Início / unix / Perguntas / 559204
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user977828
Asked: 2019-12-28 13:54:40 +0800 CST

classificar no tubo não funciona

  • 772

Tenho muitos desses arquivos e gostaria de saber qual é o maior consumo de memória (Mem)

$ cat utg006012l-racon-2.fasta.o5230935
[racon::Polisher::initialize] loaded target sequences 0.013133 s
[racon::Polisher::initialize] loaded sequences 6.667809 s
[racon::Polisher::initialize] loaded overlaps 6.267742 s
[racon::Polisher::initialize] aligning overlaps [=>                  ] 8.633518 s^M[racon::Polisher::initialize] aligning overlaps [==>                 ] 9.058757 s^M[racon::Polisher::initialize] aligning overlaps [===>                ] 9.490215 s^M[racon::Polisher::initialize] aligning overlaps [====>               ] 9.760396 s^M[racon::Polisher::initialize] aligning overlaps [=====>              ] 10.008019 s^M[racon::Polisher::initialize] aligning overlaps [======>             ] 10.332580 s^M[racon::Polisher::initialize] aligning overlaps [=======>            ] 10.681680 s^M[racon::Polisher::initialize] aligning overlaps [========>           ] 11.022209 s^M[racon::Polisher::initialize] aligning overlaps [=========>          ] 11.350026 s^M[racon::Polisher::initialize] aligning overlaps [==========>         ] 11.675731 s^M[racon::Polisher::initialize] aligning overlaps [===========>        ] 12.004713 s^M[racon::Polisher::initialize] aligning overlaps [============>       ] 12.330591 s^M[racon::Polisher::initialize] aligning overlaps [=============>      ] 12.650907 s^M[racon::Polisher::initialize] aligning overlaps [==============>     ] 12.965631 s^M[racon::Polisher::initialize] aligning overlaps [===============>    ] 13.271211 s^M[racon::Polisher::initialize] aligning overlaps [================>   ] 13.553430 s^M[racon::Polisher::initialize] aligning overlaps [=================>  ] 13.825148 s^M[racon::Polisher::initialize] aligning overlaps [==================> ] 14.088558 s^M[racon::Polisher::initialize] aligning overlaps [===================>] 14.350089 s^M[racon::Polisher::initialize] aligning overlaps [====================] 14.598578 s
[racon::Polisher::initialize] transformed data into windows 0.542441 s
[racon::Polisher::polish] generated consensus 11154.363114 s
[racon::Polisher::] total = 11183.003787 s

-----
PBS Job 5230935.pbs
CPU time  : 03:05:52
Wall time : 03:06:38
Mem usage : 4960216kb

Eu usei grep "Mem" *-racon-2.fasta.o* | cut -d':' -f3 | sed 's|kb||'| sed 's|b||' |awk '{print $1}' | sort, mas não classificou a saída

582384
5832
5832
584004
584552
584928
585008
585144
585416
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586252
587792
588196
588852
589204
58992
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590704
591184
592112
5928
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5968
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597772
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6012
60300
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604240
60528
6064
606544
607448
608080

O que eu perdi?

Agradeço antecipadamente

awk sed

1 respostas

  1. Best Answer

    cut -d':' -f3irá extrair o 3º :campo delimitado de uma linha, mas a linha à qual você está aplicando se parece com

    Mem usage : 4960216kb

    ou seja, ele só tem dois campos:

    1. Mem usage , e
    2.  4960216kb.

    Para evitar esse pipeline prolixo, você pode usar

    sed -n '/^Mem/s/[^[:digit:]]*//gp' *-racon-2.fasta.o* | sort -n

    Isso usa uma única sedchamada para extrair as linhas que começam com a string Meme corta o número excluindo tudo o que não é um dígito nessas linhas. Em seguida, ele passa os números extraídos sort -npara uma classificação numérica.

    Isso seria equivalente a

    grep '^Mem' *-racon-2.fasta.o* | tr -d -c '[:digit:]\n' | sort -n
    • 3

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