Software :: Count And Eliminate A Repeating Char (-) Leading Up To A Needed Sequence?
Apr 22, 2011
I have a file that contains a number of lines of DNA sequences like the single (yet very long) line below. There are far too many trailing and ending dashes then is needed in the file (however some are needed so I cant just delete all leading and trailing dashes).Therefore, I want to count the number of dashes leading up to the first base (either an A,C,T, or G) for every line in the file. I then want remove the smallest number of leading and trailing dashes among all the lines from each line in the file.So basically lets say the smallest number of trailing dashes between all lines in the file is 300 and the smallest number of leading dashes between all lines in the file is 500 dashes. I then want to subtract 500 dashes from the beginning of every line and 300 dashes from the end of every line. I hope this explanation is clear.
Code:
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[code]....
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Nov 9, 2009
I've sucessfully installed Fedora 11 into a SunVirtualBox machine, but I would like to elimate from the boot sequence the GUI Startup. If I need it I could invoke the GUI from the command line. How I coud get this?
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Jul 12, 2010
I'm trying to find a script that will return me the largest number of repeating characters. Say, I have the following line in a text file: 12345AAAAA6789AAA
I want it to return 5, because "A" is repeated 5 times in this line (more than 3 at the end).
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Mar 4, 2010
m getting the following error when trying to compile:Quote:
$ make
g++ -march=athlon64 -O2 -pipe -fomit-frame-pointer -msse3 -c -D_GNU_SOURCE -DPLUGIN_NAME_I18N='"undelete"' -DHAVE_SVDRP -I../../../include undelete.c
[code]...
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Nov 4, 2010
Programming in C.I have two char arrays.char buf1[1024];char buf2[1024];Aren't buf1 and buf2 also pointers?I read in 1024 bytes into buf1 which contain about 300 bytes of characters with newlines. The data is basically a few English sentences. I'm trying to scan buf1 for newlines and then stop at the 1st newline and copy the rest of the data from that 1st newline into buf2.So I run a for loop to look for that new line.
Code:
for(i=0; i<1024;i++) {
if((strcmp(&buf1[i], "
[code]...
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Jul 9, 2010
I am having trouble with the following exception class.
Code:
/**Standard Exception
*
*@description
*@update
*@changes
[code]....
Line 43 points at the snprintf() command.I think the error has to do with the function being virtual and the const after the function definition, however although I have been looking really hard I have not being able to find the reason nor the solution to the problem.
One workaround that I know is moving the block of source withing the virtual function, in the constructor, however having read around (boost library exceptions tutorials) it specifically said that formating of errors messages should not take place withing the construction of objects because we are risking throwing an exceptions and messing up the flow order.
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Feb 14, 2011
i define variable of type char (range -128 to 127). when i tried to print the value after assigning a -ve value to it it displaying a +ve value of that -ve value(256+value).
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Jul 5, 2011
With this I may remove the last emtpy char which is not visible, coming from net, windows, ...
Code:
echo "$mystringwindowsorotherwithemptylastchar" |sed s/.$//
However if there are not then it makes a problem and delete effectively an existing char.
Code:
echo "klklj" |sed s/.$//
klkl
Anyone would have a solution for SH?
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Mar 4, 2010
is it possible to convert a variable from char * to unsigned char ?
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Feb 24, 2010
I have the following perl/DBI script:
Quote:
#!/usr/bin/perl
use DBI;
my ($db, $user, $pw) = ('dbname', '****', '***********');
my $dbh = DBI->connect("DBI:mysql:$db",$user,$pw) or die "Cannot connect to $db: $DBI::errstr
[code].....
The error message is
[Wed Feb 24 13:03:27 2010] myscript.cgi: DBD::mysql::st execute failed: Column count doesn't match value count at row 1 at myscript.cgi. [Wed Feb 24 13:03:27 2010] myscript.cgi: DBI::db=HASH(0x8a30c60)->errstr
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May 29, 2010
I've never programed shell scripting.
Code goes like so:
I simply want to read a file "data.txt" line by line Then char by char and add them into a result var. The file is supossed to always contain numeric values
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Jan 27, 2010
I'm trying to put together a script that will quickly run through an archive directory of log files that are named by day of the month 01.gz, 02.gz, 03.gz.... 31.gz. The script uses gunzip -c | grep | wc to count up the total number of hourly occurrences of a filename and outputs the results to stdout.
The only snag I have left is the octal limit when it gets to 08 and 09. I've seen examples using perl and awk, but this script uses a number of nested for loops and if statements that I don't want to have to rewrite in a different syntax. I found that I can use num=10#08 to set that variable to a base 10 instead of a base 8, but then I lose the leading 0 again when it passes the number to the next filename variable.
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Jun 5, 2010
I found a script that counts down to a date and time and after modifying my .conkyrc file I want things to line up nicely, so, now I need leading zeroes on the output, like one timer I have says "4m +2w 5d 20:0:0" and I want it to say "04m 02w 05d 20:00:00" and on a slightly separate issue, it doesn't seem to be counting the minutes and seconds correctly, but that can be dealt with later, the current script is
Code:
#!/usr/bin/perl
#Script Name: howLong.pl
#Author: Nathan Handler <nhandler @ubuntu.com>
[code]...
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Jul 17, 2010
Out of the box, Bash in 10.04 is configured such that it won't expand/complete parameters when there's a single match for a parameter with a leading wildcard. For example, if I have the following files in a directory:
Code:
ABC.bin
DEF.bin
GHI.bin
...and I type cp *E*, I expect to be able to press TAB and have Bash expand *E* to DEF.bin, since that's the only file in the directory with a capital E in its name.
(Note: if I actually submit the command with the wildcards in place, the correct file will be used then, but I don't get to see it beforehand.) I imagine there's something in /etc/bash_completion that's preventing this from working properly. Does anyone know what it is?
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Mar 3, 2011
I'm trying to insert a line using sed that has leading spaces before the text. Sed seems to be just dropping the spaces and only inserting the text. Any ideas what I'm missing?
Code:
NAM=rb134
sed -i.bak -e "$i
host ${NAM} {" /etc/crap
Instead of inserting a line with 8 leading spaces inserts it with "host" at the beginning of the line. I tried
Code:
NAM=rb134
sed -i.bak -e "$i
^ host ${NAM} {" /etc/crap
but it put the "^" at the begging of the line.
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May 13, 2010
I'm running Fedora Core 12 x86_64. I started out using the default bash shell (and customized the .bashrc, etc. as necessary) but had to switch to csh for this one scientific package that requires that shell.
The issue is that my $PATH has unwanted redundancy and I can't figure out how to fix it:
Code:
The csh shell was completely new to me so I'm sure I made a mistake somewhere.
Below are the files that might be relevant for diagnosing this problem. I don't think I touched /etc/csh.login or /etc/csh.cshrc but I might have accidentally done so.
Code:
Code:
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Oct 13, 2010
I have seen command like $rm aa dd cc bb ee then something like $ >> zz // it removes zz also Where aa dd cc bb ee zz are the files in my directory. Do not know exactly.
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Jan 8, 2011
I need to rename some files. They are named:
NP1-1.mp3
NP1-2.mp3
NP1-3.mp3
[code]....
However, as there is no lead 0, the order gets confused by some software (some software mistakenly lists it as NP1-1.mp3, then NP1-10.mp3). I'd like to add zeros so the files are named like this:
NP1-0001.mp3
NP1-0002.mp3
NP1-0003.mp3
[code]...
How can that be done?
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Mar 28, 2010
I have a script that calls for a file description on a core file. I then pull the name of the process that caused the core file.
unfortunately, the process name is pulled with a leading ' amd a tailing'. I would like to remove the leading char and the last char.
code:
VAR=`file /tmp/core.1432 | awk '{ print $14}'`
echo "Process Name: $VAR"
output:
Process Name: 'ProcessName'
Results I need:
Process Name: ProcessName
I tried sed, but it seems to not like using the special char '.
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Jul 10, 2010
How do I make getchar() skip a leading space? The situation I am looking is this: I print a prompt that ends in a space printf("Input: ");and then when I use getchar() to read the text that was typed after the prompt, it appears to process the trailing space as a leading space that belongs to the input.
how can the space be skipped, preferably without inserting code that explicitly checks whether I'm reading the first character or not. I have already found out that I can skip such a space using scanf scanf (" %c", &ch); where the leading space in the format string eliminates leading spaces from the input string. That is the sort of thing I have in mind.
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Jul 22, 2010
I want to create some files of a specific size containing a repeating pattern. I did some research and found that I can create a file and fill it with (fairly) random data by using dd like so: dd if=/dev/urandom of=myfile.dat bs=$(( 1024 * 1024 )) count=100 (Creates a 100 MB file.) I found that here: Quickly creating large files.
Rather than fill a file with random data, I'd like to use these patterns: 0xaa, 0x55, 0xff, and 0x00 (one per file). Is there a simple way to accomplish this?
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Apr 30, 2010
I have a weird font problem that occur from time to time on fedora 12,I suspect gdm-user-switch-applet to be the culprit,but I can't say for sure.notice the weird 'r' letter.
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Jun 20, 2010
Bought computer 11 months ago, immediately there were problems. What would happen is, when I logged in after a long period of shut down, the system would BSOD. Then I would restart and everything would be fine, until the next time I shut down for a long time (8ish hours) and got back on. I sent the laptop in (a couple times) and they eventually replaced the RAM and the BSODs went away. This is all on Windows 7 (well started on Vista, switched to Windows 7).
I recently set up a dual boot with Windows 7 and Ubuntu 10.04. I'm experiencing crashes on Ubuntu (the whole system just freezes, can't operate mouse, keyboard, or anything) and the behavior is similar. When I log on after a long period of shut down, the system will crash, but if I restart (actually I have to wait 10 minutes before I restart, if I restart immediately it will crash again) then it is fine, until the next period of long shutdown.
So I'm thinking it's bad RAM, so I downloaded Memtest and am testing each of my sticks (they are each 2GB) individually in the same connector thing (don't know what it is called, whatever the sticks attach to). The test for the first one passed with flying colors. However, the second one is having problems. On test #2, the memtest repeats itself, continuously looping through 0-32767 errors on the right side.
My laptop is an Asus G50VT
The 2 most interesting lines...
Highest Error Address: 000fffffffc - 4095.9 MB // does this make sense? 4095.9 MB on a 2GB stick?
Test 2: 32767 // the 32767 loops back around to 0 and repeats
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Mar 28, 2010
I have a kernel error that repeats itself every few seconds that Ubuntu is up. After a couple of hours my /var/log file is up to 625M. It doesn't seem to hurt anything, but I would like to know what's going on.
Here it is in my kernel log:
Code:
Here is its first appearance in dmseg. It repeats mixed in with other stuff untill the end of the log.
Code:
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Aug 24, 2010
I have an MSI U100 Winbook with Ubuntu Workstation 10.04 LTS newly installed (about 4 days ago).
The update manager displayed about 15 or so updates for my 10.04 installation which I installed. Upon reboot, I can not successfully login to the desktop. It will take my username/password, the screen will go black for a couple of seconds, then the error sound, and back to the login dialogue.
A tail on /var/log/messages displays:
atkbd.c: Unknown key released (translated set 2, code 0xf7 on isa0060/serio0)
atkbd.c: Use 'setkeycodes e077 <keycode>; to make it known.
composit sync not supported
These messages keep repeating. I am able to login at the console just fine. I have enabled root login but get the same issues logging in as root. I have googled and found several articles and postings involving these messages but they are all in reference to upgrading from 9.x to 10.04. I did not upgrade and did not experience the freezing of applications as noted in those posts.
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May 18, 2011
i could find is crunch2.9 password generator but at the moment it does not suport the function that i am looking for. My aim is to generate : 10-character combinations of the following characters (lowercase) 23456789abcdef with no more then 3 same letters repeates no metter side by side or within one line (sequence) so lets say
abcdef1234 accept
fabcde1234 accept
ffabcd1234 accept
which is probably permutation with repetable string ( where abc is not equeal to cba etc .so ti speak position does metter)
fffabc1234 not acceptable -----(3 same characters)
ffabcf1234 not acceptable -----( 3 same characters event thought not side by side)
so generally we dont want 3 same characters apper in same line.
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May 28, 2010
I have 13.0 installed, everthing works OKI installed 13.1 on a separate partition, and dualbootWhen I use 13.1, there is a problem with sound.It's like in the old days when yu played an LP with a scratch, the track keeps repeating.When I move the mouse, sound will continue OK for a few seconds, then same problem.There is no difference, if I use KDE, XFCE, or just boot in runlevel 3 and use the command lineOnly thing I can find in the logs:Quote: May 28 06:37:10 cannabis kernel: hda-intel: IRQ timing workaround is activated for card #0. Suggest a bigger bdl_pos_adj.In 13.0, there is not such a line in the logs.Some info:Quote:
00:1b.0 Audio device: Intel Corporation 82801H (ICH8 Family) HD Audio Controller (rev 03)
Subsystem: Fujitsu Technology Solutions Device 1107
Flags: bus master, fast devsel, latency 0, IRQ 22
[code]....
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Apr 19, 2011
Is leading whitespace significant in bind9 config files? This reverse lookup file (/var/chroot/bind9/etc/bind/zones/rev.168.168.192.in-addr.arpa) did not work; /var/log/messages had "zone 168.168.192.in-addr.arpa/IN: has no NS records".Inserting 3 spaces before IN in the NS line fixed it:
Code:
; IP Address-to-Host DNS Pointers for the 192.168.168.0 subnet
@ IN SOA CW8vDS.localdomain. hostmaster.localdomain. (
2011041901 ; serial
8H ; refresh
[code]...
Reading the man pages and netsearching, I did not find anything about indentation requirements except for "This is usually indented for readability, but the indents are required syntactically" here.Although the above file works, named-checkconf reports an error in it:
Code:
root@CW8vDS:/var/chroot/bind9/etc/bind/zones# named-checkconf rev.168.168.192.in-addr.arpa
rev.168.168.192.in-addr.arpa:1: syntax error near ';'
but named initialisation does not log any errors or warnings in /var/log/messages when processing this file except "/etc/bind/zones/rev.168.168.192.in-addr.arpa:2: no TTL specified; using SOA MINTTL instead".
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Oct 28, 2010
I have a quirky situation whereby I'm using SED to selectively comment out a line in a crontab job (on Solaris, I know but it's connected to the Linux function I'm working with).
What's happening is this.
Remove hash symbol
Code:
/opt/csw/bin/gsed -i '/^.*/usr/local/scripts/mirror-fix.sh.*/ s/^#//' $TEMPFILE
Restore hash symbol
Code:
/opt/csw/bin/gsed -i '/^.*/usr/local/scripts/mirror-fix.sh.*/ s/^/#/' $TEMPFILE
The problem I'm running into is that the script can sometimes prepend an extra hash # symbol if run more than once (I have a lockfile that I poll for to discourage this, but that's not perfect).
I wonder how I can modify that sed statement to remove any/all leading hash marks up to the first other character, in this case it's a 0 (zero) which is a crontab file.
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May 27, 2010
Mainboard: ASUS A8N-SLI. X window manager:GNOME. When in wine application,such as starcraft or "Plants vs zombies",Sound is on for several seconds then mute several seconds then repeats......
Audio Controller info from Device Manager:
ALSA Capture
NVidia CK804 with ALC850
/dev/snd/pcmC0D0c
NVidia CK804 with ALC850
/dev/snd/pcmC0D1c
[Code].....
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