Merge pull request galaxyproject#380 from planemo-autoupdate/workflow…

…s/VGP-assembly-v2/Scaffolding-HiC-VGP8 Updating workflows/VGP-assembly-v2/Scaffolding-HiC-VGP8 from 0.2.2 to 0.2.3
Delphine-L · Apr 23, 2024 · 3f711cf · 3f711cf
2 parents 10d9a61 + 78cca49
commit 3f711cf
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diff --git a/workflows/VGP-assembly-v2/Scaffolding-HiC-VGP8/CHANGELOG.md b/workflows/VGP-assembly-v2/Scaffolding-HiC-VGP8/CHANGELOG.md
@@ -1,5 +1,11 @@
 # Changelog
 
+## [0.2.3] 2024-04-01
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1`
+- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy1`
+
 ## [0.2.2] 2024-02-05
 
 ### Manual update

diff --git a/workflows/VGP-assembly-v2/Scaffolding-HiC-VGP8/Scaffolding-HiC-VGP8.ga b/workflows/VGP-assembly-v2/Scaffolding-HiC-VGP8/Scaffolding-HiC-VGP8.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "CC-BY-4.0",
-    "release": "0.2.2",
+    "release": "0.2.3",
     "name": "Scaffolding-HiC-VGP8",
     "steps": {
         "0": {
@@ -24,7 +24,12 @@
             "errors": null,
             "id": 0,
             "input_connections": {},
-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "The input GFA must conform to gfa1.2 standards, i.e. should have 'P' lines defined. Output GFAs from assemblers can be run through a GFA-&gt;GFA conversion using gfastats to ensure this. \n",
+                    "name": "Input GFA"
+                }
+            ],
             "label": "Input GFA",
             "name": "Input dataset",
             "outputs": [],
@@ -1130,7 +1135,7 @@
             },
             "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.5.0+galaxy0",
             "tool_shed_repository": {
-                "changeset_revision": "2a5b8b9936bf",
+                "changeset_revision": "ea8146ee148f",
                 "name": "busco",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
@@ -1246,7 +1251,7 @@
                     },
                     "2": {
                         "annotation": "",
-                        "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0",
+                        "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1",
                         "errors": null,
                         "id": 2,
                         "input_connections": {
@@ -1275,15 +1280,15 @@
                                 "output_name": "outfile"
                             }
                         },
-                        "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0",
+                        "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1",
                         "tool_shed_repository": {
-                            "changeset_revision": "12615d397df7",
+                            "changeset_revision": "fbf99087e067",
                             "name": "text_processing",
                             "owner": "bgruening",
                             "tool_shed": "toolshed.g2.bx.psu.edu"
                         },
                         "tool_state": "{\"code\": \"{total += $2; $3 = total}1\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-                        "tool_version": "9.3+galaxy0",
+                        "tool_version": "9.3+galaxy1",
                         "type": "tool",
                         "uuid": "187c2b5d-e55c-42c1-b492-0b2a7322615c",
                         "when": null,
@@ -1516,7 +1521,7 @@
                     }
                 },
                 "tags": "",
-                "uuid": "c13eb98d-381a-456a-a7f7-75e880c19a17"
+                "uuid": "01589108-7e7f-40aa-8059-fdf5d526573c"
             },
             "tool_id": null,
             "type": "subworkflow",
@@ -1913,7 +1918,7 @@
         },
         "33": {
             "annotation": "",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy0",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy1",
             "errors": null,
             "id": 33,
             "input_connections": {
@@ -1944,15 +1949,15 @@
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                 }
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-            "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy0",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool/9.3+galaxy1",
             "tool_shed_repository": {
-                "changeset_revision": "12615d397df7",
+                "changeset_revision": "fbf99087e067",
                 "name": "text_processing",
                 "owner": "bgruening",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"header\": \"0\", \"ignore_case\": false, \"infile\": {\"__class__\": \"ConnectedValue\"}, \"sortkeys\": [{\"__index__\": 0, \"column\": \"4\", \"order\": \"\", \"style\": \"\"}], \"unique\": false, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "9.3+galaxy0",
+            "tool_version": "9.3+galaxy1",
             "type": "tool",
             "uuid": "88684eea-7e72-40e5-8410-d9d31a90792f",
             "when": null,