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  • calculate AUC (GAM) in R [migrated]

    - by ahmad
    I used the following script to calculate AUC in R: library(mgcv) library(ROCR) library(AUC) data1=read.table("d:\\2005.txt", header=T) GAM<-gam(tuna ~ s(chla)+s(sst)+s(ssha),family=binomial, data=data1) gampred<- predict(GAM, type="response") rp <- prediction(gampred, data1$tuna) auc <- performance( rp, "auc")@y.values[[1]] auc roc <- performance( rp, "tpr", "fpr") plot( roc ) But when I was running the script, the result is: **rp <- prediction(gampred, data1$tuna) Error in prediction(gampred, data1$tuna) : Format of predictions is invalid. > > auc <- performance( rp, "auc")@y.values[[1]] Error in performance(rp, "auc") : object 'rp' not found > auc function (x, min = 0, max = 1) { if (any(class(x) == "roc")) { if (min != 0 || max != 1) { x$fpr <- x$fpr[x$cutoffs >= min & x$cutoffs <= max] x$tpr <- x$tpr[x$cutoffs >= min & x$cutoffs <= max] } ans <- 0 for (i in 2:length(x$fpr)) { ans <- ans + 0.5 * abs(x$fpr[i] - x$fpr[i - 1]) * (x$tpr[i] + x$tpr[i - 1]) } } else if (any(class(x) %in% c("accuracy", "sensitivity", "specificity"))) { if (min != 0 || max != 1) { x$cutoffs <- x$cutoffs[x$cutoffs >= min & x$cutoffs <= max] x$measure <- x$measure[x$cutoffs >= min & x$cutoffs <= max] } ans <- 0 for (i in 2:(length(x$cutoffs))) { ans <- ans + 0.5 * abs(x$cutoffs[i - 1] - x$cutoffs[i]) * (x$measure[i] + x$measure[i - 1]) } } return(as.numeric(ans)) } <bytecode: 0x03012f10> <environment: namespace:AUC> > > roc <- performance( rp, "tpr", "fpr") Error in performance(rp, "tpr", "fpr") : object 'rp' not found > plot( roc ) Error in levels(labels) : argument "labels" is missing, with no default** Can anybody help me to solve this problem? Thank you in advance.

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  • Online Event management

    - by cKK
    Hi looking for an events management solution. Admins would be able to create new event pages with information and booking forms that connect to a payment gateway. Most of what I've seen is outdated and hard to use and back office intergration is zero or minimal. the front end pages are dull and use frames!! Looking for upto date online software similar to what they are doing with Email marketing solutions (interspire, mailchimp) these application are easy to use and look the business. Thanks

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  • What program will monitor the chords I'm playing through my MIDI keyboard live?

    - by Jasper
    Leaving Cubase 5 out of the picture, when I use Reason 4.0 to compose something, I need a program running that will monitor the chords I'm pressing WHILE I'm pressing them. See, I'm a new keyboardist, and a thing like this will improve my accuracy by 100%. At one point, I'll stop needing such programs even, but for now, I'd REALLY like to have something of that sort. Free or commercial suggestions.

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  • How do I autorun applications after mounting a TrueCrypt container?

    - by NoCatharsis
    I would like my TrueCrypt virtual drive to act as a newly inserted USB drive or CD/DVD by executing commands in the partition's autorun.inf file. I've read several suggestions online including creating a .bat file or installing software so Windows will think this is a CD, but I'd like to know the easiest and least intrusive way to pull it off. i.e. I want to keep from installing or messing with the host computer as much as possible, as this is intended to be a fully portable drive.

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  • Any good, free ftp client?

    - by paan
    I've been using the free naggy version of Smart FTP for a while. It's very good, but then it became shareware only. So I was wondering, are there any other good FTP clients for Windows? The ones I tried but didn't like was: CoreFTP FileZilla (this one was especially bad :( )

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  • Photo Management Software for OS X That Supports Multiple Library Locations

    - by Lance Rushing
    I'm looking at the possibility of changing our photo management software. Thinking about Aperture or Lightroom. And want to know if either supports: Having folders/libraries on separate harddrives/Volumes. Tolerates having network folders occasionally connected Snappy interface A solid enough piece of software as not to crash or behave weirdly. [ so the wife doesn't get stuck and have to call me ;) ] Background The wife is photographer and I'm the computer programmer. Our current setup is Picasa, with a "Recent/Working" folder on the local iMac harddrive, and "Archive" folders on NFS mounted Linux Server, Raid 5, for redundant and extra storage capacity. (the Linux server also syncs with Amazon's EC2) Picasa is doing OK, but I get annoyed when it doesn't do behave properly. Usually around issues when the Linux disk isn't mounted. And overall, I wish Picasa seemed a little more polished and snappier. Thanks, Lance

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  • What would cause my Windows machine to seize?

    - by Coltin
    I run Windows XP SP2 on a Desktop I built (I know that doesn't provide much, but I can't say "on a Dell X103938R" or something). It has 'seized' about 7 times in its year and a half life. Everything freezes. I can't move the mouse cursor and the keyboard seems unresponsive. I can turn the monitor on and off and it will hold the last image. The light for the mouse is responsive if I move it. The keyboard lights change when pressed (cap locks, etc). I've waited upto ten minutes for a change, nothing. I haven't connected any activity to the seizing. It's happened when all I was "running" were fullscreen programs (games), just checking email, or once when I was sitting at my desktop (I was reading a book and when I tried to use the mouse, nothing). I've never been able to figure it out. I have to hard reset, and then its fine. It doesn't file system check or anything (not sure if Windows does that). No error when I load up the computer, nothing. If I had uTorrent open, it will have to recheck the torrent files to make sure they weren't corrupted though. (It's not always open when it seizes either). I'm using an AMD Athlon 5400+ with a NVidia GeForce 8600 GT, if that helps. I'm using two hard drives, 500Gb Wester Digital with a 1Tb Hitachi.

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  • Input not supported message when monitor is powered off then back on

    - by Jason Down
    I've been getting a message on my monitor where "Input not supported" is floating around. This only happens when I manually turn the monitor off and then later turn it back on. Leaving the monitor on and allowing it to go to the screen saver doesn't seem to cause the issue (but I prefer to turn the monitor off if I'm going to be away from the computer for any length of time). Any ideas what might cause this, only when the monitor is turned off manually? Specs: Acer X203w mointor Radeon 9600 Pro Video card Linux Mint 8 Resolution 1680 x 1050 (16:10 - Preferred native resolution for the monitor) Refresh Rate 60hz Here is what is in my xorg.conf file: Section "Device" Identifier "Radeon 9600" Driver "ati" BusID "PCI:1:0:0" Option "XAANoOffscreenPixmaps" Option "AccelMethod" "XAA" EndSection Section "Screen" Identifier "Default Screen" Device "Radeon 9600" DefaultDepth 24 SubSection "Display" Depth 24 Modes "1680x1050" "1440x900" "1024x768" EndSubSection EndSection Section "DRI" Mode 0666 EndSection Section "Extensions" Option "Composite" "Enable" EndSection

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  • How can you test communication on a COM/Serial port?

    - by Andy
    We have a OHAUAS Weighting scales with a COM port. if we connect this to a PC we should be able to get the weight on the computer by sending a command to it. Is there a way to test this? i tried the command line echo "LP" com1 but this does nothing. A small C# application that listens to this port seems to be continuously receive Hexadecimal numbers (2 digits then an enter), however sending a command through this application doesn't give readable results. When i do listen on the port though, the echo "LP" com1 command gives an unavaible error, so sending the command works in cmd. Does anyone have any knowledge on a simple way to test a send and receive on a com port?

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  • Wherer can I get Windows XP Images for WMware Workstation

    - by Saif Bechan
    Does anyone know where I can get windows images for vmware. I know Microsoft gives away the images for Virtual PC. These images work pretty well, but when I try to import them in VMware I need to activate the copies again, because the virtual hardware they use is just to different. I want Images of different versions of windows 2000,xp,vista. Does anyone where I can download them, or do I need to build them from CD.

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  • Enabling hardware acceleration and Xinerama for multi-monitor/multi-GPU in Linux

    - by mynameiscoffey
    My current setup is three monitors connected as follows (monitors listed from left to right): GPU0 (nVidia GTX 280): - Dell 2405FPW (1920x1200) - Dell U2410 (1920x1200) GPU1 (nVidia 210): - Dell 2405FPW (1920x1200) Works like a charm in Windows 7, not so much in Linux. I seem to only have three real options: Run all three monitors as a seperate X screen, I get hardware acceleration but as they are all independent X sessions I cannot move windows between them and can only have firefox open on one at any given time. Run the two on GPU0 in TwinView mode and have GPU1 as a seperate X screen. Same limitation as 1 but at least two monitors work together ok. I did have an issue where occasionally Linux saw both monitors on GPU0 as a single large monitor however. Enable Xinerama and have everything work as I want it to but hardware acceleration is gone and the display is Windows 95 style choppy. My ideal solution would be to have all screens working as they do under Xinerama without the limitation of having hardware acceleration disabled. I don't even care if that means rendering all three on GPU0 and somehow farming out the display of the third monitor to GPU1, whatever works. My question is this: is there any way to accomplish this? I don't feel like my use case is so out there that there shouldn't be at least some form of support (beyond the three limited options presented above), or is my best option going to be to just suck it up and pick up a better card to replace both that can handle three outputs by itself?

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  • Twitter Like Software for Corporations

    - by joe
    Is there microblogging software that companies can host internally? I think I remember Joel Spolsky mentioning that Fog Creek uses one. I can't remember what the name was or find what other software is out there. Does anyone have any ideas?

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  • Why are my hard drives failing?

    - by WishCow
    I have a small Ubuntu server running at home, with 2 HDDs. There are two software raids (raid1) on the disks, managed by mdadm, which I believe is irrelevant, but mentioning it anyway. Both of the HDDs are Western Digital, and have been used for around 2 years, when one of them started making clicking noises, and died. I figured that maybe it's natural after 2 years, so I bought a new one, and resynced the raid arrays. After about a month, the other drive also died. I didn't get suspicious, since both drives have been bought at the same time, it's not that surprising to see both of them near each other, so I bought another one. So far, 2 old drives failed, and 2 brand new in the system. After one month, one of the new drives died. This is when it started getting suspicious. Since the PC was put together from some really old parts (think AthlonXP), I figured that maybe the motherboard's SATA controller is the culprit. Of course you can't switch parts easily in an old PC like this, so I bought a whole system, new MB, new CPU, new RAM. Took the just failed drive back, since it was under warranty, and got it replaced. So it is up to 2 failed drives from the old ones, and 1 failed drive from the new ones. No problems, for 1 month. After that errors were creeping up again in /var/log/messages, and mdadm was reporting raid array failures. I started tearing my hair out. Everything is new in the system, it's up to the third brand new HDD, it's simply not possible that all of the new drives that I bought were faulty. Let's see what is still common... the cables. Okay, long shot, let's replace the SATA cables. Take HDD back, smile to the guy at the counter and say that I'm really unlucky. He replaces the HDD. I come home, one month passes and one of HDDs fails, again. I'm not joking. Two of the brand new HDDs have failed. Maybe it's a bug in the OS. Let's see what the manufacturer's testing tool says. Download testing tool, burn it to a CD, reboot, leave HDD testing overnight. Test says that the drive is faulty, and I should back up everything, if I still can. I don't know what's happening, but it does not look like a software problem, something is definitely thrashing the HDDs. I should mention now, that the whole system is in a shoebox. Since there are a load of "build your own ikea case" stuff, I thought there shouldn't be any problems throwing the thing in a box, and stuffing it away somewhere. The box is well ventilated, but I thought that just maybe the drives were overheating. There is no other possible answer to this. So I took the HDD back, and got it replaced (for the 3rd time), and bought HDD coolers. And just now, I have heard the sound of doom. click click whizzzzzzzzz. SSH into the box: You have new mail! mail r 1 DegradedArrayEvent on /dev/md0 ... dmesg output: [47128.000051] ata3: lost interrupt (Status 0x50) [47128.000097] end_request: I/O error, dev sda, sector 58588863 [47128.000134] md: super_written gets error=-5, uptodate=0 [48043.976054] ata3: lost interrupt (Status 0x50) [48043.976086] ata3.00: exception Emask 0x0 SAct 0x0 SErr 0x0 action 0x6 frozen [48043.976132] ata3.00: cmd c8/00:18:bf:40:52/00:00:00:00:00/e1 tag 0 dma 12288 in [48043.976135] res 40/00:00:00:4f:c2/00:00:00:00:00/00 Emask 0x4 (timeout) [48043.976208] ata3.00: status: { DRDY } [48043.976241] ata3: soft resetting link [48044.148446] ata3.00: configured for UDMA/133 [48044.148457] ata3.00: device reported invalid CHS sector 0 [48044.148477] ata3: EH complete Recap: No possibility of overheating 6 drives have failed, 4 of those have been brand new. I'm not sure now that the original two have been faulty, or suffered the same thing that the new ones. There is nothing common in the system, apart from the OS which is Ubuntu Karmic now (started with Jaunty). New MB, new CPU, new RAM, new SATA cables. No, the little holes on the HDD are not covered I'm crying. Really. I don't have the face to return to the store now, it's not possible for 4 drives to fail under 4 months. A few ideas that I have been thinking: Is it possible that I fuck up something when I partition and resync the drives? Can it be so bad that it physicaly wrecks the drive? (since the vendor supplied tool says that the drive is damaged) I do the partitoning with fdisk, and use the same block size for the raid1 partitions (I check the exact block sizes with fdisk -lu) Is it possible that the linux kernel or mdadm, or something is not compatible with this exact brand of HDDs, and thrashes them? Is it possible that it may be the shoebox? Try placing it somewhere else? It's under a shelf now, so humidity is not a problem either. Is it possible that a normal PC case will solve my problem (I'm going to shoot myself then)? I will get a picture tomorrow. Am I just simply cursed? Any help or speculation is greatly appreciated. Edit: The power strip is guarded against overvoltage. Edit2: I have moved inbetween these 4 months, so the possibility of the cause being "dirty" electricity in both places, is very low. Edit3: I have checked the voltages in the BIOS (couldn't borrow a multimeter), and they are all seem correct, the biggest discrepancy is in the 12V, because it's supplying 11.3. Should I be worried about that? Edit4: I put my desktop PC's PSU into the server. The BIOS reported much more accurate voltage readings, and also it has successfully rebuilt the raid1 array, which took some 3-4 hours, so I feel a little positive now. Will get a new PSU tomorrow to test with that. Also, attaching the picture about the box: (disregard the 3rd drive)

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  • Change Tweetmeme button colour under wordpress

    - by Andrew Bolster
    I've had a poke around in the TweetMeme plugin code and IANA JS Guru, but I cant find any sensible way to make specific styling changes; you can add div-specific CSS characteristics, but I'm talking about changing the resting colour and the hover colour of the button. I've googled around and noone seems to have asked it on here so I thought I should. PS I would not be surprised by this question being migrated to SO, but since this is more of a design/use question rather than a programming question, I thought it was worth trying here first.

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  • Web-based (intranet / non-hosted) timesheet / project tracking tools

    - by warren
    I realize some similar questions have been asked along these lines before, but from reading-through them today, it appears they don't match my use case. I am looking for a web-based, non-hosted time and project tracking tool. I've downloaded Collabtive so far, but am looking for other suggestions, too. My list of requirements: runs on standard LAMP stack non-hosted (ie, there is an option to download and run it on a local server) not a desktop/single-user application easy-to-use - my audience is a mix of technical and non-technical folks easy to maintain - when time for upgrading comes, I'd really like to not have to rebuild the app (a la ./configure ; make ; make install) needs to support multiple users free-form project additions: we don't have a central project management authority (users should be able to add whatever they're working on, not merely from a drop-down) Does anyone here have experience with such tools? It doesn't have to be free.. but free is always nice :)

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  • Working around Gmail mailing-list “feature.”

    - by Paul J. Lucas
    I'm using Google Apps for my domain's e-mail via IMAP. Whenever I send mail to a mailing list, I don't receive a copy of my own mail back in my inbox. According to Google, this is a "feature." Is there a way to disable this "feature" so that all mail I send to mailing lists appears in my inbox just like all other e-mail? Perhaps something along the lines of this method for disabling Google's spam filter??

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  • publickey authentication only works with existing ssh session

    - by aaron
    publickey authentication only works for me if I've already got one ssh session open. I am trying to log into a host running Ubuntu 10.10 desktop with publickey authentication, and it fails when I first log in: [me@my-laptop:~]$ ssh -vv host ... debug1: Next authentication method: publickey debug1: Offering public key: /Users/me/.ssh/id_rsa ... debug2: we did not send a packet, disable method debug1: Next authentication method: password me@hosts's password: And the /var/log/auth.log output: Jan 16 09:57:11 host sshd[1957]: reverse mapping checking getaddrinfo for cpe-70-114-155-20.austin.res.rr.com [70.114.155.20] failed - POSSIBLE BREAK-IN ATTEMPT! Jan 16 09:57:13 host sshd[1957]: pam_sm_authenticate: Called Jan 16 09:57:13 host sshd[1957]: pam_sm_authenticate: username = [astacy] Jan 16 09:57:13 host sshd[1959]: Passphrase file wrapped Jan 16 09:57:15 host sshd[1959]: Error attempting to add filename encryption key to user session keyring; rc = [1] Jan 16 09:57:15 host sshd[1957]: Accepted password for astacy from 70.114.155.20 port 42481 ssh2 Jan 16 09:57:15 host sshd[1957]: pam_unix(sshd:session): session opened for user astacy by (uid=0) Jan 16 09:57:20 host sudo: astacy : TTY=pts/0 ; PWD=/home/astacy ; USER=root ; COMMAND=/usr/bin/tail -f /var/log/auth.log The strange thing is that once I've got this first login session, I run the exact same ssh command, and publickey authentication works: [me@my-laptop:~]$ ssh -vv host ... debug1: Server accepts key: pkalg ssh-rsa blen 277 ... [me@host:~]$ And the /var/log/auth.log output is: Jan 16 09:59:11 host sshd[2061]: reverse mapping checking getaddrinfo for cpe-70-114-155-20.austin.res.rr.com [70.114.155.20] failed - POSSIBLE BREAK-IN ATTEMPT! Jan 16 09:59:11 host sshd[2061]: Accepted publickey for astacy from 70.114.155.20 port 39982 ssh2 Jan 16 09:59:11 host sshd[2061]: pam_unix(sshd:session): session opened for user astacy by (uid=0) What do I need to do to make publickey authentication work on the first login? NOTE: When I installed Ubuntu 10.10, I checked the 'encrypt home folder' option. I'm wondering if this has something to do with the log message "Error attempting to add filename encryption key to user session keyring"

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  • how to test lan network speed with ps3

    - by Damon
    I am having a heck of a time trying to get videos streaming to my PS3. I want to know if there is some way to test the speed between my PC and ps3 to see if that is the issue. For some reason when things get really slow between the ps3 and my computer (it's a wired connection through a switch), the wireless internet on completely different computer gets slow. I don't know what's causing what, but I don't know why there should be any correlation between internet speed on a wirelessly connected laptop and the LAN speed between a wired ps3 and computer.

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  • VMWare Fusion cannot connect to the NAT connection on my Mac

    - by FFish
    I have been using VMWare Fusion on my Mac to check out my websites on localhost. Now I can't connect anymore with the NAT connection. There seems to be a problem with my IP address or Mac address? I have no idea what causes this, it was working fine before!? In the XP (SP2) VM, in the taskbar I see the Local Area Connection with the yellow warning icon. The bubble says: "This connection has limited or no connectivity. You might not be aisle to access the Internet or some network resources. For more information, click this message." Doing that opens up the Local Area Connection Status panel. In the Support tab, when I click the repair button I get following message: "Windows could not finish repairing the problem because the following action cannot be completed: Renewing IP address." I tried disabling my firewall and also XAMPP that I use as server on OSX. VMWware version: 3.1 VM: XP SP2 Mac OSX 10.6.3 Any help would be greatly appreciated.

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