search for: tophat

...d-isnt-managing-cuffdiff-database/#42895 Whereby I'm trying to output cuffdiff data into cummeRbund, but it appears to be having issues with connection to a database (below). Does anyone have any suggestions as to how I can fix this? Thanks! cuff_data <- readCufflinks('/home/sbica1/tophat/finaltrans/tophat/0125diff_out') Creating database /home/sbica1/tophat/finaltrans/tophat/0125diff_out/cuffData.db Reading /home/sbica1/tophat/finaltrans/tophat/0125diff_out/genes.fpkm_tracking Checking samples table... Populating samples table... Writing genes table Reshaping geneData tab...

Hello R users, I have successfully created a square (or more generally, rectangular) tophat smoothing routine based on altering the already available KDE2D. I would be keen to implement a circular tophat routine also, however this appears to be much more difficult to write efficiently (I have a routine, but it's very slow). I tried to create one based on using crossdist to create a di...

...tual router which in turn connects the virtual network to my real network. My machine (192.168.103.23) is on the network with my router (192.168.103.1). The virtual router, tiara, has to connect my 192.168.103.* network with the virtual 10.0.0.* network which comprises two other virtual domains, tophat and bowler. The three virtual machines are all running Fedora (hence the names). I can ping between tiara, tophat, and bowler. I can also ping from tiara out to 192.168.103.1, 192.168.103.23, and the Internet. However, I cannot ping 192.168.103.23, 192.168.103.1, or the Internet from tophat or...

There is a memory leak in newhidups. After 23 days uptime it used 138M memory. Apart from the memory leak, the system works ok. Is there anything I can do to help fix this problem? Tor. [root@tophat init.d]# ps -unut v PID TTY STAT TIME MAJFL TRS DRS RSS %MEM COMMAND 21122 ? Ss 1:35 0 69 137934 136800 27.0 /sbin/newhidups auto 21125 ? Ss 0:37 0 45 1662 388 0.0 /usr/sbin/upsd 21129 ? S 0:00 0 39 1660 560 0.1 /usr/...

...ld you please have al look at it.. here is the script I have been using # source of this code below #http://cran.r-project.org/doc/contrib/Lemon-kickstart/kr_scrpt.html # store the current directory initial.dir<-getwd() # change to the new directory setwd("/data/homes/ccpage/ngs/Argueso/Tophat/flocculated/cuffdiff/ fpkmgt") # source of this code below # https://stat.ethz.ch/pipermail/r-help/2008-March/158336.html files <- Sys.glob("*.csv") # get names of files to process #result <- numeric(length(files)) # preallocate assuming single value from each file for...

...9;%u' I get an authentication error trying to log in. It queries the database for the password, but it does not seem to query for user? Logs: dovecot: dovecot-auth: Jul 05 05:14:41 Info: PAM: pam_authenticate(chrisj at topbilling.com) failed: Authentication failure messages: Jul 5 05:14:39 tophat dovecot(pam_unix)[2928]: check pass; user unknown Jul 5 05:14:39 tophat dovecot(pam_unix)[2928]: authentication failure; logname= uid=0 euid=0 tty= ruser= rhost= Any help will be greatly appreciated - the passwords are created using postfixadmin - I presume it is in MD5 format. Kind regards Wern...