From e1797af914491a01c50cbcde947f64b480f33d6c Mon Sep 17 00:00:00 2001 From: planemo-autoupdate Date: Mon, 1 Apr 2024 04:26:37 +0000 Subject: [PATCH 1/5] Updating workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b from 0.4 to 0.5 --- .../CHANGELOG.md | 8 +++ .../Purging-duplicates-one-haplotype-VGP6b.ga | 64 +++++++++---------- 2 files changed, 40 insertions(+), 32 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md index 9c026ecd0..6cf15f510 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md @@ -1,5 +1,13 @@ # Changelog +## [0.5] 2024-04-01 + +### Automatic update +- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1` +- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1` +- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy1` +- `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy1` + ## [0.4] 2024-03-25 ### Automatic update diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga index 09063d0d7..f6de9d1c5 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga @@ -15,7 +15,7 @@ ], "format-version": "0.1", "license": "CC-BY-4.0", - "release": "0.4", + "release": "0.5", "name": "Purging-duplicates-one-haplotype-VGP6b ", "steps": { "0": { @@ -765,7 +765,7 @@ }, "2": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "errors": null, "id": 2, "input_connections": { @@ -794,15 +794,15 @@ "output_name": "outfile" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"code\": \"{total += $2; $3 = total}1\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "b00c3f6d-621b-4831-9f78-cc1746d57876", "when": null, @@ -1041,7 +1041,7 @@ } }, "tags": "", - "uuid": "ccafe5da-0917-4582-9db8-702be1e4805d" + "uuid": "78ed94d9-4f0e-4e87-ae2c-438193c8a9c4" }, "tool_id": null, "type": "subworkflow", @@ -1150,7 +1150,7 @@ }, "20": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "errors": null, "id": 20, "input_connections": { @@ -1179,15 +1179,15 @@ "output_name": "outfile" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"code\": \"BEGIN{print \\\"Metric\\\\tAlternate\\\"}; {print}; \", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "bb591597-add9-4957-85d7-a6f6983eaa8f", "when": null, @@ -1400,7 +1400,7 @@ }, "23": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1", "errors": null, "id": 23, "input_connections": { @@ -1431,15 +1431,15 @@ "output_name": "output" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"case_sensitive\": \"-i\", \"color\": \"NOCOLOR\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"invert\": \"-v\", \"lines_after\": \"0\", \"lines_before\": \"0\", \"regex_type\": \"-P\", \"url_paste\": \"REPEAT\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "6bc68c65-e806-40f1-88e6-dc2f9ae3db87", "when": null, @@ -2034,7 +2034,7 @@ }, "2": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "errors": null, "id": 2, "input_connections": { @@ -2063,15 +2063,15 @@ "output_name": "outfile" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"code\": \"{total += $2; $3 = total}1\", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "9469cad4-1680-476a-95ff-0567e424364c", "when": null, @@ -2310,7 +2310,7 @@ } }, "tags": "", - "uuid": "3aca8b2e-96a2-4eda-8bd8-2bafd26c3f27" + "uuid": "5b5072f1-6853-4179-92f2-ae58238ff489" }, "tool_id": null, "type": "subworkflow", @@ -2320,7 +2320,7 @@ }, "31": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "errors": null, "id": 31, "input_connections": { @@ -2349,15 +2349,15 @@ "output_name": "outfile" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"code\": \"BEGIN{print \\\"Metric\\\\tPrimary\\\"}; {print}; \", \"infile\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "7c1dd273-10e0-402f-978f-d9df50a5b236", "when": null, @@ -2635,7 +2635,7 @@ }, "6": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy1", "errors": null, "id": 6, "input_connections": { @@ -2668,15 +2668,15 @@ "output_name": "out_file1" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"inputs\": {\"__class__\": \"ConnectedValue\"}, \"queries\": [{\"__index__\": 0, \"inputs2\": {\"__class__\": \"ConnectedValue\"}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "8018cb28-c340-4b60-ab26-3e51d24ecc3f", "when": null, @@ -2882,7 +2882,7 @@ } }, "tags": "", - "uuid": "5e409d9d-abe0-4410-9cfe-9b706e6999c8" + "uuid": "38933212-9fbf-447b-8e34-801c52fdcc11" }, "tool_id": null, "type": "subworkflow", @@ -2903,7 +2903,7 @@ }, "33": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy1", "errors": null, "id": 33, "input_connections": { @@ -2938,15 +2938,15 @@ "output_name": "output" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy1", "tool_shed_repository": { - "changeset_revision": "12615d397df7", + "changeset_revision": "fbf99087e067", "name": "text_processing", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, "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": "9.3+galaxy0", + "tool_version": "9.3+galaxy1", "type": "tool", "uuid": "522c3e61-6eb2-4090-a7b6-d672d4995412", "when": null, From 628a44c64ef203a467bb955bcf01b80821cbf248 Mon Sep 17 00:00:00 2001 From: planemo-autoupdate Date: Mon, 8 Apr 2024 16:08:23 +0000 Subject: [PATCH 2/5] Updating workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b from 0.5 to 0.6 --- .../Purging-duplicates-one-haplotype-VGP6b.ga | 24 +++++++++---------- 1 file changed, 12 insertions(+), 12 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga index f6de9d1c5..33471cf7a 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga @@ -15,7 +15,7 @@ ], "format-version": "0.1", "license": "CC-BY-4.0", - "release": "0.5", + "release": "0.6", "name": "Purging-duplicates-one-haplotype-VGP6b ", "steps": { "0": { @@ -281,7 +281,7 @@ }, "9": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.27+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0", "errors": null, "id": 9, "input_connections": { @@ -330,15 +330,15 @@ "output_name": "alignment_output" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.27+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0", "tool_shed_repository": { - "changeset_revision": "92678fcb1a5f", + "changeset_revision": "5cc34c3f440d", "name": "minimap2", "owner": "iuc", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"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": "2.27+galaxy0", + "tool_version": "2.28+galaxy0", "type": "tool", "uuid": "b6259cc9-6c33-48ff-bc0f-c7fcd0643809", "when": null, @@ -565,7 +565,7 @@ }, "15": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.27+galaxy0", + "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0", "errors": null, "id": 15, "input_connections": { @@ -609,15 +609,15 @@ "output_name": "alignment_output" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.27+galaxy0", + "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0", "tool_shed_repository": { - "changeset_revision": "92678fcb1a5f", + "changeset_revision": "5cc34c3f440d", "name": "minimap2", "owner": "iuc", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"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": "2.27+galaxy0", + "tool_version": "2.28+galaxy0", "type": "tool", "uuid": "6f009c42-6298-4db3-999e-b408c4ebedd6", "when": null, @@ -1041,7 +1041,7 @@ } }, "tags": "", - "uuid": "78ed94d9-4f0e-4e87-ae2c-438193c8a9c4" + "uuid": "ce2ae327-790d-4e7c-b3ad-d4964a2ebd13" }, "tool_id": null, "type": "subworkflow", @@ -2310,7 +2310,7 @@ } }, "tags": "", - "uuid": "5b5072f1-6853-4179-92f2-ae58238ff489" + "uuid": "d40b64a1-ac9c-44d3-9d94-199db99792a9" }, "tool_id": null, "type": "subworkflow", @@ -2882,7 +2882,7 @@ } }, "tags": "", - "uuid": "38933212-9fbf-447b-8e34-801c52fdcc11" + "uuid": "097ca4eb-1cb3-43a8-8525-25341d6b2200" }, "tool_id": null, "type": "subworkflow", From 6b3a82dc8286111f90938858e00348b2219bfd3a Mon Sep 17 00:00:00 2001 From: planemo-autoupdate Date: Mon, 15 Apr 2024 04:47:44 +0000 Subject: [PATCH 3/5] Updating workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b from 0.6 to 0.7 --- .../Purging-duplicates-one-haplotype-VGP6b.ga | 16 ++++++++-------- 1 file changed, 8 insertions(+), 8 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga index 33471cf7a..27d84b49a 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga @@ -15,7 +15,7 @@ ], "format-version": "0.1", "license": "CC-BY-4.0", - "release": "0.6", + "release": "0.7", "name": "Purging-duplicates-one-haplotype-VGP6b ", "steps": { "0": { @@ -1041,7 +1041,7 @@ } }, "tags": "", - "uuid": "ce2ae327-790d-4e7c-b3ad-d4964a2ebd13" + "uuid": "73cf219c-2bb7-44a2-8fca-634fc6cbe658" }, "tool_id": null, "type": "subworkflow", @@ -1550,7 +1550,7 @@ }, "25": { "annotation": "", - "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy3", + "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy4", "errors": null, "id": 25, "input_connections": { @@ -1651,15 +1651,15 @@ "output_name": "wig_files" } }, - "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy3", + "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy4", "tool_shed_repository": { - "changeset_revision": "d7edbc9c3a07", + "changeset_revision": "eb7b00ec347d", "name": "merqury", "owner": "iuc", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"label\": \"output_merqury\", \"mode\": {\"options\": \"default\", \"__current_case__\": 0, \"meryldb_F1\": {\"__class__\": \"ConnectedValue\"}, \"assembly_options\": {\"number_assemblies\": \"two\", \"__current_case__\": 1, \"assembly_01\": {\"__class__\": \"ConnectedValue\"}, \"assembly_02\": {\"__class__\": \"ConnectedValue\"}}}, \"output_add_headers\": false, \"output_selector\": [\"qv\", \"plots\", \"stats\", \"log\"], \"__page__\": null, \"__rerun_remap_job_id__\": null}", - "tool_version": "1.3+galaxy3", + "tool_version": "1.3+galaxy4", "type": "tool", "uuid": "4c0ee7aa-643d-4583-b507-0def031e329b", "when": null, @@ -2310,7 +2310,7 @@ } }, "tags": "", - "uuid": "d40b64a1-ac9c-44d3-9d94-199db99792a9" + "uuid": "8525ca75-cd02-40ba-81a3-96467db2d501" }, "tool_id": null, "type": "subworkflow", @@ -2882,7 +2882,7 @@ } }, "tags": "", - "uuid": "097ca4eb-1cb3-43a8-8525-25341d6b2200" + "uuid": "c729757d-e021-4184-959d-2c722f2ec190" }, "tool_id": null, "type": "subworkflow", From d5f2e11d1e1df49cf9202d063eceea02eaeb1335 Mon Sep 17 00:00:00 2001 From: Delphine Lariviere Date: Mon, 22 Apr 2024 10:39:16 -0400 Subject: [PATCH 4/5] added all automatic updates CHANGELOG.md --- .../Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md index 6cf15f510..2b5663068 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/CHANGELOG.md @@ -1,12 +1,14 @@ # Changelog -## [0.5] 2024-04-01 +## [0.5] 2024-04-22 ### Automatic update - `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1` - `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/9.3+galaxy1` - `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/9.3+galaxy1` - `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/9.3+galaxy1` +- `toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy3` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3+galaxy4` +- `toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.27+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.28+galaxy0` ## [0.4] 2024-03-25 @@ -27,4 +29,4 @@ ### Added -- Workflow for purging duplication in contigs in single haplotype \ No newline at end of file +- Workflow for purging duplication in contigs in single haplotype From 0d94d1cb22eaab2d1b2958e996aa52b55b8a73b1 Mon Sep 17 00:00:00 2001 From: Delphine Lariviere Date: Mon, 22 Apr 2024 10:39:54 -0400 Subject: [PATCH 5/5] change version number --- .../Purging-duplicates-one-haplotype-VGP6b.ga | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga index 27d84b49a..157930135 100644 --- a/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga +++ b/workflows/VGP-assembly-v2/Purge-duplicates-one-haplotype-VGP6b/Purging-duplicates-one-haplotype-VGP6b.ga @@ -15,7 +15,7 @@ ], "format-version": "0.1", "license": "CC-BY-4.0", - "release": "0.7", + "release": "0.5", "name": "Purging-duplicates-one-haplotype-VGP6b ", "steps": { "0": { @@ -2964,4 +2964,4 @@ ], "uuid": "8bc1fd02-cd63-4750-8856-7286a10ef14d", "version": 15 -} \ No newline at end of file +}