opts\": {\"db_opts_selector\": \"file\", \"__current_case__\": 2, \"database\": \"\", \"histdb\": \"\", \"subject\": {\"__class__\": \"ConnectedValue\"}}, \"level\": \"40\", \"linker\": \"1\", \"outformat\": \"fasta\", \"window\": \"64\", \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.10.1+galaxy2",
"tool_version": "2.14.1+galaxy0",
"type": "tool",
"uuid": "903a13af-2be0-48a9-8355-1e2486d857cf",
"when": null,
Expand Down Expand Up @@ -265,7 +265,7 @@
},
"6": {
"annotation": "",
"content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy2",
"content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.14.1+galaxy0",
"errors": null,
"id": 6,
"input_connections": {
Expand All @@ -274,12 +274,7 @@
"output_name": "output"
}
},
"inputs": [
{
"description": "runtime parameter for tool NCBI BLAST+ blastn",
"name": "query"
}
],
"inputs": [],
"label": "blast mitochondria DB",
"name": "NCBI BLAST+ blastn",
"outputs": [
Expand All @@ -293,15 +288,15 @@
"top": 392.03515625
},
"post_job_actions": {},
"tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy2",
"tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.14.1+galaxy0",
"tool_shed_repository": {
"changeset_revision": "0e3cf9594bb7",
"changeset_revision": "a52d2d93e595",
"name": "ncbi_blast_plus",
"owner": "devteam",
"tool_shed": "toolshed.g2.bx.psu.edu"
},
"tool_state": "{\"adv_opts\": {\"adv_opts_selector\": \"basic\", \"__current_case__\": 0}, \"blast_type\": \"blastn\", \"db_opts\": {\"db_opts_selector\": \"db\", \"__current_case__\": 0, \"database\": [\"refseq_mitochondrion\"], \"histdb\": \"\", \"subject\": \"\"}, \"evalue_cutoff\": \"0.001\", \"output\": {\"out_format\": \"cols\", \"__current_case__\": 2, \"std_cols\": [\"qseqid\", \"sseqid\", \"length\", \"qstart\", \"qend\", \"evalue\"], \"ext_cols\": [\"qlen\"], \"ids_cols\": null, \"misc_cols\": [\"qcovs\", \"qcovhsp\"], \"tax_cols\": null}, \"query\": {\"__class__\": \"RuntimeValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.10.1+galaxy2",
"tool_state": "{\"adv_opts\": {\"adv_opts_selector\": \"basic\", \"__current_case__\": 0}, \"blast_type\": \"blastn\", \"db_opts\": {\"db_opts_selector\": \"db\", \"__current_case__\": 0, \"database\": [\"refseq_mitochondrion\"], \"histdb\": \"\", \"subject\": \"\"}, \"evalue_cutoff\": \"0.001\", \"output\": {\"out_format\": \"cols\", \"__current_case__\": 2, \"std_cols\": [\"qseqid\", \"sseqid\", \"length\", \"qstart\", \"qend\", \"evalue\"], \"ext_cols\": [\"qlen\"], \"ids_cols\": null, \"misc_cols\": [\"qcovs\", \"qcovhsp\"], \"tax_cols\": null}, \"query\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.14.1+galaxy0",
"type": "tool",
"uuid": "1737bad0-48d9-489e-9a45-d6f3d3fcb900",
"when": null,
Expand Down
Original file line number Diff line number Diff line change
@@ -1,5 +1,11 @@
# Changelog

## [0.1.1] 2023-11-09

### Automatic update
- `toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.10.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_dustmasker_wrapper/2.14.1+galaxy0`
- `toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy2` was updated to `toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.14.1+galaxy0`

## [0.1] - 2023-11-07

- Creation of workflow for Assembly decontamination

0 comments on commit 587cc10

Please sign in to comment.