From 2123247c67214b0def83fa747cfee84657fde253 Mon Sep 17 00:00:00 2001 From: Delphine-L Date: Tue, 31 Oct 2023 17:49:57 -0400 Subject: [PATCH] Addition of Anton's changes --- .../Purge-duplicate-contigs-VGP6/CHANGELOG.md | 9 + .../Purge-duplicate-contigs-VGP6.ga | 494 ++++++++---------- 2 files changed, 239 insertions(+), 264 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/CHANGELOG.md b/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/CHANGELOG.md index d9d52d5d1..b3bf14ec3 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/CHANGELOG.md +++ b/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/CHANGELOG.md @@ -7,6 +7,15 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ## [Unreleased] + + +## [0.1.1] - 2023-11-01 + +### Added + +- More explicit tags for readability + + ## [0.1] - 2023-10-26 ### Added diff --git a/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/Purge-duplicate-contigs-VGP6.ga b/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/Purge-duplicate-contigs-VGP6.ga index 74a9af046..7886c2a67 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/Purge-duplicate-contigs-VGP6.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicate-contigs-VGP6/Purge-duplicate-contigs-VGP6.ga @@ -14,8 +14,8 @@ ], "format-version": "0.1", "license": "CC-BY-4.0", - "release": "0.1", - "name": "Purge-duplicate-contigs-VGP6", + "release":"0.1.1", + "name": "Purge duplicate contigs (WF6) ", "steps": { "0": { "annotation": "", @@ -40,7 +40,7 @@ "tool_state": "{\"optional\": false, \"tag\": \"\", \"collection_type\": \"list\"}", "tool_version": null, "type": "data_collection_input", - "uuid": "65452546-c777-41af-82c3-a90d46d782d8", + "uuid": "0df002ab-91cf-4767-a348-9ce31f439a01", "when": null, "workflow_outputs": [] }, @@ -67,7 +67,7 @@ "tool_state": "{\"optional\": false, \"format\": [\"fasta\"], \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "ddf397f4-eb8e-4945-8034-89ef98a195c5", + "uuid": "158c873a-b3bc-4135-95d4-d435a4849786", "when": null, "workflow_outputs": [] }, @@ -87,14 +87,14 @@ "name": "Input dataset", "outputs": [], "position": { - "left": 14.171875, - "top": 210.734375 + "left": 14.1624755859375, + "top": 210.72500610351562 }, "tool_id": null, "tool_state": "{\"optional\": false, \"format\": [\"fasta\"], \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "618f3ea7-e809-4c8a-b30e-04a4581a839a", + "uuid": "681334cb-47f1-49cb-9f86-612e17655419", "when": null, "workflow_outputs": [] }, @@ -121,7 +121,7 @@ "tool_state": "{\"optional\": false, \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "ee9e9447-4e5f-4368-a449-70167c3b36c6", + "uuid": "0c3b5f68-3534-4d76-b291-e844707606ec", "when": null, "workflow_outputs": [] }, @@ -145,10 +145,10 @@ "top": 428.125 }, "tool_id": null, - "tool_state": "{\"optional\": false, \"tag\": \"\"}", + "tool_state": "{\"optional\": false, \"tag\": \"GenomeScopeParameters\"}", "tool_version": null, "type": "data_input", - "uuid": "d37b371a-8582-4b11-b458-659851a1f0a3", + "uuid": "5c8af4f2-5764-49a6-89fa-dd8730b11828", "when": null, "workflow_outputs": [] }, @@ -172,10 +172,10 @@ "top": 579.9375 }, "tool_id": null, - "tool_state": "{\"optional\": false, \"tag\": \"\"}", + "tool_state": "{\"optional\": false, \"tag\": \"estimated_genome_size\"}", "tool_version": null, "type": "data_input", - "uuid": "0798b5cf-65f4-4bad-a284-d31ab285a10a", + "uuid": "9cc9d8e4-a917-4258-a9fc-74de593c42de", "when": null, "workflow_outputs": [] }, @@ -202,15 +202,9 @@ "tool_state": "{\"restrictOnConnections\": true, \"parameter_type\": \"text\", \"optional\": false}", "tool_version": null, "type": "parameter_input", - "uuid": "9f37cd79-c56e-4073-abbe-8e838bba2a4e", + "uuid": "a489e27a-9a41-41e2-ab57-db2e855b1018", "when": null, - "workflow_outputs": [ - { - "label": null, - "output_name": "output", - "uuid": "ef45da0f-3549-4bf7-a6c0-f601f8aed12f" - } - ] + "workflow_outputs": [] }, "7": { "annotation": "", @@ -235,15 +229,9 @@ "tool_state": "{\"optional\": true, \"tag\": null}", "tool_version": null, "type": "data_input", - "uuid": "92093540-5713-4106-8d89-2a0b67039d3c", + "uuid": "f53ab5b0-6b4d-43ea-8876-a1e2476fc7c6", "when": null, - "workflow_outputs": [ - { - "label": null, - "output_name": "output", - "uuid": "9c1b3d4c-f20d-41ba-a5a8-8497ffc06f09" - } - ] + "workflow_outputs": [] }, "8": { "annotation": "", @@ -268,15 +256,9 @@ "tool_state": "{\"default\": \"Primary\", \"parameter_type\": \"text\", \"optional\": true}", "tool_version": null, "type": "parameter_input", - "uuid": "ec571fcf-7810-4f27-b7d1-11b722ac9285", + "uuid": "2952f3e6-cc98-4cbe-ac46-32adb482ff3d", "when": null, - "workflow_outputs": [ - { - "label": null, - "output_name": "output", - "uuid": "04032bad-0109-44a1-bdfd-45c955211260" - } - ] + "workflow_outputs": [] }, "9": { "annotation": "", @@ -301,15 +283,9 @@ "tool_state": "{\"default\": \"Alternate\", \"parameter_type\": \"text\", \"optional\": true}", "tool_version": null, "type": "parameter_input", - "uuid": "5cbd6ecb-4e52-48c0-9dc8-f2a86a75e5c9", + "uuid": "fd024c72-fe6c-4cd9-ac28-c8e86eaafc4f", "when": null, - "workflow_outputs": [ - { - "label": null, - "output_name": "output", - "uuid": "b7732661-93a1-4dd3-93de-54b3d6b06431" - } - ] + "workflow_outputs": [] }, "10": { "annotation": "", @@ -363,7 +339,7 @@ "tool_state": "{\"__job_resource\": {\"__job_resource__select\": \"no\", \"__current_case__\": 0}, \"alignment_options\": {\"splicing\": {\"splice_mode\": \"preset\", \"__current_case__\": 0}, \"A\": null, \"B\": null, \"O\": null, \"O2\": null, \"E\": null, \"E2\": null, \"z\": null, \"z2\": null, \"s\": null, \"no_end_flt\": true}, \"fastq_input\": {\"fastq_input_selector\": \"single\", \"__current_case__\": 0, \"fastq_input1\": {\"__class__\": \"ConnectedValue\"}, \"analysis_type_selector\": \"asm5\"}, \"indexing_options\": {\"H\": false, \"k\": null, \"w\": null, \"I\": null}, \"io_options\": {\"output_format\": \"paf\", \"Q\": false, \"L\": false, \"K\": null, \"cs\": null, \"c\": false, \"eqx\": false, \"Y\": false}, \"mapping_options\": {\"N\": null, \"F\": null, \"f\": null, \"kmer_ocurrence_interval\": {\"interval\": \"\", \"__current_case__\": 1}, \"min_occ_floor\": null, \"q_occ_frac\": \"0.01\", \"g\": null, \"r\": null, \"n\": null, \"m\": null, \"max_chain_skip\": null, \"max_chain_iter\": null, \"X\": false, \"p\": null, \"mask_len\": null}, \"reference_source\": {\"reference_source_selector\": \"history\", \"__current_case__\": 1, \"ref_file\": {\"__class__\": \"ConnectedValue\"}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "2.24+galaxy0", "type": "tool", - "uuid": "4e1bd75d-a5b3-420c-8bfc-09469b567aef", + "uuid": "37c8f9b6-ec2e-43f7-9055-5f4f92436903", "when": null, "workflow_outputs": [] }, @@ -408,7 +384,7 @@ "tool_state": "{\"function_select\": {\"functions\": \"split_fa\", \"__current_case__\": 1, \"input\": {\"__class__\": \"ConnectedValue\"}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.2.6+galaxy0", "type": "tool", - "uuid": "621b62f9-06df-4db8-8841-78dd5aa5bf3d", + "uuid": "bc4c132e-b355-4996-aa7e-11423e4253c5", "when": null, "workflow_outputs": [] }, @@ -453,7 +429,7 @@ "tool_state": "{\"avoid_scientific_notation\": false, \"error_handling\": {\"auto_col_types\": true, \"fail_on_non_existent_columns\": true, \"non_computable\": {\"action\": \"--fail-on-non-computable\", \"__current_case__\": 0}}, \"input\": {\"__class__\": \"ConnectedValue\"}, \"ops\": {\"header_lines_select\": \"no\", \"__current_case__\": 0, \"expressions\": [{\"__index__\": 0, \"cond\": \"1.5*c3\", \"add_column\": {\"mode\": \"\", \"__current_case__\": 0, \"pos\": \"\"}}, {\"__index__\": 1, \"cond\": \"3*c7\", \"add_column\": {\"mode\": \"\", \"__current_case__\": 0, \"pos\": \"\"}}]}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "2.0", "type": "tool", - "uuid": "d75854bf-4c15-4856-8656-c74008e88e17", + "uuid": "104983c1-2416-47ce-a805-9932cc0300a3", "when": null, "workflow_outputs": [] }, @@ -494,13 +470,13 @@ "tool_state": "{\"input1\": {\"__class__\": \"ConnectedValue\"}, \"param_type\": \"integer\", \"remove_newlines\": true, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.1.0", "type": "tool", - "uuid": "92e9f1a3-65f8-4ac3-a8a6-287627ed11a9", + "uuid": "66e97598-4765-4430-afd3-df587f986c81", "when": null, "workflow_outputs": [ { "label": "Estimated Genome Size", "output_name": "integer_param", - "uuid": "538333c3-4b0e-4068-84e0-6c82df6dc01f" + "uuid": "a6d1a01f-ee44-4faa-a8a1-0f20fde412e8" } ] }, @@ -551,7 +527,7 @@ "tool_state": "{\"__job_resource\": {\"__job_resource__select\": \"no\", \"__current_case__\": 0}, \"alignment_options\": {\"splicing\": {\"splice_mode\": \"preset\", \"__current_case__\": 0}, \"A\": \"1\", \"B\": \"19\", \"O\": \"39\", \"O2\": \"81\", \"E\": \"3\", \"E2\": \"1\", \"z\": \"200\", \"z2\": null, \"s\": null, \"no_end_flt\": true}, \"fastq_input\": {\"fastq_input_selector\": \"single\", \"__current_case__\": 0, \"fastq_input1\": {\"__class__\": \"ConnectedValue\"}, \"analysis_type_selector\": \"self-homology\"}, \"indexing_options\": {\"H\": false, \"k\": null, \"w\": null, \"I\": null}, \"io_options\": {\"output_format\": \"paf\", \"Q\": false, \"L\": false, \"K\": null, \"cs\": null, \"c\": false, \"eqx\": false, \"Y\": false}, \"mapping_options\": {\"N\": null, \"F\": null, \"f\": null, \"kmer_ocurrence_interval\": {\"interval\": \"\", \"__current_case__\": 1}, \"min_occ_floor\": \"100\", \"q_occ_frac\": \"0.01\", \"g\": null, \"r\": null, \"n\": null, \"m\": \"40\", \"max_chain_skip\": null, \"max_chain_iter\": null, \"X\": false, \"p\": null, \"mask_len\": null}, \"reference_source\": {\"reference_source_selector\": \"history\", \"__current_case__\": 1, \"ref_file\": {\"__class__\": \"ConnectedValue\"}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "2.24+galaxy0", "type": "tool", - 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"id": 36, + "id": 35, "output_name": "stats" } }, @@ -2460,7 +2436,7 @@ "tool_state": "{\"code\": \"BEGIN{print \\\"Metric\\\\tAlternate\\\"}; {print}; \", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.1.2", "type": "tool", - "uuid": "c261346d-f691-48da-8423-dedba542d79c", + "uuid": "ed133b72-e945-4fe5-91d6-c71efa30678c", "when": null, "workflow_outputs": [] }, @@ -2469,7 +2445,7 @@ "id": 40, "input_connections": { "gfa_stats": { - "id": 37, + "id": 36, "input_subworkflow_step_id": 0, "output_name": "stats" } @@ -2511,7 +2487,7 @@ "tool_state": "{\"optional\": false, \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "2461e66e-2618-4822-a665-dc57ab85dd18", + "uuid": "56311775-399e-4e9e-aa48-8fa9fff12ad3", "when": null, "workflow_outputs": [] }, @@ -2550,7 +2526,7 @@ "tool_state": "{\"column\": \"2\", \"column_set\": [], \"header_lines\": \"0\", \"input\": {\"__class__\": \"ConnectedValue\"}, \"order\": \"DESC\", \"style\": \"num\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.2.0", "type": "tool", - "uuid": "b4d7b5fe-a93e-4d26-bbb9-88f899318173", + "uuid": "7a31b528-ee29-4b2a-9270-6ae34ce198ef", "when": null, "workflow_outputs": [] }, @@ -2595,7 +2571,7 @@ "tool_state": "{\"code\": \"{total += $2; $3 = total}1\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.1.2", "type": "tool", - "uuid": "acfdc94d-d5af-41cb-bcea-d8fb7f340bbb", + "uuid": "1a29dcd8-0ecd-4e4b-b7c4-ba688290eef3", "when": null, "workflow_outputs": [] }, @@ -2640,7 +2616,7 @@ "tool_state": "{\"grouping\": \"\", \"header_in\": false, \"header_out\": false, \"ignore_case\": false, \"in_file\": {\"__class__\": \"ConnectedValue\"}, \"narm\": false, \"need_sort\": false, \"operations\": [{\"__index__\": 0, \"op_name\": \"absmax\", \"op_column\": \"3\"}], \"print_full_line\": false, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.1.0+galaxy2", "type": "tool", - "uuid": "1fd756e2-0a24-4013-b1d7-706eed4fb2ad", + "uuid": "053d0561-98e5-46b2-b554-685802fdb0ed", "when": null, "workflow_outputs": [] }, @@ -2679,7 +2655,7 @@ "tool_state": "{\"exp\": \"1\", \"input\": {\"__class__\": \"ConnectedValue\"}, \"iterate\": \"yes\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.0.0", "type": "tool", - "uuid": "00e9cfcc-2ee4-419a-8c1e-6dfb9d81523a", + "uuid": "3b744e29-af55-4a10-9e56-bb637456ef54", "when": null, "workflow_outputs": [] }, @@ -2718,7 +2694,7 @@ "tool_state": "{\"input1\": {\"__class__\": \"ConnectedValue\"}, \"param_type\": \"integer\", \"remove_newlines\": true, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.1.0", "type": "tool", - "uuid": "76643442-d604-429f-ac72-251ce2525386", + "uuid": "b66fba8c-0e58-44ae-97eb-38fa3b408904", "when": null, "workflow_outputs": [] }, @@ -2763,7 +2739,7 @@ "tool_state": "{\"components\": [{\"__index__\": 0, \"param_type\": {\"select_param_type\": \"text\", \"__current_case__\": 0, \"component_value\": \"c3/\"}}, {\"__index__\": 1, \"param_type\": {\"select_param_type\": \"integer\", \"__current_case__\": 1, \"component_value\": {\"__class__\": \"ConnectedValue\"}}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.1.1", "type": "tool", - "uuid": "d7ce5e60-a328-4dcb-a1ec-170f95d78952", + "uuid": "0477114d-32f5-4560-a3c5-3995c4cd8469", "when": null, "workflow_outputs": [] }, @@ -2819,23 +2795,23 @@ "tool_state": "{\"avoid_scientific_notation\": false, \"error_handling\": {\"auto_col_types\": true, \"fail_on_non_existent_columns\": true, \"non_computable\": {\"action\": \"--fail-on-non-computable\", \"__current_case__\": 0}}, \"input\": {\"__class__\": \"RuntimeValue\"}, \"ops\": {\"header_lines_select\": \"no\", \"__current_case__\": 0, \"expressions\": [{\"__index__\": 0, \"cond\": {\"__class__\": \"ConnectedValue\"}, \"add_column\": {\"mode\": \"\", \"__current_case__\": 0, \"pos\": \"\"}}, {\"__index__\": 1, \"cond\": \"c2/1000000\", \"add_column\": {\"mode\": \"\", \"__current_case__\": 0, \"pos\": \"\"}}, {\"__index__\": 2, \"cond\": \"c3/1000000\", \"add_column\": {\"mode\": \"\", \"__current_case__\": 0, \"pos\": \"\"}}]}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "2.0", "type": "tool", - "uuid": "d68e68d9-e9d4-4a94-becb-5f1ad06d57cf", + "uuid": "602d39d3-ab8c-4f94-9119-f04ca5d2e750", "when": null, "workflow_outputs": [ { "label": "gfastats data for plotting", "output_name": "out_file1", - "uuid": "f8a9d4cf-0541-4218-9476-1a70d9cc9fce" + "uuid": "38ba0514-f27a-45fd-889b-5778f32e5ec6" } ] } }, "tags": "", - "uuid": "8da92707-4538-40f4-99e4-b7a3b48f7cb2" + "uuid": "f6fd4bb1-18de-4746-accd-18cf86ee25f8" }, "tool_id": null, "type": "subworkflow", - "uuid": "c89c69d5-a215-4011-9355-fb466690d45f", + "uuid": "71a56572-9780-41fd-a92a-9f306d93ac29", "when": null, "workflow_outputs": [] }, @@ -2886,13 +2862,13 @@ "tool_state": "{\"column1\": \"1\", \"column2\": \"1\", \"empty_string_filler\": \"0\", \"header\": true, \"ignore_case\": false, \"infile1\": {\"__class__\": \"ConnectedValue\"}, \"infile2\": {\"__class__\": \"ConnectedValue\"}, \"jointype\": \"-a 1 -a 2\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.1.2", "type": "tool", - "uuid": "f72b3d15-1ecc-4942-8cd9-1db1787b69e8", + "uuid": "c620558f-324d-40cf-86b6-7460b52d49bf", "when": null, "workflow_outputs": [ { "label": "Assembly stats on Primary and alternate assemblies", "output_name": "output", - "uuid": "799f31ce-9e46-486d-a9a3-a10c502004ae" + "uuid": "36aaeacd-4752-43cb-9000-f859290c9ed2" } ] }, @@ -2970,7 +2946,7 @@ "tool_state": "{\"optional\": false, \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "120cd017-c9f5-4a50-860b-8625b376c03a", + "uuid": "bb14a035-f95c-4e8e-864a-6b69caad5a89", "when": null, "workflow_outputs": [] }, @@ -2997,7 +2973,7 @@ "tool_state": "{\"optional\": false, \"tag\": \"\"}", "tool_version": null, "type": "data_input", - "uuid": "237e182e-df75-4923-8958-41f518d46e4b", + "uuid": "262f039f-40c5-41c2-a36d-adcb840aea19", "when": null, "workflow_outputs": [] }, @@ -3024,13 +3000,13 @@ "tool_state": "{\"default\": \"Primary\", \"parameter_type\": \"text\", \"optional\": true}", "tool_version": null, "type": "parameter_input", - "uuid": "a9ee9b86-f215-41fa-b466-f67810c32785", + "uuid": "1e24b121-b6e3-4478-b8c4-badfb50cf30e", "when": null, "workflow_outputs": [ { "label": null, "output_name": "output", - "uuid": "eb1268ef-4857-4fd0-87ae-eb8a23bb2a6e" + "uuid": "74a3fc5f-212c-43d5-adc2-103f490fa766" } ] }, @@ -3057,13 +3033,13 @@ "tool_state": "{\"default\": \"Alternate\", \"parameter_type\": \"text\", \"optional\": true}", "tool_version": null, "type": "parameter_input", - "uuid": "e649221f-4fa3-4a34-ad6e-1f51eaaaab0f", + "uuid": "c2411d50-9786-4ff3-b316-5d60334dc340", "when": null, "workflow_outputs": [ { "label": null, "output_name": "output", - "uuid": "bdb77ee5-8d84-457e-84d8-0ae5f12e3026" + "uuid": "b886bb65-a905-4e2c-b6de-ae3dcc3749d7" } ] }, @@ -3112,7 +3088,7 @@ "tool_state": "{\"exp\": {\"__class__\": \"ConnectedValue\"}, \"input\": {\"__class__\": \"ConnectedValue\"}, \"iterate\": \"no\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.0.0", "type": "tool", - "uuid": "c8e38455-658a-44f3-92d1-d955c6a8186f", + "uuid": "0fde4e58-dadf-4c75-8231-d5c838c05710", "when": null, "workflow_outputs": [] }, @@ -3161,7 +3137,7 @@ "tool_state": "{\"exp\": {\"__class__\": \"ConnectedValue\"}, \"input\": {\"__class__\": \"ConnectedValue\"}, \"iterate\": \"no\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.0.0", "type": "tool", - "uuid": "bc1a9a60-e42b-4f37-bf68-7cde3dfa5354", + "uuid": "f8602bb7-6924-4b52-932b-b862f5698ae0", "when": null, "workflow_outputs": [] }, @@ -3210,7 +3186,7 @@ "tool_state": "{\"inputs\": {\"__class__\": \"ConnectedValue\"}, \"queries\": [{\"__index__\": 0, \"inputs2\": {\"__class__\": \"ConnectedValue\"}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "0.1.1", "type": "tool", - "uuid": "0c1ac66b-1cc8-4cb5-a8d0-ec9feec23eb1", + "uuid": "a2dc3c75-6398-4a22-bbd1-254fa1112764", "when": null, "workflow_outputs": [] }, @@ -3249,7 +3225,7 @@ "tool_state": "{\"columnList\": \"c8,c5,c6\", \"delimiter\": \"T\", \"input\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.0.2", "type": "tool", - "uuid": "2b328ff8-1da3-43ee-93da-aa5d3ae367db", + "uuid": "fc421b7d-5c43-4bef-8904-b08a79f517e6", "when": null, "workflow_outputs": [] }, @@ -3288,7 +3264,7 @@ "tool_state": "{\"columnList\": \"c8,c4,c7\", \"delimiter\": \"T\", \"input\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "1.0.2", "type": "tool", - "uuid": "5c1cc59f-2947-4aaa-9537-ea17f6fc02a6", + "uuid": "91e26e50-21d0-4380-bf84-a5bacef80541", "when": null, "workflow_outputs": [] }, @@ -3347,13 +3323,13 @@ "tool_state": "{\"adv\": {\"type_conditional\": {\"type_options\": \"lines\", \"__current_case__\": 2}, \"factor\": {\"factoring\": \"Single\", \"__current_case__\": 1, \"factorcol\": \"1\", \"colors\": \"Set1\", \"colororder\": \"1\"}, \"axis_title_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"axis_text_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"plot_title_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"gridlinecust\": \"default\", \"transform\": \"none\", \"scaling\": {\"plot_scaling\": \"Automatic\", \"__current_case__\": 0}, \"theme\": \"bw\", \"legend\": \"yes\"}, \"input1\": {\"__class__\": \"RuntimeValue\"}, \"out\": {\"unit_output_dim\": \"in\", \"width_output_dim\": \"6.0\", \"height_output_dim\": \"4.0\", \"dpi_output_dim\": \"300.0\", \"additional_output_format\": \"none\"}, \"title\": \"\", \"xlab\": \"x\", \"xplot\": \"2\", \"ylab\": \"Nx (Mb)\", \"yplot\": \"3\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "3.4.0+galaxy0", "type": "tool", - "uuid": "d9397328-d3cb-42fe-b6a4-352a8ba9a46f", + "uuid": "80c6d25c-25e8-41dd-9f73-10aeda771d1d", "when": null, "workflow_outputs": [ { "label": "Nx Plot", "output_name": "output1", - "uuid": "26e34d5b-4932-46b7-adc1-8c2bac37b5a5" + "uuid": "10ea479b-6055-4295-ab4d-b4a3448ba241" } ] }, @@ -3412,44 +3388,34 @@ "tool_state": "{\"adv\": {\"type_conditional\": {\"type_options\": \"lines\", \"__current_case__\": 2}, \"factor\": {\"factoring\": \"Single\", \"__current_case__\": 1, \"factorcol\": \"1\", \"colors\": \"Set1\", \"colororder\": \"1\"}, \"axis_title_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"axis_text_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"plot_title_customization\": {\"axis_customization\": \"default\", \"__current_case__\": 0}, \"gridlinecust\": \"default\", \"transform\": \"none\", \"scaling\": {\"plot_scaling\": \"Automatic\", \"__current_case__\": 0}, \"theme\": \"bw\", \"legend\": \"yes\"}, \"input1\": {\"__class__\": \"RuntimeValue\"}, \"out\": {\"unit_output_dim\": \"in\", \"width_output_dim\": \"6.0\", \"height_output_dim\": \"4.0\", \"dpi_output_dim\": \"300.0\", \"additional_output_format\": \"none\"}, \"title\": \"\", \"xlab\": \"Scaffold number\", \"xplot\": \"2\", \"ylab\": \"Cumulative Size (Mb)\", \"yplot\": \"3\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", "tool_version": "3.4.0+galaxy0", "type": "tool", - 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