Repository 'sniplay_workflow'
hg clone https://toolshed.g2.bx.psu.edu/repos/gandres/sniplay_workflow

Changeset 1:6c3581822cad (2015-10-14)
Previous changeset 0:66cb91afe9ea (2015-09-23) Next changeset 2:142784232700 (2015-10-14)
Commit message:
Uploaded
added:
Galaxy-Workflow-SNiPlay_Workflow.ga
b
diff -r 66cb91afe9ea -r 6c3581822cad Galaxy-Workflow-SNiPlay_Workflow.ga
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/Galaxy-Workflow-SNiPlay_Workflow.ga Wed Oct 14 05:31:37 2015 -0400
[
b'@@ -0,0 +1,728 @@\n+{\n+    "a_galaxy_workflow": "true", \n+    "annotation": "", \n+    "format-version": "0.1", \n+    "name": "SNiPlay Workflow", \n+    "steps": {\n+        "0": {\n+            "annotation": "", \n+            "id": 0, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "Input Dataset"\n+                }\n+            ], \n+            "label": null, \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 200, \n+                "top": 200\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"Input Dataset\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": [], \n+            "uuid": "156cb9d1-fff4-4c22-8eb8-6c7e8b6f891c"\n+        }, \n+        "1": {\n+            "annotation": "", \n+            "id": 1, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "Input Dataset"\n+                }\n+            ], \n+            "label": null, \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 200, \n+                "top": 320\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"Input Dataset\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": [], \n+            "uuid": "4005036f-e5fd-4f8b-8eac-68d0872a77e4"\n+        }, \n+        "2": {\n+            "annotation": "", \n+            "id": 2, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "Input Dataset"\n+                }\n+            ], \n+            "label": null, \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 200, \n+                "top": 440\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"Input Dataset\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": [], \n+            "uuid": "6088050b-e81a-4f1a-8e38-192974d0c711"\n+        }, \n+        "3": {\n+            "annotation": "", \n+            "id": 3, \n+            "input_connections": {\n+                "genome": {\n+                    "id": 1, \n+                    "output_name": "output"\n+                }, \n+                "gff": {\n+                    "id": 2, \n+                    "output_name": "output"\n+                }, \n+                "vcf": {\n+                    "id": 0, \n+                    "output_name": "output"\n+                }\n+            }, \n+            "inputs": [], \n+            "label": null, \n+            "name": "SnpEff", \n+            "outputs": [\n+                {\n+                    "name": "output", \n+                    "type": "vcf"\n+                }, \n+                {\n+                    "name": "statsFile", \n+                    "type": "html"\n+                }, \n+                {\n+                    "name": "log", \n+                    "type": "txt"\n+                }\n+            ], \n+            "position": {\n+                "left": 424, \n+                "top": 111\n+            }, \n+            "post_job_actions": {}, \n+            "tool_errors": null, \n+            "tool_id": "toolshed.g2.bx.psu.edu/repos/dereeper/snpeff_from_gff_vcf/snpEff/4.0", \n+            "tool_state": "{\\"__page__\\": 0, \\"vcf\\": \\"null\\", \\"gff\\": \\"null\\", \\"__rerun_remap_job_id__\\": null, \\"__workflow_invocation_uuid__\\": \\"\\\\\\"c1041690638511e584e3005056887438\\\\\\"\\", \\"genome\\": \\"null\\", \\"chromInfo\\": \\"\\\\\\"/w/galax'..b'": [\n+                {\n+                    "name": "fileout_log", \n+                    "type": "txt"\n+                }, \n+                {\n+                    "name": "fileout", \n+                    "type": "txt"\n+                }\n+            ], \n+            "position": {\n+                "left": 1520, \n+                "top": 320\n+            }, \n+            "post_job_actions": {}, \n+            "tool_errors": null, \n+            "tool_id": "toolshed.g2.bx.psu.edu/repos/gandres/readseq/sniplay_readseq/1.0.2", \n+            "tool_state": "{\\"__page__\\": 0, \\"format\\": \\"\\\\\\"12\\\\\\"\\", \\"__rerun_remap_job_id__\\": null, \\"__workflow_invocation_uuid__\\": \\"\\\\\\"c1041690638511e584e3005056887438\\\\\\"\\", \\"fileout_label\\": \\"\\\\\\"phylip conversion\\\\\\"\\", \\"filein\\": \\"null\\", \\"chromInfo\\": \\"\\\\\\"/w/galaxy/galaxy4gwen/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\\\\"\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": [], \n+            "uuid": "b9dff56a-5a08-47e3-9f89-1cffb294230c"\n+        }, \n+        "17": {\n+            "annotation": "", \n+            "id": 17, \n+            "input_connections": {\n+                "input_data": {\n+                    "id": 16, \n+                    "output_name": "fileout_log"\n+                }\n+            }, \n+            "inputs": [], \n+            "label": null, \n+            "name": "FastME", \n+            "outputs": [\n+                {\n+                    "name": "fileout_log", \n+                    "type": "txt"\n+                }, \n+                {\n+                    "name": "fileout", \n+                    "type": "txt"\n+                }\n+            ], \n+            "position": {\n+                "left": 1740, \n+                "top": 200\n+            }, \n+            "post_job_actions": {}, \n+            "tool_errors": null, \n+            "tool_id": "toolshed.g2.bx.psu.edu/repos/gandres/fastme/sniplay_fastme/1.0.2", \n+            "tool_state": "{\\"distance\\": \\"\\\\\\"I\\\\\\"\\", \\"__page__\\": 0, \\"__rerun_remap_job_id__\\": null, \\"__workflow_invocation_uuid__\\": \\"\\\\\\"c1041690638511e584e3005056887438\\\\\\"\\", \\"fileout_label\\": \\"\\\\\\"Newick tree\\\\\\"\\", \\"input_data\\": \\"null\\", \\"model\\": \\"\\\\\\"4\\\\\\"\\", \\"chromInfo\\": \\"\\\\\\"/w/galaxy/galaxy4gwen/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\\\\"\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": [], \n+            "uuid": "0fd8a01b-9dd4-4347-a68c-6c7c4c6c077b"\n+        }, \n+        "18": {\n+            "annotation": "", \n+            "id": 18, \n+            "input_connections": {\n+                "filein": {\n+                    "id": 17, \n+                    "output_name": "fileout"\n+                }\n+            }, \n+            "inputs": [], \n+            "label": null, \n+            "name": "Rooting", \n+            "outputs": [\n+                {\n+                    "name": "fileout_log", \n+                    "type": "txt"\n+                }, \n+                {\n+                    "name": "fileout", \n+                    "type": "txt"\n+                }\n+            ], \n+            "position": {\n+                "left": 1960, \n+                "top": 200\n+            }, \n+            "post_job_actions": {}, \n+            "tool_errors": null, \n+            "tool_id": "toolshed.g2.bx.psu.edu/repos/dereeper/sniplay/sniplay_rooting/1.0.2", \n+            "tool_state": "{\\"__page__\\": 0, \\"__rerun_remap_job_id__\\": null, \\"__workflow_invocation_uuid__\\": \\"\\\\\\"c1041690638511e584e3005056887438\\\\\\"\\", \\"fileout_label\\": \\"\\\\\\"out tree\\\\\\"\\", \\"filein\\": \\"null\\", \\"chromInfo\\": \\"\\\\\\"/w/galaxy/galaxy4gwen/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\\\\"\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": [], \n+            "uuid": "a3bf63b2-f630-438c-8bdb-4800dbf0c84d"\n+        }\n+    }, \n+    "uuid": "787a27ea-111f-4e9b-b3e9-a649b0d41af8"\n+}\n\\ No newline at end of file\n'