ruby – 将复杂文件拆分为哈希

发布时间：2020-12-17 01:29:54 所属栏目：百科来源：网络整理

导读：我正在运行一个名为Primer 3的命令行程序.它接受一个输入文件并将数据返回到标准输出.我正在尝试编写一个接受该输入的 Ruby脚本,并将这些条目放入哈希. 返回的结果如下.我想在’=’符号上拆分数据,这样就可以这样： {:SEQUENCE_ID = "example",:SEQUENCE_TEM

我正在运行一个名为Primer 3的命令行程序.它接受一个输入文件并将数据返回到标准输出.我正在尝试编写一个接受该输入的 Ruby脚本,并将这些条目放入哈希.

返回的结果如下.我想在’=’符号上拆分数据,这样就可以这样：

{:SEQUENCE_ID => "example",:SEQUENCE_TEMPLATE => "GTAGTCAGTAGACNAT..etc",:SEQUENCE_TARGET => "37,21" etc }

我还想小写密钥,即：

{:sequence_id => "example",:sequence_template => "GTAGTCAGTAGACNAT..etc",:sequence_target => "37,21" etc }

这是我目前的脚本：

#!/usr/bin/ruby
puts 'Primer 3 hash'

primer3 = {}
while line = gets do
  name,height = line.split(/=/)
  primer3[name] = height.to_i
end

puts primer3

它正在归还：

Primer 3 hash
{"SEQUENCE_ID"=>0,"SEQUENCE_TEMPLATE"=>0,"SEQUENCE_TARGET"=>37,"PRIMER_TASK"=>0,"PRIMER_PICK_LEFT_PRIMER"=>1,"PRIMER_PICK_INTERNAL_OLIGO"=>1,"PRIMER_PICK_RIGHT_PRIMER"=>1,"PRIMER_OPT_SIZE"=>18,"PRIMER_MIN_SIZE"=>15,"PRIMER_MAX_SIZE"=>21,"PRIMER_MAX_NS_ACCEPTED"=>1,"PRIMER_PRODUCT_SIZE_RANGE"=>75,"P3_FILE_FLAG"=>1,"SEQUENCE_INTERNAL_EXCLUDED_REGION"=>37,"PRIMER_EXPLAIN_FLAG"=>1,"PRIMER_THERMODYNAMIC_PARAMETERS_PATH"=>0,"PRIMER_LEFT_EXPLAIN"=>0,"PRIMER_RIGHT_EXPLAIN"=>0,"PRIMER_INTERNAL_EXPLAIN"=>0,"PRIMER_PAIR_EXPLAIN"=>0,"PRIMER_LEFT_NUM_RETURNED"=>0,"PRIMER_RIGHT_NUM_RETURNED"=>0,"PRIMER_INTERNAL_NUM_RETURNED"=>0,"PRIMER_PAIR_NUM_RETURNED"=>0,""=>0}

数据源

SEQUENCE_ID=example
SEQUENCE_TEMPLATE=GTAGTCAGTAGACNATGACNACTGACGATGCAGACNACACACACACACACAGCACACAGGTATTAGTGGGCCATTCGATCCCGACCCAAATCGATAGCTACGATGACG
SEQUENCE_TARGET=37,21
PRIMER_TASK=pick_detection_primers
PRIMER_PICK_LEFT_PRIMER=1
PRIMER_PICK_INTERNAL_OLIGO=1
PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_OPT_SIZE=18
PRIMER_MIN_SIZE=15
PRIMER_MAX_SIZE=21
PRIMER_MAX_NS_ACCEPTED=1
PRIMER_PRODUCT_SIZE_RANGE=75-100
P3_FILE_FLAG=1
SEQUENCE_INTERNAL_EXCLUDED_REGION=37,21
PRIMER_EXPLAIN_FLAG=1
PRIMER_THERMODYNAMIC_PARAMETERS_PATH=/usr/local/Cellar/primer3/2.3.4/bin/primer3_config/
PRIMER_LEFT_EXPLAIN=considered 65,too many Ns 17,low tm 48,ok 0
PRIMER_RIGHT_EXPLAIN=considered 228,low tm 159,high tm 12,high hairpin stability 22,ok 35
PRIMER_INTERNAL_EXPLAIN=considered 0,ok 0
PRIMER_PAIR_EXPLAIN=considered 0,ok 0
PRIMER_LEFT_NUM_RETURNED=0
PRIMER_RIGHT_NUM_RETURNED=0
PRIMER_INTERNAL_NUM_RETURNED=0
PRIMER_PAIR_NUM_RETURNED=0
=

$primer3_core < example2 | ruby /Users/sean/Dropbox/bin/rb/read_primer3.rb

解决方法

#!/usr/bin/ruby
puts 'Primer 3 hash'

primer3 = {}
while line = gets do
  key,value = line.split(/=/,2)
  primer3[key.downcase.to_sym] = value.chomp
end

puts primer3

（编辑：李大同）

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