Mercurial > repos > mzeidler > virana_main

changeset 4:1fcacda77307 draft

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Deleted selected files
author mzeidler
date Wed, 25 Sep 2013 11:50:28 -0400
parents d608474616b6
children c7c19382c8cf
files Galaxy-Workflow-Virana.ga
diffstat 1 files changed, 0 insertions(+), 184 deletions(-) [+]
line wrap: on
line diff
--- a/Galaxy-Workflow-Virana.ga	Wed Sep 25 11:49:23 2013 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,184 +0,0 @@
-{
-    "a_galaxy_workflow": "true", 
-    "annotation": "", 
-    "format-version": "0.1", 
-    "name": "Virana", 
-    "steps": {
-        "0": {
-            "annotation": "", 
-            "id": 0, 
-            "input_connections": {}, 
-            "inputs": [
-                {
-                    "description": "", 
-                    "name": "Read Input"
-                }
-            ], 
-            "name": "Input dataset", 
-            "outputs": [], 
-            "position": {
-                "left": 200, 
-                "top": 200
-            }, 
-            "tool_errors": null, 
-            "tool_id": null, 
-            "tool_state": "{\"name\": \"Read Input\"}", 
-            "tool_version": null, 
-            "type": "data_input", 
-            "user_outputs": []
-        }, 
-        "1": {
-            "annotation": "", 
-            "id": 1, 
-            "input_connections": {}, 
-            "inputs": [
-                {
-                    "description": "runtime parameter for tool Virana References", 
-                    "name": "refseq"
-                }
-            ], 
-            "name": "Virana References", 
-            "outputs": [
-                {
-                    "name": "output", 
-                    "type": "fasta"
-                }
-            ], 
-            "position": {
-                "left": 200, 
-                "top": 283
-            }, 
-            "post_job_actions": {}, 
-            "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/mzeidler/virana2/vref_fasta/1.0.0", 
-            "tool_state": "{\"__page__\": 0, \"refseq\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"zipped\": \"\\\"False\\\"\"}", 
-            "tool_version": "1.0.0", 
-            "type": "tool", 
-            "user_outputs": []
-        }, 
-        "2": {
-            "annotation": "", 
-            "id": 2, 
-            "input_connections": {
-                "input": {
-                    "id": 1, 
-                    "output_name": "output"
-                }
-            }, 
-            "inputs": [], 
-            "name": "VMap DNAIndex", 
-            "outputs": [
-                {
-                    "name": "output", 
-                    "type": "bwa_index"
-                }
-            ], 
-            "position": {
-                "left": 434, 
-                "top": 200
-            }, 
-            "post_job_actions": {}, 
-            "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/mzeidler/virana2/vmap_dnaindex/1.0.0", 
-            "tool_state": "{\"input\": \"null\", \"__page__\": 0}", 
-            "tool_version": "1.0.0", 
-            "type": "tool", 
-            "user_outputs": []
-        }, 
-        "3": {
-            "annotation": "", 
-            "id": 3, 
-            "input_connections": {
-                "index": {
-                    "id": 2, 
-                    "output_name": "output"
-                }, 
-                "reads": {
-                    "id": 0, 
-                    "output_name": "output"
-                }
-            }, 
-            "inputs": [
-                {
-                    "description": "runtime parameter for tool Virana DNAMap", 
-                    "name": "sample_id"
-                }, 
-                {
-                    "description": "runtime parameter for tool Virana DNAMap", 
-                    "name": "refseq"
-                }
-            ], 
-            "name": "Virana DNAMap", 
-            "outputs": [
-                {
-                    "name": "hit_output", 
-                    "type": "hit_bz2"
-                }, 
-                {
-                    "name": "bam_output", 
-                    "type": "bam"
-                }, 
-                {
-                    "name": "sam_output", 
-                    "type": "sam"
-                }, 
-                {
-                    "name": "qual_output", 
-                    "type": "qual"
-                }, 
-                {
-                    "name": "tax_output", 
-                    "type": "tax"
-                }
-            ], 
-            "position": {
-                "left": 668, 
-                "top": 200
-            }, 
-            "post_job_actions": {}, 
-            "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/mzeidler/virana2/vmap_dnamap/1.0.0", 
-            "tool_state": "{\"index\": \"null\", \"sam\": \"\\\"False\\\"\", \"sensitive\": \"\\\"False\\\"\", \"__page__\": 0, \"tax\": \"\\\"True\\\"\", \"qual\": \"\\\"False\\\"\", \"reads\": \"null\", \"sample_id\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"output_type\": \"{\\\"filter_complexity\\\": \\\"False\\\", \\\"hit\\\": \\\"True\\\", \\\"min_mapping_score\\\": \\\"\\\", \\\"min_alignment_score\\\": \\\"\\\", \\\"max_mismatches\\\": \\\"\\\", \\\"min_continiously_matching\\\": \\\"\\\", \\\"__current_case__\\\": 0, \\\"max_relative_mismatches\\\": \\\"\\\"}\", \"refseq\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"bam\": \"\\\"False\\\"\", \"paired\": \"{\\\"select_paired\\\": \\\"single\\\", \\\"__current_case__\\\": 1}\"}", 
-            "tool_version": "1.0.0", 
-            "type": "tool", 
-            "user_outputs": []
-        }, 
-        "4": {
-            "annotation": "", 
-            "id": 4, 
-            "input_connections": {
-                "references": {
-                    "id": 1, 
-                    "output_name": "output"
-                }, 
-                "virana_hits": {
-                    "id": 3, 
-                    "output_name": "hit_output"
-                }
-            }, 
-            "inputs": [], 
-            "name": "Virana Homologous Groups", 
-            "outputs": [
-                {
-                    "name": "hom_output", 
-                    "type": "hom_reg"
-                }, 
-                {
-                    "name": "stat_output", 
-                    "type": "reg_stats"
-                }
-            ], 
-            "position": {
-                "left": 902, 
-                "top": 200
-            }, 
-            "post_job_actions": {}, 
-            "tool_errors": null, 
-            "tool_id": "testtoolshed.g2.bx.psu.edu/repos/mzeidler/virana2/vhom_region/1.1.1", 
-            "tool_state": "{\"max_gap_length\": \"\\\"25\\\"\", \"__page__\": 0, \"virana_hits\": \"null\", \"filter\": \"[]\", \"reference_database_filter\": \"null\", \"word_length\": \"\\\"7\\\"\", \"references\": \"null\", \"ambiguity_cutoff\": \"\\\"0.3\\\"\", \"min_read_number\": \"\\\"5\\\"\", \"min_region_length\": \"\\\"50\\\"\", \"cdna\": \"null\"}", 
-            "tool_version": "1.1.1", 
-            "type": "tool", 
-            "user_outputs": []
-        }
-    }
-}
\ No newline at end of file