Как извлечь массив массива в виде TSV из JSON с помощью JQ? - PullRequest
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Как извлечь массив массива в виде TSV из JSON с помощью JQ?

0 голосов
/ 02 октября 2019

Я хотел бы извлечь данные отсюда.

http://d2p2.pro/api/seqid/["P04637","P51608"]

В настоящее время я использую .[] | [ .[][0], .[][2]["disorder"]["consranges"][] ]. И я получаю это. 

[
  "P04637",
  [
    "1",
    "22"
  ],
  [
    "26",
    "27"
  ],
  [
    "30",
    "31"
  ],
  [
    "33",
    "97"
  ],
  [
    "281",
    "329"
  ],
  [
    "343",
    "393"
  ]
]
[
  "P51608",
  [
    "1",
    "118"
  ],
  [
    "151",
    "281"
  ],
  [
    "283",
    "486"
  ]
]

Но я хочу получить результат в формате TSV, как этот. 

P04637<TAB>1<TAB>22
P04637<TAB>26<TAB>27
...

Кто-нибудь знает, какова правильная команда jq для извлечениявыводить в этом формате?

РЕДАКТИРОВАТЬ:

Из следующих файлов: 

==> 1.json <==
{"P51608":[["P51608","Uniprot 2018_03 genome",{"structure":{"weak":[],"pfam":[["Domain","CL0081","PF01429.14","MBD","Methyl-CpG binding domain","4e-21","74.3","90","164"]],"strong":[["DNA-binding domain","54171","6.54e-33","Methyl-CpG-binding domain, MBD","54178","0.000000724","73-187"]]},"disorder":{"disranges":[["VLXT","1","120"],["VSL2b","1","117"],["PrDOS","1","93"],["PV2","1","118"],["IUPred-S","1","10"],["IUPred-L","1","113"],["Espritz-N","1","133"],["Espritz-X","1","119"],["Espritz-D","1","486"],["IUPred-S","13","111"],["IUPred-L","115","126"],["IUPred-L","136","137"],["Espritz-N","141","243"],["IUPred-L","143","143"],["PV2","146","486"],["Espritz-X","146","218"],["VSL2b","150","486"],["IUPred-L","150","214"],["IUPred-S","153","214"],["PrDOS","161","486"],["VLXT","163","209"],["IUPred-S","216","216"],["IUPred-L","216","486"],["IUPred-S","218","218"],["IUPred-S","220","278"],["Espritz-X","226","243"],["VLXT","234","281"],["Espritz-N","252","263"],["Espritz-N","266","273"],["Espritz-N","283","294"],["Espritz-X","285","289"],["VLXT","290","319"],["Espritz-N","298","312"],["Espritz-X","318","486"],["Espritz-N","324","486"],["VLXT","334","362"],["IUPred-S","334","486"],["VLXT","377","436"],["VLXT","446","483"],["VLXT","485","485"]],"conflict":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,8,8,8,7,6,5,4,4,4,4,4,3,3,2,2,2,2,2,2,1,1,2,2,1,1,1,2,2,4,3,2,4,4,4,4,6,7,7,7,7,7,7,7,7,7,7,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0],"consranges":[["1","118"],["151","281"],["283","486"]],"consensus":[9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,8,8,8,7,6,5,4,4,4,4,4,3,3,2,2,2,2,2,2,1,1,2,2,1,1,1,2,2,4,3,2,4,4,4,4,6,7,7,7,7,7,7,7,7,7,7,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,7,7,7,8,7,7,7,7,7,7,7,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,7,7,7,7,7,7,7,7,8,8,8,8,8,8,8,8,8,8,8,8,7,7,8,8,8,8,8,8,8,8,7,7,7,7,7,7,7,7,6,7,7,8,8,8,8,8,8,8,8,8,8,7,7,7,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,7,7,7,7,8,8,7,7,7,7,8,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,9,8]}}]],"P01106":[]}
==> 2.json <==
{"P01106":[],"P51608":[["P51608","Uniprot 2018_03 genome",{"structure":{"strong":[["DNA-binding domain","54171","6.54e-33","Methyl-CpG-binding domain, MBD","54178","0.000000724","73-187"]],"weak":[],"pfam":[["Domain","CL0081","PF01429.14","MBD","Methyl-CpG binding domain","4e-21","74.3","90","164"]]},"disorder":{"conflict":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,8,8,8,7,6,5,4,4,4,4,4,3,3,2,2,2,2,2,2,1,1,2,2,1,1,1,2,2,4,3,2,4,4,4,4,6,7,7,7,7,7,7,7,7,7,7,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0],"consranges":[["1","118"],["151","281"],["283","486"]],"disranges":[["VLXT","1","120"],["VSL2b","1","117"],["PrDOS","1","93"],["PV2","1","118"],["IUPred-S","1","10"],["IUPred-L","1","113"],["Espritz-N","1","133"],["Espritz-X","1","119"],["Espritz-D","1","486"],["IUPred-S","13","111"],["IUPred-L","115","126"],["IUPred-L","136","137"],["Espritz-N","141","243"],["IUPred-L","143","143"],["PV2","146","486"],["Espritz-X","146","218"],["VSL2b","150","486"],["IUPred-L","150","214"],["IUPred-S","153","214"],["PrDOS","161","486"],["VLXT","163","209"],["IUPred-S","216","216"],["IUPred-L","216","486"],["IUPred-S","218","218"],["IUPred-S","220","278"],["Espritz-X","226","243"],["VLXT","234","281"],["Espritz-N","252","263"],["Espritz-N","266","273"],["Espritz-N","283","294"],["Espritz-X","285","289"],["VLXT","290","319"],["Espritz-N","298","312"],["Espritz-X","318","486"],["Espritz-N","324","486"],["VLXT","334","362"],["IUPred-S","334","486"],["VLXT","377","436"],["VLXT","446","483"],["VLXT","485","485"]],"consensus":[9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,8,8,8,7,6,5,4,4,4,4,4,3,3,2,2,2,2,2,2,1,1,2,2,1,1,1,2,2,4,3,2,4,4,4,4,6,7,7,7,7,7,7,7,7,7,7,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,7,7,7,8,7,7,7,7,7,7,7,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,7,7,7,7,7,7,7,7,8,8,8,8,8,8,8,8,8,8,8,8,7,7,8,8,8,8,8,8,8,8,7,7,7,7,7,7,7,7,6,7,7,8,8,8,8,8,8,8,8,8,8,7,7,7,8,8,8,8,8,8,8,8,8,8,8,8,8,8,8,7,7,7,7,7,8,8,7,7,7,7,8,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,8,8,8,8,8,8,8,8,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,9,8,9,8]}}]]}

Вот вывод. Таким образом, «try (. [] [0]) | [. [0]] + (. [2] .disorder.consranges []) | @tsv» зависит от порядка записей во входных данных. Следовательно, оно не устойчиво. 

$ jq -r "try(.[][0]) | [.[0]] + (.[2].disorder.consranges[]) | @tsv" < /tmp/1.json
P51608  1   118
P51608  151 281
P51608  283 486
$ jq -r "try(.[][0]) | [.[0]] + (.[2].disorder.consranges[]) | @tsv" < /tmp/2.json

1 Ответ

1 голос
/ 02 октября 2019

Следующий фильтр выдает результаты, как показано ниже, которые соответствуют данным в вопросе, поэтому, надеюсь, это даст вам руководство, которое вы ищете: 

.[][0]
| [.[0]] + (.[2].disorder.consranges[])
| @tsv

Вывод 

P04637  1   22
P04637  26  27
P04637  30  31
P04637  33  97
P04637  281 329
P04637  343 393
P51608  1   118
P51608  151 281
P51608  283 486

Robustification

Требования не очень ясны в отношении устойчивости, но разброс одного или нескольких операторов try вокруг придаст меру надежности. Следующее будет обрабатывать оба варианта в обновлении Q: 

  .[][0]
  | try [.[0]] + (.[2].disorder.consranges[])
  | @tsv

Гибкость

Вот иллюстрация одного способа увеличить гибкость программы по отношению к структуревходов, без использования try вообще: 

.[][]
| .[0] as $p
| ..
| objects
| select(has("disorder"))
| [$p] + (.disorder.consranges[])
| @tsv

Но будьте осторожны, что вы хотите!

...