10 More Discussions You Might Find Interesting
1. Shell Programming and Scripting
I will appreciate if you help me here in this script in Solaris Enviroment.
Scenario:
i have 2 files :
1) /tmp/TRANSACTIONS_DAILY_20180730.txt:
201807300000000004
201807300000000005
201807300000000006
201807300000000007
201807300000000008
2)... (10 Replies)
Discussion started by: teokon90
10 Replies
2. Shell Programming and Scripting
hi, i have a big file like this:
>s31 length=12 numreads=6 gene=isotig454 status=igo
ldfddfdfdfdkkkkkkfdfdkkkksdfdkkkkkkkkkksdfd
dfdfdfldfdkdffdlfddflfdjkkkkkkfdgkkgfhghfgkkk
ldfddfdfdfdkkkkkkfdfdkkkksdfdkkkkkkkkkksdfd
dfdfdfldfdkdffdlfddflfdjkkkkkkfdgkkgfhghfgkkk
>c2 length =344... (4 Replies)
Discussion started by: the_simpsons
4 Replies
3. UNIX for Dummies Questions & Answers
Hello All,
this is my first post so I don't know if I am doing this right.
I would like to append entries from a series of strings (contained in a text file) consecutively at the end of specifically labeled lines in another file.
As an example:
- the file that contains the values to be... (3 Replies)
Discussion started by: gus74
3 Replies
4. Shell Programming and Scripting
The question is not as simple as the title... I have a file, it looks like this
<string name="string1">RZ-LED</string>
<string name="string2">2.0</string>
<string name="string2">Version 2.0</string>
<string name="string3">BP</string>
I would like to check for duplicate entries of... (11 Replies)
Discussion started by: raidzero
11 Replies
5. Shell Programming and Scripting
Been searching for about 3 hours for similar functionality that I can get examples of how to output text from variables into certain locations in a file. I would like to incorporate this into a script. I have not been able to find a command example that does it all in one method. I find part of... (1 Reply)
Discussion started by: bennu_500
1 Replies
6. UNIX for Dummies Questions & Answers
Hello guys,
should be a very easy questn for you:
I need to delete strings in file1 based on the list of strings in file2.
like file2:
word1_word2_
word3_word5_
word3_word4_
word6_word7_
file1:
word1_word2_otherwords..,word3_word5_others... (7 Replies)
Discussion started by: roussine
7 Replies
7. Shell Programming and Scripting
HI,
if a String is present in file1.txt, i want to delete that String from file2.txt.
How can i do this??
I am sure that the file1.txt is a subset of file2.txt. (2 Replies)
Discussion started by: jathin12
2 Replies
8. Shell Programming and Scripting
i have 200000bytes size of a unix file i need to delete some text between two strings recursively using a loop with sed or awk . these two strings are : 1st string getting from a file :::2 nd string is fi...its constant . can anyone help me sed -n'/<1 st string >/,/fi/' <input_filename> is the... (2 Replies)
Discussion started by: santosh1234
2 Replies
9. Shell Programming and Scripting
Hello
i want to know a way so i can delete all the strings in file from the begning till a specific string (1 Reply)
Discussion started by: modcan
1 Replies
10. Shell Programming and Scripting
Hi,
I have a file named status.txt that looks like the file below. What I want to do is to delete the part <status> and </status> and just leave the number and print each number per line. How can I do it? If I will use sed or awk how can I do it? I tried with sed but it didn't work. Maybe I... (8 Replies)
Discussion started by: ayhanne
8 Replies
BP_SREFORMAT(1p) User Contributed Perl Documentation BP_SREFORMAT(1p)
NAME
bpsreformat - convert sequence formats
DESCRIPTION
This script uses the SeqIO system that allows conversion of sequence formats either sequence data or multiple sequence alignment data. The
name comes from the fact that Sean Eddy's program sreformat (part of the HMMER pkg) already does this. Sean's program tries to guess the
input formats while in our code we currently require your to specify what the input and output formats are and if the data is from a
multiple sequence alignment or from straight sequence files.
Usage:
bpsreformat -if INFORMAT -of OUTFORMAT -i FILENAME -o output.FORMAT
-h/--help Print this help
-if/--informat Specify the input format
-of/--outformat Specify the output format
-i/--input Specify the input file name
(to pass in data on STDIN use minus sign as filename)
-o/--output Specify the output file name
(to pass data out on STDOUT use minus sign as filename)
--msa Specify this is multiple sequence alignment data
--special Will pass on special parameters to the AlignIO/SeqIO
object -- most of these are for Bio::AlignIO objects
Comma separated list of the following
nointerleaved -- for phylip,non-interleaved format
idlinebreak -- for phylip, makes it molphy format
percentages -- for clustalw, show % id per line
perl v5.14.2 2012-03-02 BP_SREFORMAT(1p)