changeset 0:ec32f7039106 draft default tip

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/gcc2016_tutorial commit 078c2920db4203a2b7525fd819716507e9346546-dirty
author galaxyp
date Fri, 17 Jun 2016 15:29:03 -0400
parents
children
files Workflow_1_for_GCC_2016_iTRAQ_Search.ga Workflow_2_for_GCC_2016.ga repository_dependencies.xml
diffstat 3 files changed, 1635 insertions(+), 0 deletions(-) [+]
line wrap: on
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Workflow_1_for_GCC_2016_iTRAQ_Search.ga	Fri Jun 17 15:29:03 2016 -0400
@@ -0,0 +1,401 @@
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Workflow_2_for_GCC_2016.ga	Fri Jun 17 15:29:03 2016 -0400
@@ -0,0 +1,1219 @@
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+                    "id": 32, 
+                    "output_name": "out_file1"
+                }, 
+                "translated_bed": {
+                    "id": 1, 
+                    "output_name": "output"
+                }
+            }, 
+            "inputs": [], 
+            "label": null, 
+            "name": "Map peptides to a bed file", 
+            "outputs": [
+                {
+                    "name": "mapped_peptides", 
+                    "type": "bed"
+                }
+            ], 
+            "position": {
+                "left": 6057.5, 
+                "top": 269
+            }, 
+            "post_job_actions": {}, 
+            "tool_errors": null, 
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/map_peptides_to_bed/map_peptides_to_bed/0.1.0", 
+            "tool_state": "{\"translated_bed\": \"null\", \"__page__\": 0, \"name_column\": \"\\\"2\\\"\", \"__rerun_remap_job_id__\": null, \"gffTags\": \"\\\"True\\\"\", \"input\": \"null\", \"start_column\": \"null\", \"peptide_column\": \"\\\"3\\\"\"}", 
+            "tool_version": null, 
+            "type": "tool", 
+            "uuid": "adde3db1-8638-4665-8fb4-cda1bb072afd", 
+            "workflow_outputs": [
+                {
+                    "label": null, 
+                    "output_name": "mapped_peptides", 
+                    "uuid": "2fb4bf92-ebb6-434d-8419-27d2a4fda0f1"
+                }
+            ]
+        }, 
+        "34": {
+            "annotation": "", 
+            "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/map_peptides_to_bed/map_peptides_to_bed/0.1.0", 
+            "id": 34, 
+            "input_connections": {
+                "input": {
+                    "id": 32, 
+                    "output_name": "out_file1"
+                }, 
+                "translated_bed": {
+                    "id": 2, 
+                    "output_name": "output"
+                }
+            }, 
+            "inputs": [], 
+            "label": null, 
+            "name": "Map peptides to a bed file", 
+            "outputs": [
+                {
+                    "name": "mapped_peptides", 
+                    "type": "bed"
+                }
+            ], 
+            "position": {
+                "left": 6103.5, 
+                "top": 500
+            }, 
+            "post_job_actions": {}, 
+            "tool_errors": null, 
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/map_peptides_to_bed/map_peptides_to_bed/0.1.0", 
+            "tool_state": "{\"translated_bed\": \"null\", \"__page__\": 0, \"name_column\": \"\\\"2\\\"\", \"__rerun_remap_job_id__\": null, \"gffTags\": \"\\\"True\\\"\", \"input\": \"null\", \"start_column\": \"null\", \"peptide_column\": \"\\\"3\\\"\"}", 
+            "tool_version": null, 
+            "type": "tool", 
+            "uuid": "3d662ced-aea0-44e5-b2c2-3549a947d6f4", 
+            "workflow_outputs": [
+                {
+                    "label": null, 
+                    "output_name": "mapped_peptides", 
+                    "uuid": "bc075177-e214-444d-9141-d60c1a77e8eb"
+                }
+            ]
+        }
+    }, 
+    "uuid": "43c7ff8f-007b-4c15-b8df-ed362012f8b5"
+}
\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/repository_dependencies.xml	Fri Jun 17 15:29:03 2016 -0400
@@ -0,0 +1,15 @@
+<?xml version="1.0"?>
+<repositories description="This workflow requires a number of different repositories.">
+    <repository changeset_revision="a51980bc0ffe" name="blast_plus_remote_blastp" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="5da5dcc5e13a" name="blastxml_to_tabular_selectable" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="626658afe4cb" name="column_maker" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="b39347891609" name="dbbuilder" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="de2db1bdfbf8" name="fasta_compute_length" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="c8cd0a03db49" name="fasta_filter_by_length" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="2904d46167da" name="fasta_merge_files_and_filter_unique_sequences" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="db90662d26f9" name="map_peptides_to_bed" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="ab33bd49de43" name="mz_to_sqlite" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="78fad25eff17" name="peptideshaker" owner="galaxyp" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="9ea374bb0350" name="regex_find_replace" owner="jjohnson" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="0b4e36026794" name="tabular_to_fasta" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+</repositories>