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

Changeset 0:66cb91afe9ea (2015-09-23)
Next changeset 1:6c3581822cad (2015-10-14)
Commit message:
Uploaded
added:
Galaxy-Workflow-SNiPlay_workflow_final.ga
b
diff -r 000000000000 -r 66cb91afe9ea Galaxy-Workflow-SNiPlay_workflow_final.ga
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/Galaxy-Workflow-SNiPlay_workflow_final.ga Wed Sep 23 11:09:10 2015 -0400
[
b'@@ -0,0 +1,653 @@\n+{\n+    "a_galaxy_workflow": "true", \n+    "annotation": "", \n+    "format-version": "0.1", \n+    "name": "SNiPlay_workflow_final", \n+    "steps": {\n+        "0": {\n+            "annotation": "", \n+            "id": 0, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "VCF"\n+                }\n+            ], \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 253.63333129882812, \n+                "top": 239.61666870117188\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"VCF\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": []\n+        }, \n+        "1": {\n+            "annotation": "", \n+            "id": 1, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "Fasta"\n+                }\n+            ], \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 223.63333129882812, \n+                "top": 417.6166687011719\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"Fasta\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": []\n+        }, \n+        "2": {\n+            "annotation": "", \n+            "id": 2, \n+            "input_connections": {}, \n+            "inputs": [\n+                {\n+                    "description": "", \n+                    "name": "GFF"\n+                }\n+            ], \n+            "name": "Input dataset", \n+            "outputs": [], \n+            "position": {\n+                "left": 306.63330078125, \n+                "top": 580.61669921875\n+            }, \n+            "tool_errors": null, \n+            "tool_id": null, \n+            "tool_state": "{\\"name\\": \\"GFF\\"}", \n+            "tool_version": null, \n+            "type": "data_input", \n+            "user_outputs": []\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+            "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": 563.63330078125, \n+                "top": 156.61666870117188\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, \\"__rerun_remap_job_id__\\": null, \\"gff\\": \\"null\\", \\"genome\\": \\"null\\", \\"vcf\\": \\"null\\"}", \n+            "tool_version": "4.0", \n+            "type": "tool", \n+            "user_outputs": []\n+        }, \n+        "4": {\n+            "annotation": "", \n+            "id": 4, \n+            "input_connections": {\n+                "input": {\n+                    "id": 3, \n+                    "output_name": "output"\n+                }\n+     '..b'         }, \n+            "post_job_actions": {}, \n+            "tool_errors": null, \n+            "tool_id": "toolshed.g2.bx.psu.edu/repos/dereeper/admixture/admixture/1.23", \n+            "tool_state": "{\\"__page__\\": 0, \\"bim\\": \\"null\\", \\"__rerun_remap_job_id__\\": null, \\"kmin\\": \\"\\\\\\"1\\\\\\"\\", \\"bed\\": \\"null\\", \\"kmax\\": \\"\\\\\\"5\\\\\\"\\", \\"fam\\": \\"null\\"}", \n+            "tool_version": "1.23", \n+            "type": "tool", \n+            "user_outputs": []\n+        }, \n+        "15": {\n+            "annotation": "", \n+            "id": 15, \n+            "input_connections": {\n+                "filein": {\n+                    "id": 11, \n+                    "output_name": "fileout"\n+                }\n+            }, \n+            "inputs": [], \n+            "name": "Readseq", \n+            "outputs": [\n+                {\n+                    "name": "fileout_log", \n+                    "type": "txt"\n+                }, \n+                {\n+                    "name": "fileout", \n+                    "type": "txt"\n+                }\n+            ], \n+            "position": {\n+                "left": 1734, \n+                "top": 1156.75\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": "{\\"fileout_label\\": \\"\\\\\\"phylip conversion\\\\\\"\\", \\"__page__\\": 0, \\"__rerun_remap_job_id__\\": null, \\"filein\\": \\"null\\", \\"format\\": \\"\\\\\\"12\\\\\\"\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": []\n+        }, \n+        "16": {\n+            "annotation": "", \n+            "id": 16, \n+            "input_connections": {\n+                "input_data": {\n+                    "id": 15, \n+                    "output_name": "fileout_log"\n+                }\n+            }, \n+            "inputs": [], \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": 1969, \n+                "top": 1143.75\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, \\"fileout_label\\": \\"\\\\\\"Newick tree\\\\\\"\\", \\"input_data\\": \\"null\\", \\"model\\": \\"\\\\\\"4\\\\\\"\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": []\n+        }, \n+        "17": {\n+            "annotation": "", \n+            "id": 17, \n+            "input_connections": {\n+                "filein": {\n+                    "id": 16, \n+                    "output_name": "fileout"\n+                }\n+            }, \n+            "inputs": [], \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": 2224, \n+                "top": 1157.75\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": "{\\"fileout_label\\": \\"\\\\\\"out tree\\\\\\"\\", \\"__page__\\": 0, \\"__rerun_remap_job_id__\\": null, \\"filein\\": \\"null\\"}", \n+            "tool_version": "1.0.2", \n+            "type": "tool", \n+            "user_outputs": []\n+        }\n+    }\n+}\n\\ No newline at end of file\n'