Got it. Thanks Louis!
2012-03-27 Chunhui Chen _________________ State Key Laboratory of Cognitive Neuroscience and Learning Beijing Normal University Beijing, China 100875 发件人： Louis Nicholas Vinke 发送时间： 2012-03-26 23:27:09 收件人： chenchunhuichina 抄送： freesurfer 主题： Re: Re: [Freesurfer] about QAtools Hi Chunhui, The wm-anat-snr missing step is misleading. That file gets created when QAtools generates the SNR/WM measures using the wm-anat-snr command. It is not part of the recon-all stream. If you specify the default status log file included with the scripts you should not get that error (using the -completeStatusFile flag). This is a slight bug which I need to fix. I'm not sure about the X error, I'll investigate that. The gawk command is a dependency issue (http://www.gnu.org/software/gawk/). -Louis On Mon, 26 Mar 2012, chenchunhuichina wrote: > Hi Louis and Freesurfers > > Last time you helped me fixed the "convert command" problem, and then QATools > can run on my computer smoothly. > > But I just realized that this error message is still there, >> Received X error! >> error code : 1 >> request code : 148 >> minor code : 179 >> Error text: 'BadRequest (invalid request code or no such operation)' > there is also an error message says: > gawk: commond not found > Is this also a dependecy problem? > > However, I do get the summary log and the html file with snapshots. > In the log file, it says: > ERROR: Recon-all steps missing in subject sub2 status file wm-anat-snr > I thouhg recon-all run all steps automaticly, what should I do with this > missing step? > > Thanks for your help! > > 2012-03-26 > > > > Chunhui Chen > _________________ > > State Key Laboratory of Cognitive Neuroscience and Learning > Beijing Normal University > Beijing, China 100875 > > > > ·¢¼þÈË£º Louis Nicholas Vinke > ·¢ËÍʱ¼ä£º 2012-03-06 23:50:05 > ÊÕ¼þÈË£º chenchunhuichina > ³ËÍ£º freesurfer > Ö÷Ì⣺ Re: [Freesurfer] about QAtools > > Hi Chunhui, > I believe this is a dependency issue, since the convert command is part of > the ImageMagick Studio. You'll need to download and install the binaries > (http://www.imagemagick.org/). I'll make of note of this on the wiki > page. > -Louis > On Tue, 6 Mar 2012, chenchunhuichina wrote: >> Dear Freesurfer experts, >> >> I installed the QAtools and tried a subject with this commond: >> $QA_TOOLS/recon_checker -s sub13 -snaps-detailed -gen-asegLUT aseglut.txt >> but I encountered the following Error message, can someone help me figure it >> out? Any help is appreciated, thanks! >> >> Error message 1: >> Received X error! >> error code : 1 >> request code : 148 >> minor code : 179 >> Error text: 'BadRequest (invalid request code or no such operation)' >> >> Error message 2: >> /opt/fmritools/QAtools/takesnapshotpreset.sh : line 89: convert: command not >> found >> >> both of the above two error messages shown in the screen many times, and >> there was no figures in the 'QA_check.html' >> >> >> By the way, I do not have solid anatomical background, is it acceptable that >> I only use QAtools for quality control, without manual editing? I am >> thinking manual editing by non-experts will induce incorrect data. Any >> suggestion? >> >> Thanks a lot! >> >> >> >> 2012-03-06 >> >> >> >> Chunhui Chen >> _________________ >> >> State Key Laboratory of Cognitive Neuroscience and Learning >> Beijing Normal University >> Beijing, China 100875 >> > The information in this e-mail is intended only for the person to whom it is > addressed. If you believe this e-mail was sent to you in error and the e-mail > contains patient information, please contact the Partners Compliance HelpLine > at > http://www.partners.org/complianceline . If the e-mail was sent to you in > error > but does not contain patient information, please contact the sender and > properly > dispose of the e-mail. >
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