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Top Forums Shell Programming and Scripting Parse multiple html files in directory Post 302928968 by RudiC on Tuesday 16th of December 2014 03:34:34 PM
Old 12-16-2014
You don't need to rename the files to .txt to parse them with sed. Try:
Code:
awk     '/^<h2 id="genes"/      {getline
                                 for (i=1; i<=NF; i++)
                                        {n1=gsub ("[, ]*<a href = .http://www.omim.org/entry/", "", $i)
                                         n2=gsub (". target = ._blank.", "", $i)
                                         n3=gsub ("</a", "", $(i+1))
                                         if (n1 + n2) print $(i+1) "\t" $i
                                        }
                                 exit
                                }
        ' FS=">" /tmp/CM080
AKT1    164730
ALK     105590
APC     611731
BRAF    164757
CDH1    192090
CTNNB1  116806
EGFR    131550
ERBB2   164870
FBXW7   606278
FGFR2   176943
FOXL2   605597
GNAQ    600998
GNAS    139320
KIT     164920
KRAS    190070
MAP2K1  176872
MET     164860
MSH6    600678
NRAS    164790
PDGFRA  173490
PIK3CA  171834
PTEN    601728
SMAD4   600993
SRC     190090
STK11   602216
TP53    191170

 

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bup-margin(1)						      General Commands Manual						     bup-margin(1)

NAME
bup-margin - figure out your deduplication safety margin SYNOPSIS
bup margin [options...] DESCRIPTION
bup margin iterates through all objects in your bup repository, calculating the largest number of prefix bits shared between any two entries. This number, n, identifies the longest subset of SHA-1 you could use and still encounter a collision between your object ids. For example, one system that was tested had a collection of 11 million objects (70 GB), and bup margin returned 45. That means a 46-bit hash would be sufficient to avoid all collisions among that set of objects; each object in that repository could be uniquely identified by its first 46 bits. The number of bits needed seems to increase by about 1 or 2 for every doubling of the number of objects. Since SHA-1 hashes have 160 bits, that leaves 115 bits of margin. Of course, because SHA-1 hashes are essentially random, it's theoretically possible to use many more bits with far fewer objects. If you're paranoid about the possibility of SHA-1 collisions, you can monitor your repository by running bup margin occasionally to see if you're getting dangerously close to 160 bits. OPTIONS
--predict Guess the offset into each index file where a particular object will appear, and report the maximum deviation of the correct answer from the guess. This is potentially useful for tuning an interpolation search algorithm. --ignore-midx don't use .midx files, use only .idx files. This is only really useful when used with --predict. EXAMPLE
$ bup margin Reading indexes: 100.00% (1612581/1612581), done. 40 40 matching prefix bits 1.94 bits per doubling 120 bits (61.86 doublings) remaining 4.19338e+18 times larger is possible Everyone on earth could have 625878182 data sets like yours, all in one repository, and we would expect 1 object collision. $ bup margin --predict PackIdxList: using 1 index. Reading indexes: 100.00% (1612581/1612581), done. 915 of 1612581 (0.057%) SEE ALSO
bup-midx(1), bup-save(1) BUP
Part of the bup(1) suite. AUTHORS
Avery Pennarun <apenwarr@gmail.com>. Bup unknown- bup-margin(1)
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