Mercurial > repos > earlhaminst > geneseqtofamily
diff swissprot.ga @ 5:06470b2e491f draft
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/workflows/GeneSeqToFamily commit 2c7c545579169dda723cd7d91d9ccef1c5061fed
author | earlhaminst |
---|---|
date | Mon, 25 Jun 2018 18:50:55 -0400 |
parents | b92f5ab6d127 |
children |
line wrap: on
line diff
--- a/swissprot.ga Mon Nov 27 11:04:05 2017 -0500 +++ b/swissprot.ga Mon Jun 25 18:50:55 2018 -0400 @@ -2,11 +2,12 @@ "a_galaxy_workflow": "true", "annotation": "", "format-version": "0.1", - "name": "SwisProt scratch", + "name": "SwissProt", "steps": { "0": { "annotation": "", "content_id": null, + "errors": null, "id": 0, "input_connections": {}, "inputs": [ @@ -15,24 +16,30 @@ "name": "CDS" } ], - "label": null, + "label": "CDS", "name": "Input dataset", "outputs": [], "position": { - "left": 163.95219802856445, - "top": 290.93748664855957 + "left": 163.9375, + "top": 290.9375 }, - "tool_errors": null, "tool_id": null, "tool_state": "{\"name\": \"CDS\"}", "tool_version": null, "type": "data_input", "uuid": "4fb3c053-8997-48fe-a31b-e5ae64617009", - "workflow_outputs": [] + "workflow_outputs": [ + { + "label": null, + "output_name": "output", + "uuid": "81633688-02fb-4a42-a785-b784ffe3ee0e" + } + ] }, "1": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: transeq101/5.0.0", + "errors": null, "id": 1, "input_connections": { "input1": { @@ -55,8 +62,8 @@ } ], "position": { - "left": 500.90070724487305, - "top": 199.963228225708 + "left": 500.890625, + "top": 199.953125 }, "post_job_actions": { "HideDatasetActionout_file1": { @@ -65,10 +72,9 @@ "output_name": "out_file1" } }, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/emboss_5/EMBOSS: transeq101/5.0.0", "tool_shed_repository": { - "changeset_revision": "511429456d3c", + "changeset_revision": "1b6538ec8b56", "name": "emboss_5", "owner": "devteam", "tool_shed": "toolshed.g2.bx.psu.edu" @@ -82,6 +88,7 @@ "2": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.1.08", + "errors": null, "id": 2, "input_connections": { "query": { @@ -104,8 +111,8 @@ } ], "position": { - "left": 760.4779167175293, - "top": 292.49998664855957 + "left": 760.46875, + "top": 292.5 }, "post_job_actions": { "HideDatasetActionoutput1": { @@ -114,16 +121,15 @@ "output_name": "output1" } }, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.1.08", "tool_shed_repository": { - "changeset_revision": "3034ce97dd33", + "changeset_revision": "6f386c5dc4fb", "name": "ncbi_blast_plus", "owner": "devteam", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"blastp\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"db\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": \\\"\\\", \\\"__current_case__\\\": 0, \\\"database\\\": [\\\"swissprot\\\"]}\", \"output\": \"{\\\"out_format\\\": \\\"ext\\\", \\\"__current_case__\\\": 1}\", \"query\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\"}", - "tool_version": "0.1.08", + "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": null, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"db\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": \\\"\\\", \\\"__current_case__\\\": 0, \\\"database\\\": [\\\"swissprot\\\"]}\", \"query\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"blast_type\": \"\\\"blastp\\\"\", \"output\": \"{\\\"out_format\\\": \\\"ext\\\", \\\"__current_case__\\\": 1}\"}", + "tool_version": "0.2.01", "type": "tool", "uuid": "c751b0ee-57ca-4aef-bbf5-d201a6b799a3", "workflow_outputs": [] @@ -131,6 +137,7 @@ "3": { "annotation": "", "content_id": "Cut1", + "errors": null, "id": 3, "input_connections": { "input": { @@ -153,8 +160,8 @@ } ], "position": { - "left": 973.9337882995605, - "top": 572.8860034942627 + "left": 973.921875, + "top": 572.875 }, "post_job_actions": { "HideDatasetActionout_file1": { @@ -163,7 +170,6 @@ "output_name": "out_file1" } }, - "tool_errors": null, "tool_id": "Cut1", "tool_state": "{\"columnList\": \"\\\"c2\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"delimiter\": \"\\\"T\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", "tool_version": "1.0.2", @@ -174,6 +180,7 @@ "4": { "annotation": "", "content_id": "Cut1", + "errors": null, "id": 4, "input_connections": { "input": { @@ -196,8 +203,8 @@ } ], "position": { - "left": 983.9337882995605, - "top": 728.970537185669 + "left": 983.921875, + "top": 728.96875 }, "post_job_actions": { "HideDatasetActionout_file1": { @@ -206,7 +213,6 @@ "output_name": "out_file1" } }, - "tool_errors": null, "tool_id": "Cut1", "tool_state": "{\"columnList\": \"\\\"c2\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"delimiter\": \"\\\"P\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", "tool_version": "1.0.2", @@ -217,6 +223,7 @@ "5": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.1", + "errors": null, "id": 5, "input_connections": { "infile": { @@ -251,8 +258,8 @@ } ], "position": { - "left": 1315.9558219909668, - "top": 405.4779224395752 + "left": 1315.953125, + "top": 405.46875 }, "post_job_actions": { "HideDatasetActionoutfile_map": { @@ -276,15 +283,14 @@ "output_name": "outfile_retrieve_txt" } }, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.1", "tool_shed_repository": { - "changeset_revision": "cd2a41c65447", + "changeset_revision": "df4c547b2533", "name": "uniprot_rest_interface", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"__page__\": 0, \"tool\": \"{\\\"to\\\": {\\\"db_GenomeAnnotationDB\\\": \\\"ENSEMBL_TRS_ID\\\", \\\"__current_case__\\\": 9, \\\"category_TO\\\": \\\"GenomeAnnotationDB\\\"}, \\\"from\\\": {\\\"category_FROM\\\": \\\"uniprot\\\", \\\"db_uniprot_FROM\\\": \\\"ACC+ID\\\", \\\"__current_case__\\\": 0}, \\\"__current_case__\\\": 0, \\\"tool_choice\\\": \\\"map\\\"}\", \"__rerun_remap_job_id__\": null, \"id_column\": \"\\\"1\\\"\", \"infile\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\"}", + "tool_state": "{\"__page__\": 0, \"tool\": \"{\\\"to\\\": {\\\"db_GenomeAnnotationDB\\\": \\\"ENSEMBL_TRS_ID\\\", \\\"__current_case__\\\": 9, \\\"category_TO\\\": \\\"GenomeAnnotationDB\\\"}, \\\"from\\\": {\\\"category_FROM\\\": \\\"uniprot\\\", \\\"db_uniprot_FROM\\\": \\\"ACC+ID\\\", \\\"__current_case__\\\": 0}, \\\"__current_case__\\\": 0, \\\"tool_choice\\\": \\\"map\\\"}\", \"__rerun_remap_job_id__\": null, \"infile\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"id_column\": \"\\\"1\\\"\"}", "tool_version": "0.1", "type": "tool", "uuid": "8802d99a-7699-4c13-8d53-ea2c22280808", @@ -293,6 +299,7 @@ "6": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.1", + "errors": null, "id": 6, "input_connections": { "infile": { @@ -327,8 +334,8 @@ } ], "position": { - "left": 1326.9484977722168, - "top": 817.9227466583252 + "left": 1326.9375, + "top": 817.921875 }, "post_job_actions": { "HideDatasetActionoutfile_map": { @@ -352,15 +359,14 @@ "output_name": "outfile_retrieve_txt" } }, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.1", "tool_shed_repository": { - "changeset_revision": "cd2a41c65447", + "changeset_revision": "df4c547b2533", "name": "uniprot_rest_interface", "owner": "bgruening", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"__page__\": 0, \"tool\": \"{\\\"to\\\": {\\\"db_GenomeAnnotationDB\\\": \\\"P_ENTREZGENEID\\\", \\\"__current_case__\\\": 9, \\\"category_TO\\\": \\\"GenomeAnnotationDB\\\"}, \\\"from\\\": {\\\"category_FROM\\\": \\\"uniprot\\\", \\\"db_uniprot_FROM\\\": \\\"ACC+ID\\\", \\\"__current_case__\\\": 0}, \\\"__current_case__\\\": 0, \\\"tool_choice\\\": \\\"map\\\"}\", \"__rerun_remap_job_id__\": null, \"id_column\": \"\\\"1\\\"\", \"infile\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\"}", + "tool_state": "{\"__page__\": 0, \"tool\": \"{\\\"to\\\": {\\\"db_GenomeAnnotationDB\\\": \\\"P_ENTREZGENEID\\\", \\\"__current_case__\\\": 9, \\\"category_TO\\\": \\\"GenomeAnnotationDB\\\"}, \\\"from\\\": {\\\"category_FROM\\\": \\\"uniprot\\\", \\\"db_uniprot_FROM\\\": \\\"ACC+ID\\\", \\\"__current_case__\\\": 0}, \\\"__current_case__\\\": 0, \\\"tool_choice\\\": \\\"map\\\"}\", \"__rerun_remap_job_id__\": null, \"infile\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"id_column\": \"\\\"1\\\"\"}", "tool_version": "0.1", "type": "tool", "uuid": "011b53a7-1aae-4bf1-af40-2df13c2cf41b", @@ -369,6 +375,7 @@ "7": { "annotation": "", "content_id": "Cut1", + "errors": null, "id": 7, "input_connections": { "input": { @@ -391,8 +398,8 @@ } ], "position": { - "left": 1619.9815788269043, - "top": 493.40071296691895 + "left": 1619.96875, + "top": 493.390625 }, "post_job_actions": { "HideDatasetActionout_file1": { @@ -401,7 +408,6 @@ "output_name": "out_file1" } }, - "tool_errors": null, "tool_id": "Cut1", "tool_state": "{\"columnList\": \"\\\"c2\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"delimiter\": \"\\\"P\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", "tool_version": "1.0.2", @@ -412,6 +418,7 @@ "8": { "annotation": "", "content_id": "Cut1", + "errors": null, "id": 8, "input_connections": { "input": { @@ -434,8 +441,8 @@ } ], "position": { - "left": 1621.9668083190918, - "top": 869.908037185669 + "left": 1621.953125, + "top": 869.90625 }, "post_job_actions": { "HideDatasetActionout_file1": { @@ -444,7 +451,6 @@ "output_name": "out_file1" } }, - "tool_errors": null, "tool_id": "Cut1", "tool_state": "{\"columnList\": \"\\\"c2\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"delimiter\": \"\\\"T\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", "tool_version": "1.0.2", @@ -455,6 +461,7 @@ "9": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_sequences/get_sequences/0.1.2", + "errors": null, "id": 9, "input_connections": { "input": { @@ -477,19 +484,18 @@ } ], "position": { - "left": 1935.5881462097168, - "top": 501.12129402160645 + "left": 1935.578125, + "top": 501.109375 }, "post_job_actions": {}, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_sequences/get_sequences/0.1.2", "tool_shed_repository": { - "changeset_revision": "4b7261f484bb", + "changeset_revision": "bce784076824", "name": "ensembl_get_sequences", "owner": "earlhaminst", "tool_shed": "toolshed.g2.bx.psu.edu" }, - "tool_state": "{\"__page__\": 0, \"species_selector\": \"\\\"ensembl\\\"\", \"__rerun_remap_job_id__\": null, \"expand_3prime\": \"\\\"0\\\"\", \"type_selector\": \"\\\"genomic\\\"\", \"expand_5prime\": \"\\\"0\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\"}", + "tool_state": "{\"__page__\": 0, \"species_selector\": \"\\\"ensembl\\\"\", \"__rerun_remap_job_id__\": null, \"expand_3prime\": \"\\\"0\\\"\", \"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"expand_5prime\": \"\\\"0\\\"\", \"type_selector\": \"\\\"genomic\\\"\"}", "tool_version": "0.1.2", "type": "tool", "uuid": "1ad6ced1-1875-41d3-a075-f6b7049badc9", @@ -504,6 +510,7 @@ "10": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_feature_info/get_feature_info/0.1.2", + "errors": null, "id": 10, "input_connections": { "input": { @@ -526,14 +533,13 @@ } ], "position": { - "left": 1935.1285514831543, - "top": 894.0808277130127 + "left": 1935.125, + "top": 894.078125 }, "post_job_actions": {}, - "tool_errors": null, "tool_id": "toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_feature_info/get_feature_info/0.1.2", "tool_shed_repository": { - "changeset_revision": "840ea71e6318", + "changeset_revision": "10dc420f725a", "name": "ensembl_get_feature_info", "owner": "earlhaminst", "tool_shed": "toolshed.g2.bx.psu.edu" @@ -551,5 +557,6 @@ ] } }, - "uuid": "2aedea24-8fdc-4b58-b8b3-752b0ceba3e9" -} \ No newline at end of file + "tags": [], + "uuid": "ad63688b-8569-4d99-b86d-97e90141ce83" +}