Mercurial > repos > eschen42 > mqppep_anova

changeset 20:1de24bf8867c draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/mqppep commit 927072b0b837f0ebed0def50eb677581af516140"
author eschen42
date Wed, 06 Apr 2022 20:09:36 +0000
parents 131cbc7dcc55
children f3deca1a3c84
files macros.xml workflow/ppenrich_suite_wf.ga
diffstat 2 files changed, 252 insertions(+), 185 deletions(-) [+]
line wrap: on
line diff
--- a/macros.xml	Wed Apr 06 19:20:42 2022 +0000
+++ b/macros.xml	Wed Apr 06 20:09:36 2022 +0000
@@ -1,5 +1,5 @@
 <macros>
-    <token name="@TOOL_VERSION@">0.1.10</token>
+    <token name="@TOOL_VERSION@">0.1.11</token>
     <token name="@VERSION_SUFFIX@">0</token>
     <xml name="requirements">
         <requirements>
--- a/workflow/ppenrich_suite_wf.ga	Wed Apr 06 19:20:42 2022 +0000
+++ b/workflow/ppenrich_suite_wf.ga	Wed Apr 06 20:09:36 2022 +0000
@@ -28,27 +28,65 @@
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+                    "name": "enrichmentType"
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+                    "uuid": "52c88bda-4863-47e1-afb0-46839fb1b601"
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                     "label": "ppep_intensities",
                     "output_name": "phosphoPepIntensities",
-                    "uuid": "25f871f9-6017-4209-ab8b-4551f3d34a79"
+                    "uuid": "b1729d3e-b934-4e7e-a38f-23d963df3c22"
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@@ -651,15 +700,24 @@
                     "output_name": "preproc_tab"
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+                    "description": "runtime parameter for tool MaxQuant Phosphopeptide ANOVA",
+                    "name": "alpha_file"
+                },
+                {
+                    "description": "runtime parameter for tool MaxQuant Phosphopeptide ANOVA",
+                    "name": "input_file"
+                }
+            ],
             "label": "ANOVA group-median imputed",
             "name": "MaxQuant Phosphopeptide ANOVA",
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@@ -677,14 +735,14 @@
                 }
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@@ -710,31 +768,31 @@
                 }
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-            "tool_state": "{\"alpha_file\": {\"__class__\": \"ConnectedValue\"}, \"imputation\": {\"imputation_method\": \"group-median\", \"__current_case__\": 0}, \"input_file\": {\"__class__\": \"ConnectedValue\"}, \"intensity_column_regex\": \"^Intensity[^_]\", \"sample_grouping_regex\": {\"__class__\": \"ConnectedValue\"}, \"sample_names_regex\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_state": "{\"alpha_file\": {\"__class__\": \"RuntimeValue\"}, \"imputation\": {\"imputation_method\": \"group-median\", \"__current_case__\": 0}, \"input_file\": {\"__class__\": \"RuntimeValue\"}, \"intensity_column_regex\": \"^Intensity[^_]\", \"sample_grouping_regex\": {\"__class__\": \"ConnectedValue\"}, \"sample_names_regex\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
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                 {
                     "label": "intensities_group-mean-imputed_QN_LT",
                     "output_name": "imp_qn_lt_file",
-                    "uuid": "61a62d74-1026-43ee-80f2-8c3905ebdeb5"
+                    "uuid": "3ad9495d-0b38-4527-a0bf-7b2c62eb9dc9"
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                     "output_name": "imputed_data_file",
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+                    "uuid": "933baff0-3c19-4363-822c-2bce5d436ac1"
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                     "output_name": "report_file",
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+                    "uuid": "792cacc0-e202-44e4-9048-9e1186ea5ba9"
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             "annotation": "Perform ANOVA. For imputing missing values, create random values.",
-            "content_id": "mqppep_anova",
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@@ -747,15 +805,24 @@
                     "output_name": "preproc_tab"
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                     "output_name": "output"
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+                    "id": 3,
                     "output_name": "output"
                 }
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-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "runtime parameter for tool MaxQuant Phosphopeptide ANOVA",
+                    "name": "alpha_file"
+                },
+                {
+                    "description": "runtime parameter for tool MaxQuant Phosphopeptide ANOVA",
+                    "name": "input_file"
+                }
+            ],
             "label": "MaxQuant Phosphopeptide ANOVA randomly imputed",
             "name": "MaxQuant Phosphopeptide ANOVA",
             "outputs": [
@@ -773,14 +840,14 @@
                 }
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                 "RenameDatasetActionimp_qn_lt_file": {
@@ -806,25 +873,25 @@
                 }
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             "tool_id": "mqppep_anova",
-            "tool_state": "{\"alpha_file\": {\"__class__\": \"ConnectedValue\"}, \"imputation\": {\"imputation_method\": \"random\", \"__current_case__\": 3, \"meanPercentile\": \"1\", \"sdPercentile\": \"1.0\"}, \"input_file\": {\"__class__\": \"ConnectedValue\"}, \"intensity_column_regex\": \"^Intensity[^_]\", \"sample_grouping_regex\": {\"__class__\": \"ConnectedValue\"}, \"sample_names_regex\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_state": "{\"alpha_file\": {\"__class__\": \"RuntimeValue\"}, \"imputation\": {\"imputation_method\": \"random\", \"__current_case__\": 3, \"meanPercentile\": \"1\", \"sdPercentile\": \"1.0\"}, \"input_file\": {\"__class__\": \"RuntimeValue\"}, \"intensity_column_regex\": \"^Intensity[^_]\", \"sample_grouping_regex\": {\"__class__\": \"ConnectedValue\"}, \"sample_names_regex\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
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-            "uuid": "b239a226-854c-4fbc-8955-cadd968f0704",
+            "uuid": "e71562a7-c941-429d-99a8-e14721df3670",
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                     "label": "intensities_randomly-imputed",
                     "output_name": "imputed_data_file",
-                    "uuid": "8e403d6c-8f47-4f78-addd-da8923695135"
+                    "uuid": "e27c540b-07d0-496f-8b11-b4c1472dce12"
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+                    "uuid": "abe2dbf4-956d-4625-a0e1-ad1c6c988a7c"
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                     "output_name": "imp_qn_lt_file",
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@@ -832,6 +899,6 @@
     "tags": [
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 }