| Previous changeset 11:1e6d0af8c450 (2018-12-10) Next changeset 13:f320021d07e1 (2018-12-10) |
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Commit message:
blockclust workflows 1.1.0 |
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modified:
blockclust_workflow_clustering.ga |
| b |
| diff -r 1e6d0af8c450 -r 62212df99efd blockclust_workflow_clustering.ga --- a/blockclust_workflow_clustering.ga Mon Dec 10 10:46:24 2018 -0500 +++ b/blockclust_workflow_clustering.ga Mon Dec 10 10:46:54 2018 -0500 |
| [ |
| b'@@ -1,42 +1,103 @@\n {\n "a_galaxy_workflow": "true", \n- "annotation": "Until clustering step. No post processing included.", \n+ "annotation": "", \n "format-version": "0.1", \n- "name": "BlockClustWorkflow_clustering", \n+ "name": "blockclust 1.1.0 clustering", \n "steps": {\n "0": {\n "annotation": "", \n+ "content_id": null, \n+ "errors": null, \n "id": 0, \n "input_connections": {}, \n- "inputs": [\n- {\n- "description": "", \n- "name": "Input BAM file"\n- }\n- ], \n+ "inputs": [], \n+ "label": "blockclust_input", \n "name": "Input dataset", \n "outputs": [], \n "position": {\n- "left": 217, \n- "top": 334.5\n+ "left": 200, \n+ "top": 212\n }, \n- "tool_errors": null, \n "tool_id": null, \n- "tool_state": "{\\"name\\": \\"Input BAM file\\"}", \n+ "tool_state": "{}", \n "tool_version": null, \n "type": "data_input", \n- "user_outputs": []\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- "tool_mode|reads_bam": {\n+ "input1": {\n "id": 0, \n "output_name": "output"\n }\n }, \n- "inputs": [], \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": 212\n+ }, \n+ "post_job_actions": {\n+ "HideDatasetActionoutput1": {\n+ "action_arguments": {}, \n+ "action_type": "HideDatasetAction", \n+ "output_name": "output1"\n+ }\n+ }, \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+ "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": "runt'..b' "uuid": "8a3db40c-ae03-49ca-b47c-559ac455d712", \n+ "workflow_outputs": [\n+ {\n+ "label": "blockbuster_out", \n+ "output_name": "output", \n+ "uuid": "95c21ce9-e988-44b9-978e-10a27b74d18e"\n+ }\n+ ]\n }, \n- "4": {\n+ "5": {\n "annotation": "", \n- "id": 4, \n+ "content_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.1.0", \n+ "errors": null, \n+ "id": 5, \n "input_connections": {\n "tool_mode|input_bbo": {\n- "id": 3, \n+ "id": 4, \n "output_name": "output"\n }\n }, \n@@ -214,6 +312,7 @@\n "name": "tool_mode"\n }\n ], \n+ "label": null, \n "name": "BlockClust", \n "outputs": [\n {\n@@ -250,8 +349,8 @@\n }\n ], \n "position": {\n- "left": 1268.5, \n- "top": 305.5\n+ "left": 1694, \n+ "top": 212\n }, \n "post_job_actions": {\n "HideDatasetActioncluster_dist": {\n@@ -275,12 +374,41 @@\n "output_name": "tags_bed"\n }\n }, \n- "tool_errors": null, \n- "tool_id": "toolshed.g2.bx.psu.edu/repos/rnateam/blockclust/blockclust/1.0.0", \n- "tool_state": "{\\"tool_mode\\": \\"{\\\\\\"reference\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"input_bbo\\\\\\": null, \\\\\\"pred\\\\\\": {\\\\\\"pred_mode\\\\\\": \\\\\\"model_based\\\\\\", \\\\\\"enable_pred\\\\\\": \\\\\\"yes\\\\\\", \\\\\\"__current_case__\\\\\\": 0}, \\\\\\"nochr\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"__current_case__\\\\\\": 1, \\\\\\"operation\\\\\\": \\\\\\"clust\\\\\\"}\\", \\"__rerun_remap_job_id__\\": null, \\"__page__\\": 0}", \n- "tool_version": "1.0.0", \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\\": \\"{\\\\\\"reference\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"input_bbo\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"pred\\\\\\": {\\\\\\"pred_mode\\\\\\": {\\\\\\"__class__\\\\\\": \\\\\\"RuntimeValue\\\\\\"}, \\\\\\"__current_case__\\\\\\": 0, \\\\\\"enable_pred\\\\\\": \\\\\\"yes\\\\\\"}, \\\\\\"nochr\\\\\\": \\\\\\"false\\\\\\", \\\\\\"__current_case__\\\\\\": 1, \\\\\\"operation\\\\\\": \\\\\\"analysis\\\\\\"}\\", \\"__rerun_remap_job_id__\\": null, \\"__page__\\": null}", \n+ "tool_version": "1.1.0", \n "type": "tool", \n- "user_outputs": []\n+ "uuid": "e41a16eb-4edd-4f9e-b615-44d0c2988b63", \n+ "workflow_outputs": [\n+ {\n+ "label": "clusters_bed", \n+ "output_name": "clusters", \n+ "uuid": "287b4bae-55a1-4f38-b1c3-62ae60b4d950"\n+ }, \n+ {\n+ "label": "nn_pred_bed", \n+ "output_name": "nearest_neighbour_pred_bed", \n+ "uuid": "6f1ae3c9-58be-4707-84e7-9936a335d743"\n+ }, \n+ {\n+ "label": null, \n+ "output_name": "hclust_plot", \n+ "uuid": "dec50654-b78a-477d-b35e-b37269c8347d"\n+ }, \n+ {\n+ "label": "model_based_pred_bed", \n+ "output_name": "model_based_pred_bed", \n+ "uuid": "04c1de5d-d039-4dff-9981-ba1d72e3cbca"\n+ }\n+ ]\n }\n- }\n-}\n+ }, \n+ "tags": [], \n+ "uuid": "4cecbf1c-0535-4c04-857a-550a9e0a3ede"\n+}\n\\ No newline at end of file\n' |