Question

我有一个用空格分隔的文件，必须从中获取特定列的数据。我的文件如下所示：

chr1.trna124 (75052562-75052633)        Length: 72 bp
Type: His       Anticodon: ATG at 33-35 (75052594-75052596)     Score: 35.2
HMM Sc=29.40    Sec struct Sc=5.80
     *    |    *    |    *    |    *    |    *    |    *    |    *    |
Seq: TGGGGTATAGCTCCATGGTAGAGCGCATGCCTATGAAGCGTGAGGtCCTGGGTTTGATCCCCAGAACCACAA
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

chr1.trna131 (78297795-78297866)        Length: 72 bp
Type: Pro       Anticodon: AGG at 33-35 (78297827-78297829)     Score: 39.1
HMM Sc=24.30    Sec struct Sc=14.80
     *    |    *    |    *    |    *    |    *    |    *    |    *    |
Seq: GGCTTGTTGGTCTAGGGGTATGATTCTCACTTAGGGTGTGAGAGGtCCTGGGTTCAAATCTTGGACGAGTCC
Str: >>>>>>>..>>>>.......<<<<.>>>>>.......<<<<<.....>>>>>.......<<<<<<<<<<<<.

我要从上面提取ID，即“ chr1.trna124”列，并从Anticodon的第二行中提取：ATG在33-35，只有33-35，直到文件末尾。最好的方法是什么？我正在尝试将模式与“ chr”匹配的一行合并到下一个“ chr”，然后获取列。我通过How to grab the lines AFTER a matched line in python尝试过，但是我什至无法做到这一点。有什么更好的办法吗？在python 2X和3X中有不同的方法吗？

Answer 1

You can use re.findall(r"(?ms) see below"):
 (1) "^[\w.]+\s\((\d+-\d+)\)" matches the ID, from start of a line;
 (3) "(Anticodon:.+?)$" matches from "Anticodon" until the line end,
 '^' and '$' match not only the start/end of the string but each line start/end, too, according the 'm' in (?ms);
 (2) ".+?" matches anything from the end of the ID to the "Anticodon", and . matches new line, too, according to 's' in "(?ms)".
 You can assemble the expression:-)

在python中选择特定的列以获取分散的数据

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