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  • Howto plot two cumulative frequency graph together

    - by neversaint
    I have data that looks like this: #val Freq1 Freq2 0.000 178 202 0.001 4611 5300 0.002 99 112 0.003 26 30 0.004 17 20 0.005 15 20 0.006 11 14 0.007 11 13 0.008 13 13 ...many more lines.. Full data can be found here: http://dpaste.com/173536/plain/ What I intend to do is to have a cumulative graph with "val" as x-axis with "Freq1" & "Freq2" as y-axis, plot together in 1 graph. I have this code. But it creates two plots instead of 1. dat <- read.table("stat.txt",header=F); val<-dat$V1 freq1<-dat$V2 freq2<-dat$V3 valf1<-rep(val,freq1) valf2<-rep(val,freq2) valfreq1table<- table(valf1) valfreq2table<- table(valf2) cumfreq1=c(0,cumsum(valfreq1table)) cumfreq2=c(0,cumsum(valfreq2table)) plot(cumfreq1, ylab="CumFreq",xlab="Loglik Ratio") lines(cumfreq1) plot(cumfreq2, ylab="CumFreq",xlab="Loglik Ratio") lines(cumfreq2) What's the right way to approach this?

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  • Hudson trigger builds remotely gives a forbidden 403 error

    - by Ritesh M Nayak
    I have a shell script on the same machine that hudson is deployed on and upon executing it, it calls wget on a hudson build trigger URL. Since its the same machine, I access it as http://localhost:8080/hudson/job/jobname/build?token=sometoken Typically, this is supposed to trigger a build on the project. But I get a 403 forbidden when I do this. Anybody has any idea why? I have tried this using a browser and it triggers the build, but via the command line it doesn't seem to work. Any ideas?

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  • Sourcing a shell script, while running with sudo

    - by WishCow
    I would like to write a shell script that sets up a mercurial repository, and allow all users in the group "developers" to execute this script. The script is owned by the user "hg", and works fine when ran. The problem comes when I try to run it with another user, using sudo, the execution halts with a "permission denied" error, when it tries to source another file. The script file in question: create_repo.sh #!/bin/bash source colors.sh REPOROOT="/srv/repository/mercurial/" ... rest of the script .... Permissions of create_repo.sh, and colors.sh: -rwxr--r-- 1 hg hg 551 2011-01-07 10:20 colors.sh -rwxr--r-- 1 hg hg 1137 2011-01-07 11:08 create_repo.sh Sudoers setup: %developer ALL = (hg) NOPASSWD: /home/hg/scripts/create_repo.sh What I'm trying to run: user@nebu:~$ id uid=1000(user) gid=1000(user) groups=4(adm),20(dialout),24(cdrom),46(plugdev),105(lpadmin),113(sambashare),116(admin),1000(user),1001(developer) user@nebu:~$ sudo -l Matching Defaults entries for user on this host: env_reset User user may run the following commands on this host: (ALL) ALL (hg) NOPASSWD: /home/hg/scripts/create_repo.sh user@nebu:~$ sudo -u hg /home/hg/scripts/create_repo.sh /home/hg/scripts/create_repo.sh: line 3: colors.sh: Permission denied So the script is executed, but halts when it tries to include the other script. I have also tried using: user@nebu:~$ sudo -u hg /bin/bash /home/hg/scripts/create_repo.sh Which gives the same result. What is the correct way to include another shell script, if the script may be ran with a different user, through sudo?

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  • generate sha256 with openssl and C++

    - by Stanislav Palatnik
    Hello, I'm looking to create a hash with sha256 using openssl and C++. I know there's a similar post about this here: http://stackoverflow.com/questions/918676/generate-sha-hash-in-openssl, but I'm looking to specifically create sha256. UPDATE: Seems to be a problem witht he include paths. It can't find any openssl functions even though I included #include "openssl/sha.h" and I included the paths in my build -I/opt/ssl/include/ -L/opt/ssl/lib/ -lcrypto

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  • Loading zsh as the default shell in gnu screen

    - by joel
    Hello, Im using KUbuntu 10.04 (Lucid Lynx). I have installed zsh and screen. I have set zsh as the default shell, by setting Command to zsh in Settings-Edit Current Profile of the terminal. But,when i launch screen,the bash shell is loaded. If i run the command zsh, then zsh starts but the following message is displayed: "/home/joel/.zshrc:36: Can't add module parameter `mapfile': parameter already exists" Also,zsh is invoked for only the current screen instance and i have to invoke it manually again for other instances. So,is there any way to make screen load zsh by default and invoke it automatically for every instance ? Thank You

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  • Navigating multiples files vi editor

    - by learner135
    According to http://www.lagmonster.org/docs/vi2.html the command :p would make vi go to the previous file. Unfortunately, this isn't working for me. However :n works and goes to the next page. What should I use to go to the previous file? For :p I get the message, Hit Return to continue and it stays in the same page. Thanks. Edit: I am sshing to an AIX box and using the vi in Ksh if that helps.

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  • Why is the value if this string executing in a bash script?

    - by Ross
    Hello Why is this script executing the string in the if statement: #!/bin/bash FILES="*" STRING='' for f in $FILES do if ["$STRING" = ""] then echo first STRING='hello' else STRING="$STRING hello" fi done echo $STRING when run it with sh script.sh outputs: first lesscd.sh: line 7: [hello: command not found lesscd.sh: line 7: [hello hello: command not found lesscd.sh: line 7: [hello hello hello: command not found lesscd.sh: line 7: [hello hello hello hello: command not found lesscd.sh: line 7: [hello hello hello hello hello: command not found hello hello hello hello hello hello p.s. first attempt at a shell script thanks

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  • Search and replace

    - by zx
    Hi, I have a really large SQL dump around 400MB. It's in the following format, "INSERT INTO user VALUES('USERID', 'USERNAME', 'PASSWORD', '0', '0', 'EMAIL', 'GENDER', 'BIRTHDAY', '182', '13', '640', 'Married', 'Straight', '', 'Yes', 'Yes', '1146411153', '1216452123', '1149440844', '0', picture', '1', '0', '0', 'zip', '0', '', '0', '', '', '0')" Is there anyway I can just get the email and password out from that, I want to import the users into another table. Anyone know how I can do this and just get email-password stripped out from that content? Thank you in advance

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  • Tool Compare the tables in two different databeses

    - by user191124
    I am using Toad. Frequently i need to compare tables in two different test environments. the tables present in them are same but the data differs. i just need to know what are the differences in the same tables which are in two different data bases.Are there any tools which can be installed on windows and use it to compare. Much appreciate your help:)

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  • set permissions to /bin/su

    - by JiminyCricket
    i need to change my /bin/su permissions back to the default, which is -rwsr-xr-x. 1 root root 42436 2009-09-08 04:52 /bin/su right now its -rwxr-xr-x. 1 root root 42436 2009-09-08 04:52 /bin/su how do I add the s in...? ive never seen that before

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  • Formatting with echo command

    - by johannix
    The actual situation is a bit complicated, but the issue I'm running into is that I have an echo command within an eval command. Like so: $ eval echo 'keep my spacing' keep my spacing $ echo 'keep my spacing' keep my spacing I was wondering how I could keep eval from stripping my spacing so that the first command prints out the same message as the second...

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  • Parsing Chunk of Data into Hash of Array With Perl

    - by neversaint
    I have data that looks like this: #info #info2 1:SRX004541 Submitter: UT-MGS, UT-MGS Study: Glossina morsitans transcript sequencing project(SRP000741) Sample: Glossina morsitans(SRS002835) Instrument: Illumina Genome Analyzer Total: 1 run, 8.3M spots, 299.9M bases Run #1: SRR016086, 8330172 spots, 299886192 bases 2:SRX004540 Submitter: UT-MGS Study: Anopheles stephensi transcript sequencing project(SRP000747) Sample: Anopheles stephensi(SRS002864) Instrument: Solexa 1G Genome Analyzer Total: 1 run, 8.4M spots, 401M bases Run #1: SRR017875, 8354743 spots, 401027664 bases 3:SRX002521 Submitter: UT-MGS Study: Massive transcriptional start site mapping of human cells under hypoxic conditions.(SRP000403) Sample: Human DLD-1 tissue culture cell line(SRS001843) Instrument: Solexa 1G Genome Analyzer Total: 6 runs, 27.1M spots, 977M bases Run #1: SRR013356, 4801519 spots, 172854684 bases Run #2: SRR013357, 3603355 spots, 129720780 bases Run #3: SRR013358, 3459692 spots, 124548912 bases Run #4: SRR013360, 5219342 spots, 187896312 bases Run #5: SRR013361, 5140152 spots, 185045472 bases Run #6: SRR013370, 4916054 spots, 176977944 bases What I want to do is to create a hash of array with first line of each chunk as keys and SR## part of lines with "^Run" as its array member: $VAR = { 'SRX004541' => ['SRR016086'], # etc } But why my construct doesn't work. And it must be a better way to do it. use Data::Dumper; my %bighash; my $head = ""; my @temp = (); while ( <> ) { chomp; next if (/^\#/); if ( /^\d{1,2}:(\w+)/ ) { print "$1\n"; $head = $1; } elsif (/^Run \#\d+: (\w+),.*/){ print "\t$1\n"; push @temp, $1; } elsif (/^$/) { push @{$bighash{$head}}, [@temp]; @temp =(); } } print Dumper \%bighash ;

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  • Double paging definition

    - by Albinoswordfish
    This is not a programming question but more of an operating system question Right now I'm trying to learn what exactly Double paging means. I see two different terms, double paging on disk and double paging in memory. Apparently this problem arises when we introduce a buffer cache to store disk blocks when doing File I/O But I'm not really sure what exactly this term means. If anybody could specify it would be very helpful.

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  • scp command with alert message

    - by muruga
    I want to get the alert message for every execution of the scp command. If some one access my file using the scp command, that time I have to receive one mail. How can I achieve this. Please help me.

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  • Bash scripting - Iterating through "variable" variable names for a list of associative arrays

    - by user1550254
    I've got a variable list of associative arrays that I want to iterate through and retrieve their key/value pairs. I iterate through a single associative array by listing all its keys and getting the values, ie. for key in "${!queue1[@]}" do echo "key : $key" echo "value : ${queue1[$key]}" done The tricky part is that the names of the associative arrays are variable variables, e.g. given count = 5, the associative arrays would be named queue1, queue2, queue3, queue4, queue5. I'm trying to replace the sequence above based on a count, but so far every combination of parentheses and eval has not yielded much more then bad substitution errors. e.g below: for count in {1,2,3,4,5} do for key in "${!queue${count}[@]}" do echo "key : $key" echo "value : ${queue${count}[$key]}" done done Help would be very much appreciated!

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  • Condition Variable in Shared Memory - is this code POSIX-conformant?

    - by GrahamS
    We've been trying to use a mutex and condition variable to synchronise access to named shared memory on a LynuxWorks LynxOS-SE system (POSIX-conformant). One shared memory block is called "/sync" and contains the mutex and condition variable, the other is "/data" and contains the actual data we are syncing access to. We're seeing failures from pthread_cond_signal() if both processes don't perform the mmap() calls in exactly the same order, or if one process mmaps in some other piece of shared memory before it mmaps the sync memory. This example code is about as short as I can make it: #include <sys/types.h> #include <sys/stat.h> #include <sys/mman.h> #include <sys/file.h> #include <stdlib.h> #include <pthread.h> #include <errno.h> #include <iostream> #include <string> using namespace std; static const string shm_name_sync("/sync"); static const string shm_name_data("/data"); struct shared_memory_sync { pthread_mutex_t mutex; pthread_cond_t condition; }; struct shared_memory_data { int a; int b; }; //Create 2 shared memory objects // - sync contains 2 shared synchronisation objects (mutex and condition) // - data not important void create() { // Create and map 'sync' shared memory int fd_sync = shm_open(shm_name_sync.c_str(), O_CREAT|O_RDWR, S_IRUSR|S_IWUSR); ftruncate(fd_sync, sizeof(shared_memory_sync)); void* addr_sync = mmap(0, sizeof(shared_memory_sync), PROT_READ|PROT_WRITE, MAP_SHARED, fd_sync, 0); shared_memory_sync* p_sync = static_cast<shared_memory_sync*> (addr_sync); // init the cond and mutex pthread_condattr_t cond_attr; pthread_condattr_init(&cond_attr); pthread_condattr_setpshared(&cond_attr, PTHREAD_PROCESS_SHARED); pthread_cond_init(&(p_sync->condition), &cond_attr); pthread_condattr_destroy(&cond_attr); pthread_mutexattr_t m_attr; pthread_mutexattr_init(&m_attr); pthread_mutexattr_setpshared(&m_attr, PTHREAD_PROCESS_SHARED); pthread_mutex_init(&(p_sync->mutex), &m_attr); pthread_mutexattr_destroy(&m_attr); // Create the 'data' shared memory int fd_data = shm_open(shm_name_data.c_str(), O_CREAT|O_RDWR, S_IRUSR|S_IWUSR); ftruncate(fd_data, sizeof(shared_memory_data)); void* addr_data = mmap(0, sizeof(shared_memory_data), PROT_READ|PROT_WRITE, MAP_SHARED, fd_data, 0); shared_memory_data* p_data = static_cast<shared_memory_data*> (addr_data); // Run the second process while it sleeps here. sleep(10); int res = pthread_cond_signal(&(p_sync->condition)); assert(res==0); // <--- !!!THIS ASSERT WILL FAIL ON LYNXOS!!! munmap(addr_sync, sizeof(shared_memory_sync)); shm_unlink(shm_name_sync.c_str()); munmap(addr_data, sizeof(shared_memory_data)); shm_unlink(shm_name_data.c_str()); } //Open the same 2 shared memory objects but in reverse order // - data // - sync void open() { sleep(2); int fd_data = shm_open(shm_name_data.c_str(), O_RDWR, S_IRUSR|S_IWUSR); void* addr_data = mmap(0, sizeof(shared_memory_data), PROT_READ|PROT_WRITE, MAP_SHARED, fd_data, 0); shared_memory_data* p_data = static_cast<shared_memory_data*> (addr_data); int fd_sync = shm_open(shm_name_sync.c_str(), O_RDWR, S_IRUSR|S_IWUSR); void* addr_sync = mmap(0, sizeof(shared_memory_sync), PROT_READ|PROT_WRITE, MAP_SHARED, fd_sync, 0); shared_memory_sync* p_sync = static_cast<shared_memory_sync*> (addr_sync); // Wait on the condvar pthread_mutex_lock(&(p_sync->mutex)); pthread_cond_wait(&(p_sync->condition), &(p_sync->mutex)); pthread_mutex_unlock(&(p_sync->mutex)); munmap(addr_sync, sizeof(shared_memory_sync)); munmap(addr_data, sizeof(shared_memory_data)); } int main(int argc, char** argv) { if(argc>1) { open(); } else { create(); } return (0); } Run this program with no args, then another copy with args, and the first one will fail at the assert checking the pthread_cond_signal(). But change the open() function to mmap() the "/sync" memory first and it will all work fine. This seems like a major bug in LynxOS but LynuxWorks claim that using mutex and condition variable in this way is not covered by the POSIX standard, so they are not interested. Can anyone determine if this code does violate POSIX? Or does anyone have any convincing documentation that it is POSIX compliant?

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