UNPKG

flowviz

Version:

A framework which provides seamless integration with other phylogenetic tools and frameworks, while allowing workflow scheduling and execution, through the Apache Airflow workflow system.

1 lines 9.32 kB
{"_type":"export","__export_format":4,"__export_date":"2022-05-01T23:43:56.657Z","__export_source":"insomnia.desktop.app:v2022.2.1","resources":[{"_id":"req_a1d64c54f7d144238f4d6663c4618f40","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1650381272953,"created":1649863057184,"url":"http://localhost:9200/library","name":"index","description":"","method":"DELETE","body":{},"parameters":[],"headers":[],"authentication":{},"metaSortKey":-1649863057184,"isPrivate":false,"settingStoreCookies":true,"settingSendCookies":true,"settingDisableRenderRequestBody":false,"settingEncodeUrl":true,"settingRebuildPath":true,"settingFollowRedirects":"global","_type":"request"},{"_id":"wrk_7869c75ca78b4ebe908831704ff3400c","parentId":null,"modified":1648673695654,"created":1648673695654,"name":"New Document","description":"","scope":"design","_type":"workspace"},{"_id":"req_a197e8a13edf46358a28fb0bce821d0f","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1651441650226,"created":1648675648628,"url":"http://localhost:3000/library","name":"library","description":"","method":"POST","body":{"mimeType":"application/json","text":"{\n \"name\": \"Phylolib\",\n \"description\": \"A library of efficient algorithms for phylogenetic analysis\",\n \"library\": {\n\t\t\t\t\"machineAddress\": \"localhost:5555\",\n\t\t\t\t\"image\": \"luanab/phylolib\",\t\t\t\t\n \"name\": \"phylolib\",\n\t\t\t \"commandGroups\": [\n\t\t\t\t\t{\n\t\t\t\t\t\t\"groupName\": \"Arguments\",\n\t\t\t\t\t\t\"order\": 0,\n\t\t\t\t\t\t\"allowedCommandRepetition\": false,\n\t\t\t\t\t\t\"commands\": [\n\t\t\t\t\t\t\t{ \n \"name\": \"help\",\n\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\"help\"\n\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\"name\": \"distance\",\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\"distance\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\"hamming\",\n\t\t\t\t\t\t\t\t\t\t\t\"grapetree\",\n\t\t\t\t\t\t\t\t\t\t\t\"kimura\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedCommandSets\": [\n\t\t\t\t\t\t\t\t\t\t\t\"Options\"\n\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\"name\": \"correction\",\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\"correction\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\"jukescantor\"\t\t\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedCommandSets\": [\n\t\t\t\t\t\t\t\t\t\t\t\"Options\"\n\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\"name\": \"algorithm\",\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\"algorithm\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\"goeburst\",\n\t\t\t\t\t\t\t\t\t\t\t\"edmonds\",\n\t\t\t\t\t\t\t\t\t\t\t\"sl\",\n\t\t\t\t\t\t\t\t\t\t\t\"cl\",\n\t\t\t\t\t\t\t\t\t\t\t\"upgma\",\n\t\t\t\t\t\t\t\t\t\t\t\"upgmc\",\n\t\t\t\t\t\t\t\t\t\t\t\"wpgma\",\n\t\t\t\t\t\t\t\t\t\t\t\"wpgmc\",\n\t\t\t\t\t\t\t\t\t\t\t\"saitounei\",\n\t\t\t\t\t\t\t\t\t\t\t\"studierkepler\",\n\t\t\t\t\t\t\t\t\t\t\t\"unj\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedCommandSets\": [\n\t\t\t\t\t\t\t\t\t\t\t\"Options\"\n\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\"name\": \"optimization\",\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\"optimization\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\"lbr\"\n\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\"allowedCommandSets\": [\n\t\t\t\t\t\t\t\t\t\t\t\"Options\"\n\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t}\n\t\t\t\t\t\t]\n\t\t\t\t\t},\n\t\t\t\t\t{\n\t\t\t\t\t\t\"groupName\": \"Options\",\n\t\t\t\t\t\t\"order\": 1,\n\t\t\t\t\t\t\"allowedCommandRepetition\": true,\n\t\t\t\t\t\t\"commands\": [\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\"name\": \"File Output\",\n\t\t\t\t\t\t\t\t\t\t\"description\": \"Output file as <format>:<location> with format being (asymmetric|symmetric|newick|nexus)\",\n\t\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"-o\",\n\t\t\t\t\t\t\t\t\t\t\t\t\"--out\"\n\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"file\"\t\t\t\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\"name\": \"Dataset Input\",\n\t\t\t\t\t\t\t\t\t\t\"description\": \"Input dataset file as <format>:<location> with format being (fasta|ml|snp)\",\n\t\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"-d\",\n\t\t\t\t\t\t\t\t\t\t\t\t\"--dataset\"\n\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"file\"\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\"name\": \"Distance Matrix Input\",\n\t\t\t\t\t\t\t\t\t\t\"description\": \"IInput distance matrix file as <format>:<location> with format being (asymmetric|symmetric)\",\n\t\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"-m\",\n\t\t\t\t\t\t\t\t\t\t\t\t\"--matrix\"\n\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"file\"\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\"name\": \"Phylogenetic Tree Input\",\n\t\t\t\t\t\t\t\t\t\t\"description\": \"Input phylogenetic tree file as <format>:<location> with format being (newick|nexus)\",\n\t\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"-m\",\n\t\t\t\t\t\t\t\t\t\t\t\t\"--matrix\"\n\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"file\"\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t},\n\t\t\t\t\t\t\t\t{\n\t\t\t\t\t\t\t\t\t\t\"name\": \"Limit of focus variants\",\n\t\t\t\t\t\t\t\t\t\t\"description\": \"Limit of locus variants to consider using goeBURST algorithm [default: 3]\",\n\t\t\t\t\t\t\t\t\t\t\"invocation\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"-l\",\n\t\t\t\t\t\t\t\t\t\t\t\t\"--lvs\"\n\t\t\t\t\t\t\t\t\t\t],\n\t\t\t\t\t\t\t\t\t\t\"allowedValues\": [\n\t\t\t\t\t\t\t\t\t\t\t\t\"file\"\t\t\t\t\t\t\t\t\t\n\t\t\t\t\t\t\t\t\t\t]\n\t\t\t\t\t\t\t\t}\n\t\t\t\t\t\t]\t\n\t\t\t\t\t}\n\t\t\t\t\t\n\t\t\t\t] \n }\n}"},"parameters":[],"headers":[{"name":"Content-Type","value":"application/json","id":"pair_f944293b6d8842b6a5f5bf036c3e1b99"}],"authentication":{},"metaSortKey":-1648675648628,"isPrivate":false,"settingStoreCookies":true,"settingSendCookies":true,"settingDisableRenderRequestBody":false,"settingEncodeUrl":true,"settingRebuildPath":true,"settingFollowRedirects":"global","_type":"request"},{"_id":"req_c3720683d7fe43ed84201e1730404caf","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1650548175971,"created":1648673695675,"url":"http://localhost:3000/library/","name":"libraries","description":"","method":"GET","body":{},"parameters":[],"headers":[],"authentication":{},"metaSortKey":-1648673695675,"isPrivate":false,"settingStoreCookies":true,"settingSendCookies":true,"settingDisableRenderRequestBody":false,"settingEncodeUrl":true,"settingRebuildPath":true,"settingFollowRedirects":"global","_type":"request"},{"_id":"req_83bbf7ed648c4cb39800109178b1a43f","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1650555534450,"created":1648679985265,"url":"http://localhost:3000/library/Phylolib","name":"library","description":"","method":"GET","body":{},"parameters":[],"headers":[],"authentication":{},"metaSortKey":-1648673695625,"isPrivate":false,"settingStoreCookies":true,"settingSendCookies":true,"settingDisableRenderRequestBody":false,"settingEncodeUrl":true,"settingRebuildPath":true,"settingFollowRedirects":"global","_type":"request"},{"_id":"req_550c34bd11c048bd960153e50e561ab1","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1650547734726,"created":1648680225159,"url":"mongodb://localhost:17017","name":"elasticsearch","description":"","method":"GET","body":{},"parameters":[],"headers":[],"authentication":{},"metaSortKey":-1648673695575,"isPrivate":false,"settingStoreCookies":true,"settingSendCookies":true,"settingDisableRenderRequestBody":false,"settingEncodeUrl":true,"settingRebuildPath":true,"settingFollowRedirects":"global","_type":"request"},{"_id":"env_2e5fa9b84faeb50c2fd8fafc29a37bdd43a7e847","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1648673695669,"created":1648673695669,"name":"Base Environment","data":{},"dataPropertyOrder":null,"color":null,"isPrivate":false,"metaSortKey":1648673695669,"_type":"environment"},{"_id":"jar_2e5fa9b84faeb50c2fd8fafc29a37bdd43a7e847","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1648673695673,"created":1648673695673,"name":"Default Jar","cookies":[],"_type":"cookie_jar"},{"_id":"spc_16f9246c2f014fe19dc5651a3bfaba55","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1651448022114,"created":1648673695664,"fileName":"FLOWViZ","contents":"","contentType":"yaml","_type":"api_spec"},{"_id":"uts_79ef671f90824f3fa8f56fc335b9b043","parentId":"wrk_7869c75ca78b4ebe908831704ff3400c","modified":1648673695677,"created":1648673695677,"name":"Example Test Suite","_type":"unit_test_suite"}]}