Repository 'blockclust_workflow'
hg clone https://toolshed.g2.bx.psu.edu/repos/rnateam/blockclust_workflow

Changeset 15:0e8fc03272b3 (2018-12-10)
Previous changeset 14:f0bf99edb05f (2018-12-10) Next changeset 16:4f7af610f070 (2018-12-10)
Commit message:
Deleted selected files
removed:
blockclust_workflow.ga
blockclust_workflow_complete.ga
b
diff -r f0bf99edb05f -r 0e8fc03272b3 blockclust_workflow.ga
--- a/blockclust_workflow.ga Mon Dec 10 11:19:19 2018 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
[
b'@@ -1,658 +0,0 @@\n-{\n-    "a_galaxy_workflow": "true", \n-    "annotation": "", \n-    "format-version": "0.1", \n-    "name": "blockclust 1.1.0 complete", \n-    "steps": {\n-        "0": {\n-            "annotation": "", \n-            "content_id": null, \n-            "errors": null, \n-            "id": 0, \n-            "input_connections": {}, \n-            "inputs": [], \n-            "label": "blockclust_input", \n-            "name": "Input dataset", \n-            "outputs": [], \n-            "position": {\n-                "left": 200, \n-                "top": 338\n-            }, \n-            "tool_id": null, \n-            "tool_state": "{}", \n-            "tool_version": null, \n-            "type": "data_input", \n-            "uuid": "b6e23dd8-46ca-4bd6-87f3-2f6b741b459b", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "output", \n-                    "uuid": "d8c12432-a0db-4cba-a815-aba6a2de9626"\n-                }\n-            ]\n-        }, \n-        "1": {\n-            "annotation": "", \n-            "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0.2", \n-            "errors": null, \n-            "id": 1, \n-            "input_connections": {\n-                "input1": {\n-                    "id": 0, \n-                    "output_name": "output"\n-                }\n-            }, \n-            "inputs": [\n-                {\n-                    "description": "runtime parameter for tool Samtools sort", \n-                    "name": "input1"\n-                }\n-            ], \n-            "label": null, \n-            "name": "Samtools sort", \n-            "outputs": [\n-                {\n-                    "name": "output1", \n-                    "type": "bam"\n-                }\n-            ], \n-            "position": {\n-                "left": 460, \n-                "top": 338\n-            }, \n-            "post_job_actions": {}, \n-            "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0.2", \n-            "tool_shed_repository": {\n-                "changeset_revision": "f56bdb93ae58", \n-                "name": "samtools_sort", \n-                "owner": "devteam", \n-                "tool_shed": "toolshed.g2.bx.psu.edu"\n-            }, \n-            "tool_state": "{\\"__page__\\": null, \\"__rerun_remap_job_id__\\": null, \\"input1\\": \\"{\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}\\", \\"prim_key_cond\\": \\"{\\\\\\"prim_key_select\\\\\\": \\\\\\"\\\\\\", \\\\\\"__current_case__\\\\\\": 0}\\"}", \n-            "tool_version": "2.0.2", \n-            "type": "tool", \n-            "uuid": "327e9b59-6d4e-482e-bcdf-c7cc5d8505c9", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "output1", \n-                    "uuid": "22295821-a765-4e6c-804f-6c710e26923f"\n-                }\n-            ]\n-        }, \n-        "2": {\n-            "annotation": "", \n-            "content_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0", \n-            "errors": null, \n-            "id": 2, \n-            "input_connections": {\n-                "tool_mode|reads_bam": {\n-                    "id": 1, \n-                    "output_name": "output1"\n-                }\n-            }, \n-            "inputs": [\n-                {\n-                    "description": "runtime parameter for tool BlockClust", \n-                    "name": "tool_mode"\n-                }\n-            ], \n-            "label": null, \n-            "name": "BlockClust", \n-            "outputs": [\n-                {\n-                    "name": "tags_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "hclust_plot", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "clusters", \n-                    "type": "bed"\n-                }, \n-                {'..b'     "name": "BlockClust", \n-            "outputs": [\n-                {\n-                    "name": "tags_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "hclust_plot", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "clusters", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "model_based_pred_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "nearest_neighbour_pred_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "sim_tab_out", \n-                    "type": "tabular"\n-                }, \n-                {\n-                    "name": "cluster_dist", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "cluster_hclust", \n-                    "type": "pdf"\n-                }\n-            ], \n-            "position": {\n-                "left": 2639, \n-                "top": 338\n-            }, \n-            "post_job_actions": {\n-                "HideDatasetActionclusters": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "clusters"\n-                }, \n-                "HideDatasetActionhclust_plot": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "hclust_plot"\n-                }, \n-                "HideDatasetActionmodel_based_pred_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "model_based_pred_bed"\n-                }, \n-                "HideDatasetActionnearest_neighbour_pred_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "nearest_neighbour_pred_bed"\n-                }, \n-                "HideDatasetActionsim_tab_out": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "sim_tab_out"\n-                }, \n-                "HideDatasetActiontags_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "tags_bed"\n-                }\n-            }, \n-            "tool_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0", \n-            "tool_shed_repository": {\n-                "changeset_revision": "aab6cf87b40a", \n-                "name": "blockclust", \n-                "owner": "rnateam", \n-                "tool_shed": "toolshed.g2.bx.psu.edu"\n-            }, \n-            "tool_state": "{\\"tool_mode\\": \\"{\\\\\\"cmsearch_out\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"operation\\\\\\": \\\\\\"post\\\\\\", \\\\\\"clusters_bed\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"__current_case__\\\\\\": 2, \\\\\\"sim_tab_in\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}}\\", \\"__rerun_remap_job_id__\\": null, \\"__page__\\": null}", \n-            "tool_version": "1.1.0", \n-            "type": "tool", \n-            "uuid": "dfdaf591-1d6f-45f0-bf05-4fac5680155e", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "cluster_hclust", \n-                    "uuid": "75860090-3020-4281-9887-b73389b9c207"\n-                }, \n-                {\n-                    "label": null, \n-                    "output_name": "cluster_dist", \n-                    "uuid": "c749ddcc-628b-4e46-a61d-dfbe00901964"\n-                }\n-            ]\n-        }\n-    }, \n-    "tags": [], \n-    "uuid": "a60be50d-44e1-4fb5-90a0-3b849ceaf3e3"\n-}\n\\ No newline at end of file\n'
b
diff -r f0bf99edb05f -r 0e8fc03272b3 blockclust_workflow_complete.ga
--- a/blockclust_workflow_complete.ga Mon Dec 10 11:19:19 2018 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
[
b'@@ -1,658 +0,0 @@\n-{\n-    "a_galaxy_workflow": "true", \n-    "annotation": "", \n-    "format-version": "0.1", \n-    "name": "blockclust 1.1.0 complete", \n-    "steps": {\n-        "0": {\n-            "annotation": "", \n-            "content_id": null, \n-            "errors": null, \n-            "id": 0, \n-            "input_connections": {}, \n-            "inputs": [], \n-            "label": "blockclust_input", \n-            "name": "Input dataset", \n-            "outputs": [], \n-            "position": {\n-                "left": 200, \n-                "top": 338\n-            }, \n-            "tool_id": null, \n-            "tool_state": "{}", \n-            "tool_version": null, \n-            "type": "data_input", \n-            "uuid": "b6e23dd8-46ca-4bd6-87f3-2f6b741b459b", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "output", \n-                    "uuid": "d8c12432-a0db-4cba-a815-aba6a2de9626"\n-                }\n-            ]\n-        }, \n-        "1": {\n-            "annotation": "", \n-            "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0.2", \n-            "errors": null, \n-            "id": 1, \n-            "input_connections": {\n-                "input1": {\n-                    "id": 0, \n-                    "output_name": "output"\n-                }\n-            }, \n-            "inputs": [\n-                {\n-                    "description": "runtime parameter for tool Samtools sort", \n-                    "name": "input1"\n-                }\n-            ], \n-            "label": null, \n-            "name": "Samtools sort", \n-            "outputs": [\n-                {\n-                    "name": "output1", \n-                    "type": "bam"\n-                }\n-            ], \n-            "position": {\n-                "left": 460, \n-                "top": 338\n-            }, \n-            "post_job_actions": {}, \n-            "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0.2", \n-            "tool_shed_repository": {\n-                "changeset_revision": "f56bdb93ae58", \n-                "name": "samtools_sort", \n-                "owner": "devteam", \n-                "tool_shed": "toolshed.g2.bx.psu.edu"\n-            }, \n-            "tool_state": "{\\"__page__\\": null, \\"__rerun_remap_job_id__\\": null, \\"input1\\": \\"{\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}\\", \\"prim_key_cond\\": \\"{\\\\\\"prim_key_select\\\\\\": \\\\\\"\\\\\\", \\\\\\"__current_case__\\\\\\": 0}\\"}", \n-            "tool_version": "2.0.2", \n-            "type": "tool", \n-            "uuid": "327e9b59-6d4e-482e-bcdf-c7cc5d8505c9", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "output1", \n-                    "uuid": "22295821-a765-4e6c-804f-6c710e26923f"\n-                }\n-            ]\n-        }, \n-        "2": {\n-            "annotation": "", \n-            "content_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0", \n-            "errors": null, \n-            "id": 2, \n-            "input_connections": {\n-                "tool_mode|reads_bam": {\n-                    "id": 1, \n-                    "output_name": "output1"\n-                }\n-            }, \n-            "inputs": [\n-                {\n-                    "description": "runtime parameter for tool BlockClust", \n-                    "name": "tool_mode"\n-                }\n-            ], \n-            "label": null, \n-            "name": "BlockClust", \n-            "outputs": [\n-                {\n-                    "name": "tags_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "hclust_plot", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "clusters", \n-                    "type": "bed"\n-                }, \n-                {'..b'     "name": "BlockClust", \n-            "outputs": [\n-                {\n-                    "name": "tags_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "hclust_plot", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "clusters", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "model_based_pred_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "nearest_neighbour_pred_bed", \n-                    "type": "bed"\n-                }, \n-                {\n-                    "name": "sim_tab_out", \n-                    "type": "tabular"\n-                }, \n-                {\n-                    "name": "cluster_dist", \n-                    "type": "pdf"\n-                }, \n-                {\n-                    "name": "cluster_hclust", \n-                    "type": "pdf"\n-                }\n-            ], \n-            "position": {\n-                "left": 2639, \n-                "top": 338\n-            }, \n-            "post_job_actions": {\n-                "HideDatasetActionclusters": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "clusters"\n-                }, \n-                "HideDatasetActionhclust_plot": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "hclust_plot"\n-                }, \n-                "HideDatasetActionmodel_based_pred_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "model_based_pred_bed"\n-                }, \n-                "HideDatasetActionnearest_neighbour_pred_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "nearest_neighbour_pred_bed"\n-                }, \n-                "HideDatasetActionsim_tab_out": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "sim_tab_out"\n-                }, \n-                "HideDatasetActiontags_bed": {\n-                    "action_arguments": {}, \n-                    "action_type": "HideDatasetAction", \n-                    "output_name": "tags_bed"\n-                }\n-            }, \n-            "tool_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0", \n-            "tool_shed_repository": {\n-                "changeset_revision": "aab6cf87b40a", \n-                "name": "blockclust", \n-                "owner": "rnateam", \n-                "tool_shed": "toolshed.g2.bx.psu.edu"\n-            }, \n-            "tool_state": "{\\"tool_mode\\": \\"{\\\\\\"cmsearch_out\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"operation\\\\\\": \\\\\\"post\\\\\\", \\\\\\"clusters_bed\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"__current_case__\\\\\\": 2, \\\\\\"sim_tab_in\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}}\\", \\"__rerun_remap_job_id__\\": null, \\"__page__\\": null}", \n-            "tool_version": "1.1.0", \n-            "type": "tool", \n-            "uuid": "dfdaf591-1d6f-45f0-bf05-4fac5680155e", \n-            "workflow_outputs": [\n-                {\n-                    "label": null, \n-                    "output_name": "cluster_hclust", \n-                    "uuid": "75860090-3020-4281-9887-b73389b9c207"\n-                }, \n-                {\n-                    "label": null, \n-                    "output_name": "cluster_dist", \n-                    "uuid": "c749ddcc-628b-4e46-a61d-dfbe00901964"\n-                }\n-            ]\n-        }\n-    }, \n-    "tags": [], \n-    "uuid": "a60be50d-44e1-4fb5-90a0-3b849ceaf3e3"\n-}\n\\ No newline at end of file\n'