Mercurial > repos > iuc > hyphy_relax
view test-data/params.json @ 16:ea64cc9a06e4 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hyphy/ commit f6cabbd9eb2eea9f5d44fe9836cc5f6d6087a839"
| author | iuc |
|---|---|
| date | Fri, 30 Oct 2020 16:23:49 +0000 |
| parents | 551616a65f8f |
| children |
line wrap: on
line source
{ "filepath": "/home/sweaver/datamonkey/datamonkey-js-dev/app/models/../../uploads/msa/5446bc0d355080301f18a8c6.fasta", "msa": [ { "rawsites": 1698, "nj": "(((((((TREESPARROW_HENAN_1_2004:0.0111333782927653,TREESPARROW_HENAN_3_2004:0.006193745941169043):0.0009956664967877545,TREESPARROW_HENAN_4_2004:0.004351652686857959):0.002267763895256407,(CHICKEN_HEBEI_326_2005:0.02100885319673648,(SWINE_ANHUI_1_2004:0.007702393698306516,TREESPARROW_HENAN_2_2004:0.009062780987312381):0.002095219592954275):0.003887237703073042):0.003404921392531202,(((CHICKEN_HONGKONG_915_97:-0.001089936320307174,(GOOSE_HONGKONG_W355_97:-0.002798420018760263,DUCK_HONGKONG_Y283_97:0.002798420018760263):0.002899766890966483):0.001306376767766534,HONGKONG_1_97_98:0.003844928589233716):0.000182535836694054,HONGKONG_1_538_97:-8.034074555865944e-05):0.02096173714686362):0.003130608143291779,(((DUCK_GUANGZHOU_20_2005:0.006299389645455026,GOOSE_SHANTOU_2216_2005:0.006207842095177651):0.002530613798219486,PEREGRINEFALCON_HK_D0028_2004:0.003608296348267232):0.003288900909856382,CK_HK_WF157_2003:0.00663129750258774):0.004655295319725731):0.0116808817874948,(((HUMAN_VIETNAM_CL105_2005:0.006521522005742001,DUCK_VIETNAM_376_2005:0.007877615936285868):0.001967887030302483,HUMAN_VIETNAM_3062_2004:0.001641397323851184):0.0003125512332168847,MALLARD_VIETNAM_16_2003:0.003244216605281072):0.0004125980823087554):0.0003400912533471183,CHICKEN_CK_160_2005:0.006168335080088849,DUCK_VIETNAM_272_2005:0.009465302724994452)", "goodtree": 0, "sequences": 21, "sites": 566, "partitions": 1, "analysis_type": "1", "gencodeid": 0, "datatype": 0, "_id": "5446bc0d355080301f18a8c7", "created": "2014-10-21T20:03:25.803Z", "sequence_info": [ { "seqindex": 0, "name": "TREESPARROW_HENAN_1_2004", "_id": "5446bc0d355080301f18a8c8" }, { "seqindex": 1, "name": "HUMAN_VIETNAM_CL105_2005", "_id": "5446bc0d355080301f18a8c9" }, { "seqindex": 2, "name": "TREESPARROW_HENAN_4_2004", "_id": "5446bc0d355080301f18a8ca" }, { "seqindex": 3, "name": "CHICKEN_HEBEI_326_2005", "_id": "5446bc0d355080301f18a8cb" }, { "seqindex": 4, "name": "CHICKEN_HONGKONG_915_97", "_id": "5446bc0d355080301f18a8cc" }, { "seqindex": 5, "name": "HUMAN_VIETNAM_3062_2004", "_id": "5446bc0d355080301f18a8cd" }, { "seqindex": 6, "name": "GOOSE_HONGKONG_W355_97", "_id": "5446bc0d355080301f18a8ce" }, { "seqindex": 7, "name": "DUCK_HONGKONG_Y283_97", "_id": "5446bc0d355080301f18a8cf" }, { "seqindex": 8, "name": "DUCK_VIETNAM_376_2005", "_id": "5446bc0d355080301f18a8d0" }, { "seqindex": 9, "name": "MALLARD_VIETNAM_16_2003", "_id": "5446bc0d355080301f18a8d1" }, { "seqindex": 10, "name": "CHICKEN_CK_160_2005", "_id": "5446bc0d355080301f18a8d2" }, { "seqindex": 11, "name": "DUCK_GUANGZHOU_20_2005", "_id": "5446bc0d355080301f18a8d3" }, { "seqindex": 12, "name": "CK_HK_WF157_2003", "_id": "5446bc0d355080301f18a8d4" }, { "seqindex": 13, "name": "SWINE_ANHUI_1_2004", "_id": "5446bc0d355080301f18a8d5" }, { "seqindex": 14, "name": "DUCK_VIETNAM_272_2005", "_id": "5446bc0d355080301f18a8d6" }, { "seqindex": 15, "name": "HONGKONG_1_97_98", "_id": "5446bc0d355080301f18a8d7" }, { "seqindex": 16, "name": "GOOSE_SHANTOU_2216_2005", "_id": "5446bc0d355080301f18a8d8" }, { "seqindex": 17, "name": "TREESPARROW_HENAN_3_2004", "_id": "5446bc0d355080301f18a8d9" }, { "seqindex": 18, "name": "PEREGRINEFALCON_HK_D0028_2004", "_id": "5446bc0d355080301f18a8da" }, { "seqindex": 19, "name": "TREESPARROW_HENAN_2_2004", "_id": "5446bc0d355080301f18a8db" }, { "seqindex": 20, "name": "HONGKONG_1_538_97", "_id": "5446bc0d355080301f18a8dc" } ], "partition_info": [ { "partition": 1, "startcodon": 0, "endcodon": 1697, "span": 1698, "_id": "5446bc0d355080301f18a8dd" } ] } ], "analysis": { "status": "In Queue", "tagged_nwk_tree": "(((((((TREESPARROW_HENAN_1_2004{FG}:0.0111333782927653,TREESPARROW_HENAN_3_2004{FG}:0.006193745941169043):0.0009956664967877545,TREESPARROW_HENAN_4_2004:0.004351652686857959):0.002267763895256407,(CHICKEN_HEBEI_326_2005:0.02100885319673648,(SWINE_ANHUI_1_2004:0.007702393698306516,TREESPARROW_HENAN_2_2004:0.00906278098731238):0.002095219592954275):0.003887237703073042):0.003404921392531202,(((CHICKEN_HONGKONG_915_97,(GOOSE_HONGKONG_W355_97,DUCK_HONGKONG_Y283_97:0.002798420018760263):0.002899766890966483):0.001306376767766534,HONGKONG_1_97_98:0.003844928589233716):0.000182535836694054,HONGKONG_1_538_97):0.02096173714686362):0.003130608143291779,(((DUCK_GUANGZHOU_20_2005:0.006299389645455026,GOOSE_SHANTOU_2216_2005:0.006207842095177651):0.002530613798219486,PEREGRINEFALCON_HK_D0028_2004:0.003608296348267232):0.003288900909856382,CK_HK_WF157_2003:0.00663129750258774):0.004655295319725731):0.0116808817874948,(((HUMAN_VIETNAM_CL105_2005:0.006521522005742001,DUCK_VIETNAM_376_2005:0.007877615936285868):0.001967887030302483,HUMAN_VIETNAM_3062_2004:0.001641397323851184):0.0003125512332168847,MALLARD_VIETNAM_16_2003:0.003244216605281072):0.0004125980823087554):0.0003400912533471183,CHICKEN_CK_160_2005:0.006168335080088849,DUCK_VIETNAM_272_2005:0.009465302724994452)", "_id": "5446bc0d355080301f18a8c6", "__t": "Busted", "mail": "sweaver@ucsd.edu", "analysis_type": 1, "__v": 0, "msa": [ { "partition_info": [ { "_id": "5446bc0d355080301f18a8dd", "span": 1698, "endcodon": 1697, "startcodon": 0, "partition": 1 } ], "sequence_info": [ { "_id": "5446bc0d355080301f18a8c8", "name": "TREESPARROW_HENAN_1_2004", "seqindex": 0 }, { "_id": "5446bc0d355080301f18a8c9", "name": "HUMAN_VIETNAM_CL105_2005", "seqindex": 1 }, { "_id": "5446bc0d355080301f18a8ca", "name": "TREESPARROW_HENAN_4_2004", "seqindex": 2 }, { "_id": "5446bc0d355080301f18a8cb", "name": "CHICKEN_HEBEI_326_2005", "seqindex": 3 }, { "_id": "5446bc0d355080301f18a8cc", "name": "CHICKEN_HONGKONG_915_97", "seqindex": 4 }, { "_id": "5446bc0d355080301f18a8cd", "name": "HUMAN_VIETNAM_3062_2004", "seqindex": 5 }, { "_id": "5446bc0d355080301f18a8ce", "name": "GOOSE_HONGKONG_W355_97", "seqindex": 6 }, { "_id": "5446bc0d355080301f18a8cf", "name": "DUCK_HONGKONG_Y283_97", "seqindex": 7 }, { "_id": "5446bc0d355080301f18a8d0", "name": "DUCK_VIETNAM_376_2005", "seqindex": 8 }, { "_id": "5446bc0d355080301f18a8d1", "name": "MALLARD_VIETNAM_16_2003", "seqindex": 9 }, { "_id": "5446bc0d355080301f18a8d2", "name": "CHICKEN_CK_160_2005", "seqindex": 10 }, { "_id": "5446bc0d355080301f18a8d3", "name": "DUCK_GUANGZHOU_20_2005", "seqindex": 11 }, { "_id": "5446bc0d355080301f18a8d4", "name": "CK_HK_WF157_2003", "seqindex": 12 }, { "_id": "5446bc0d355080301f18a8d5", "name": "SWINE_ANHUI_1_2004", "seqindex": 13 }, { "_id": "5446bc0d355080301f18a8d6", "name": "DUCK_VIETNAM_272_2005", "seqindex": 14 }, { "_id": "5446bc0d355080301f18a8d7", "name": "HONGKONG_1_97_98", "seqindex": 15 }, { "_id": "5446bc0d355080301f18a8d8", "name": "GOOSE_SHANTOU_2216_2005", "seqindex": 16 }, { "_id": "5446bc0d355080301f18a8d9", "name": "TREESPARROW_HENAN_3_2004", "seqindex": 17 }, { "_id": "5446bc0d355080301f18a8da", "name": "PEREGRINEFALCON_HK_D0028_2004", "seqindex": 18 }, { "_id": "5446bc0d355080301f18a8db", "name": "TREESPARROW_HENAN_2_2004", "seqindex": 19 }, { "_id": "5446bc0d355080301f18a8dc", "name": "HONGKONG_1_538_97", "seqindex": 20 } ], "created": "2014-10-21T20:03:25.803Z", "_id": "5446bc0d355080301f18a8c7", "datatype": 0, "gencodeid": 0, "partitions": 1, "sites": 566, "sequences": 21, "goodtree": 0, "nj": "(((((((TREESPARROW_HENAN_1_2004:0.0111333782927653,TREESPARROW_HENAN_3_2004:0.006193745941169043):0.0009956664967877545,TREESPARROW_HENAN_4_2004:0.004351652686857959):0.002267763895256407,(CHICKEN_HEBEI_326_2005:0.02100885319673648,(SWINE_ANHUI_1_2004:0.007702393698306516,TREESPARROW_HENAN_2_2004:0.009062780987312381):0.002095219592954275):0.003887237703073042):0.003404921392531202,(((CHICKEN_HONGKONG_915_97:-0.001089936320307174,(GOOSE_HONGKONG_W355_97:-0.002798420018760263,DUCK_HONGKONG_Y283_97:0.002798420018760263):0.002899766890966483):0.001306376767766534,HONGKONG_1_97_98:0.003844928589233716):0.000182535836694054,HONGKONG_1_538_97:-8.034074555865944e-05):0.02096173714686362):0.003130608143291779,(((DUCK_GUANGZHOU_20_2005:0.006299389645455026,GOOSE_SHANTOU_2216_2005:0.006207842095177651):0.002530613798219486,PEREGRINEFALCON_HK_D0028_2004:0.003608296348267232):0.003288900909856382,CK_HK_WF157_2003:0.00663129750258774):0.004655295319725731):0.0116808817874948,(((HUMAN_VIETNAM_CL105_2005:0.006521522005742001,DUCK_VIETNAM_376_2005:0.007877615936285868):0.001967887030302483,HUMAN_VIETNAM_3062_2004:0.001641397323851184):0.0003125512332168847,MALLARD_VIETNAM_16_2003:0.003244216605281072):0.0004125980823087554):0.0003400912533471183,CHICKEN_CK_160_2005:0.006168335080088849,DUCK_VIETNAM_272_2005:0.009465302724994452)", "rawsites": 1698 } ], "created": "2014-10-21T20:03:25.798Z" }, "status_stack": [ "In Queue", "Running", "Completed" ], "type": "relax" }