changeset 5:04f9c20fecf8 draft

planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/workflows/amrplusplus commit c9b00ed961b62f1825feeeb757c283c949a9bce9-dirty
author chrisd
date Wed, 22 Jun 2016 00:27:14 -0400
parents d1896971200b
children 86dc721b6860
files README.rst amrplusplus_pe.ga amrplusplus_workflow.ga repository_dependencies.xml workflow.jpeg
diffstat 5 files changed, 599 insertions(+), 549 deletions(-) [+]
line wrap: on
line diff
--- a/README.rst	Sun Mar 27 02:42:55 2016 -0400
+++ b/README.rst	Wed Jun 22 00:27:14 2016 -0400
@@ -1,7 +1,9 @@
 What is this?
 =============
 
-This is a suite that contains a collection of tools which can be used to analyze metagenomic sequence data.
+A suite that contains a collection of tools and workflows which can be used to identify and characterize resistance and virulence genes.
+
+.. image:: https://raw.githubusercontent.com/cdeanj/galaxytools/master/workflows/amrplusplus/workflow.jpeg
 
 Availability
 ============
--- a/amrplusplus_pe.ga	Sun Mar 27 02:42:55 2016 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,547 +0,0 @@
-{
-    "a_galaxy_workflow": "true", 
-    "annotation": "", 
-    "format-version": "0.1", 
-    "name": "amrplusplus_wf_pe", 
-    "steps": {
-        "0": {
-            "annotation": "", 
-            "content_id": null, 
-            "id": 0, 
-            "input_connections": {}, 
-            "inputs": [
-                {
-                    "description": "", 
-                    "name": "Input Dataset"
-                }
-            ], 
-            "label": "AMR Database", 
-            "name": "Input dataset", 
-            "outputs": [], 
-            "position": {
-                "left": 200, 
-                "top": 200
-            }, 
-            "tool_errors": null, 
-            "tool_id": null, 
-            "tool_state": "{\"name\": \"Input Dataset\"}", 
-            "tool_version": null, 
-            "type": "data_input", 
-            "uuid": "c33b3302-86dd-4020-920b-e91904994b0b", 
-            "workflow_outputs": []
-        }, 
-        "1": {
-            "annotation": "", 
-            "content_id": null, 
-            "id": 1, 
-            "input_connections": {}, 
-            "inputs": [
-                {
-                    "description": "", 
-                    "name": "Input Dataset"
-                }
-            ], 
-            "label": "Host Genome", 
-            "name": "Input dataset", 
-            "outputs": [], 
-            "position": {
-                "left": 200, 
-                "top": 285
-            }, 
-            "tool_errors": null, 
-            "tool_id": null, 
-            "tool_state": "{\"name\": \"Input Dataset\"}", 
-            "tool_version": null, 
-            "type": "data_input", 
-            "uuid": "828c1738-4db6-4548-89b8-85e68a00491a", 
-            "workflow_outputs": []
-        }, 
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-            "annotation": "", 
-            "content_id": null, 
-            "id": 2, 
-            "input_connections": {}, 
-            "inputs": [
-                {
-                    "description": "", 
-                    "name": "Input Dataset"
-                }
-            ], 
-            "label": "FastQ Forward", 
-            "name": "Input dataset", 
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-                "top": 370
-            }, 
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-            "tool_id": null, 
-            "tool_state": "{\"name\": \"Input Dataset\"}", 
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-            "uuid": "1956acf3-af87-497d-bced-1dc18003b4ee", 
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-            "inputs": [
-                {
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-                    "name": "Input Dataset"
-                }
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-            "label": "FastQ Reverse", 
-            "name": "Input dataset", 
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-                "top": 455
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-            "tool_id": null, 
-            "tool_state": "{\"name\": \"Input Dataset\"}", 
-            "tool_version": null, 
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-            "uuid": "0e020fbd-697d-4ebc-bd3d-0b45d5104b44", 
-            "workflow_outputs": []
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-            "id": 4, 
-            "input_connections": {
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-                    "id": 3, 
-                    "output_name": "output"
-                }
-            }, 
-            "inputs": [], 
-            "label": null, 
-            "name": "Trimmomatic", 
-            "outputs": [
-                {
-                    "name": "fastq_out_paired", 
-                    "type": "input"
-                }, 
-                {
-                    "name": "fastq_out_unpaired", 
-                    "type": "input"
-                }, 
-                {
-                    "name": "fastq_out_r1_paired", 
-                    "type": "fastqsanger"
-                }, 
-                {
-                    "name": "fastq_out_r2_paired", 
-                    "type": "fastqsanger"
-                }, 
-                {
-                    "name": "fastq_out_r1_unpaired", 
-                    "type": "fastqsanger"
-                }, 
-                {
-                    "name": "fastq_out_r2_unpaired", 
-                    "type": "fastqsanger"
-                }, 
-                {
-                    "name": "fastq_out", 
-                    "type": "fastqsanger"
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-                "top": 200
-            }, 
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\ No newline at end of file
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/amrplusplus_workflow.ga	Wed Jun 22 00:27:14 2016 -0400
@@ -0,0 +1,595 @@
+{
+    "a_galaxy_workflow": "true", 
+    "annotation": "", 
+    "format-version": "0.1", 
+    "name": "aa", 
+    "steps": {
+        "0": {
+            "annotation": "", 
+            "content_id": null, 
+            "id": 0, 
+            "input_connections": {}, 
+            "inputs": [
+                {
+                    "description": "", 
+                    "name": "FASTQ Forward"
+                }
+            ], 
+            "label": "FASTQ Forward", 
+            "name": "Input dataset", 
+            "outputs": [], 
+            "position": {
+                "left": 252, 
+                "top": 323
+            }, 
+            "tool_errors": null, 
+            "tool_id": null, 
+            "tool_state": "{\"name\": \"FASTQ Forward\"}", 
+            "tool_version": null, 
+            "type": "data_input", 
+            "uuid": "9c1f5852-9697-40e2-bc6f-7ac65ad647ce", 
+            "workflow_outputs": []
+        }, 
+        "1": {
+            "annotation": "", 
+            "content_id": null, 
+            "id": 1, 
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\ No newline at end of file
--- a/repository_dependencies.xml	Sun Mar 27 02:42:55 2016 -0400
+++ b/repository_dependencies.xml	Wed Jun 22 00:27:14 2016 -0400
@@ -1,4 +1,4 @@
 <?xml version="1.0"?>
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+    <repository changeset_revision="29818e0c3fb5" name="amrplusplus_suite" owner="chrisd" toolshed="https://toolshed.g2.bx.psu.edu" />
 </repositories>
Binary file workflow.jpeg has changed