Hi, Donna: Thanks for your patience.
I read the old thread, and used the debug mode to make a screen print: http://midodo.net/neuro/caret_debug.gif I think ... this is a double-byte languages issue (Chinese, Japanese, Korean ....) and maybe it happens in both Windows and Mac, especially when creates a new spec file. Sincerely, Midoli :-) 2009/6/22 Donna Dierker <do...@brainvis.wustl.edu> > Kure and Midoli, > > First, thank you both for the excellent detail provided below. It sheds > a lot of light on the problem. > > Second, I do recall another thread where language issues caused similar > problems: > > http://www.mail-archive.com/caret-users@brainvis.wustl.edu/msg01635.html > > Unfortunately, I don't have a solution, but I do think this information > will help John understand what is going on. > > Donna > > On 06/21/2009 04:25 AM, kaiwu wrote: > > Hi, I'm also a beginner of Caret, and I met almost the same problem as > the below message mentioned. > > > +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > > From: midoli <mid...@gmail.com> > > To: "Caret, SureFit, and SuMS software users" > > <caret-users@brainvis.wustl.edu> > > Message-ID: > > <958263d50906201929r6bcc4759ya482a3cdac46a...@mail.gmail.com> > > > +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ > > I installed the caret5.61 in both my computer with WinXp Chinese edition > and Vista Japanese edition, respectively. > > When I open a spec file, i.e. the spec file > "PALS_B12.RIGHT.MCW_2008_06.73730.spec" in the > "Caret5_Quick_Start_June_2008_Data" files, it alway display "opening" and > then prompt "out of memory" finally. > > I don't know how to solve this problem. > > Your help would be greatly appreciated. > > > > Kure > > > > ======= 2009-06-21 14:45:36 As you wrote：======= > > > > > >> Send caret-users mailing list submissions to > >> caret-users@brainvis.wustl.edu > >> > >> To subscribe or unsubscribe via the World Wide Web, visit > >> http://brainvis.wustl.edu/mailman/listinfo/caret-users > >> or, via email, send a message with subject or body 'help' to > >> caret-users-requ...@brainvis.wustl.edu > >> > >> You can reach the person managing the list at > >> caret-users-ow...@brainvis.wustl.edu > >> > >> When replying, please edit your Subject line so it is more specific > >> than "Re: Contents of caret-users digest..." > >> > >> > >> Today's Topics: > >> > >> 1. Re: caret5 - (macosx) - open data file / hanging ... / > >> reinstall is useless.. (midoli) > >> > >> > >> ---------------------------------------------------------------------- > >> > >> Message: 1 > >> Date: Sun, 21 Jun 2009 10:29:25 +0800 > >> From: midoli <mid...@gmail.com> > >> Subject: Re: [caret-users] caret5 - (macosx) - open data file / > >> hanging ... / reinstall is useless.. > >> To: "Caret, SureFit, and SuMS software users" > >> <caret-users@brainvis.wustl.edu> > >> Message-ID: > >> <958263d50906201929r6bcc4759ya482a3cdac46a...@mail.gmail.com> > >> Content-Type: text/plain; charset="iso-2022-jp" > >> > >> Thank you for the reply. The data file was on local hard disk, not > accessed > >> via network. > >> > >> Open successfully: > >> [File] - [Open Data File] - choose [beta_0003.hdr] - [Would you like to > >> create a Spec file] - [No] - [Volume Functional Files] - [If the volume > >> being loaded an SPM volume that is left/right flipped (radiological > >> orientation)] - [Yes] -- Open successfully > >> > >> Open fail: > >> [File] - [Open Data File] - choose [beta_0003.hdr] - [Would you like to > >> create a Spec file] - [Yes] - [subject: test2, structure: both] - [Name > of > >> Spec File that will be created .You may change the name: > >> Human.test2.LR.spec] - [Volume Functional Files] - [If the volume being > >> loaded an SPM volume that is left/right flipped (radiological > orientation)] > >> - [Yes] - crashed, and error message: "MultiByteToWideChar: Cannot > convert > >> multibyte text" > >> > >> I had a new idea last night. Did these problems come from "double-bytes > >> language" Operation System? > >> > >> I used Window XP professional Chinese Version. > >> When I created a new spec file, Caret would crash and there was a > message > >> showed in Caret terminal: > >> "MultiByteToWideChar: Cannot convert multibyte text" > >> > >> I found a new spec file "Human.test2.R.spec" and opened it with > Notepad++. > >> In the spec file, date information was written with Chinese. I uploaded > the > >> spec file here ( http://midodo.net/neuro/Human.test2.LR.spec ) > >> > >> -------- > >> BeginHeader > >> Caret-Version 5.61 > >> category Individual > >> comment test2 > >> date ??? ?? 20 15:41:05 2009 <------------ Chinese time format > >> encoding ASCII > >> space UNKNOWN > >> species Human > >> structure both > >> subject test2 > >> EndHeader > >> -------- > >> Date information was also written with Chinese in the preference file > >> (preferences_file_0caret5_preferences) > >> I uploaded the preference file here ( > >> http://midodo.net/neuro/preferences_file_0caret5_preferences ) > >> > >> -------- > >> BeginHeader > >> Caret-Version 5.61 > >> date ??? ?? 20 15:41:05 2009 <------------ Chinese time format > >> encoding ASCII > >> EndHeader > >> > >> > >> I restart Caret but Caret keep hanging. After deleting > "Human.test2.R.spec" > >> and "preferences_file_0caret5_preferences" files, Caret could restart > >> successfully. > >> > >> I guess.... > >> When I created a spec, Caret wrote time stamp in files. I used a Chinese > >> version Operation System, so the date information was written with > Chinese > >> automatically. The next time Caret read the files, Caret could not > convert > >> double bytes texts, so it crashed. > >> I was very unlucky to have so many problems with Caret because I used > >> "Double-byte" Operation Systems (both in Window and Mac environment)? > >> > >> > >> .Midoli. > >> > >> On Thu, Jun 18, 2009 at 10:04 PM, Donna Dierker < > do...@brainvis.wustl.edu>wrote: > >> > >> > >>> On 06/16/2009 08:31 PM, midoli wrote: > >>> > >>> > >>>> Thanks All and sorry for the late reply. > >>>> > >>>> It's MacOSX 10.5.6. > >>>> > >>>> I reinstalled MacOSX 10.5.6. and caret5, then tried again. > >>>> I found that: > >>>> [open data file] --> [choose xx.hdr] --> then caret5 asked me some > >>>> question, like "if you would create a spec file", "what kind of file > it was > >>>> (functional, anatomy and so on) "..... > >>>> > >>>> on this step, if I chose the wrong answer, caret5 would crash. > >>>> > >>>> > >>> I'm not disputing that it crashed here; I'm sure it did. But at the > step > >>> of identifying what type of volume you were opening, there really isn't > a > >>> wrong answer to this question. I often open volumes of other types > (e.g., > >>> segmentations, paint, or functional volumes) as anatomical volumes, > just so > >>> I can get a grayscale representation of it. The volume type mainly > affects > >>> which overlay type you can access it under on the Overlay/Underlay - > Volume > >>> menu. > >>> > >>> So while it did crash here, it wasn't your "wrong answer" that caused > it. > >>> > >>> By the way, if you are the person who uploaded a volume named > beta_0003.hdr > >>> on 6/14, I was able to open it in Caret with no problem, and > mayo_analyze > >>> turned up nothing unusual (output attached). > >>> > >>> > >>>> I followed Donna's instruction, tried to find ".caret*" file. I typed > "ls > >>>> -al .caret*", but there was no file found :( > >>>> ( I tried it on several directory. I asked my friend to help me, he is > a > >>>> software engineer and he could not find .caret*, too.) > >>>> > >>>> > >>> Maybe this is because you weren't able to get Caret working long enough > to > >>> generate a .caret5_preferences file. (My earlier reply was sent from > home, > >>> where I could not readily identify the filename.) In any event, if it > >>> doesn't exist, then it is not the culprit. > >>> > >>> > >>>> ----------------------------------------- > >>>> By the way, I installed caret5 window version too, but it could not > load > >>>> any "scence". > >>>> the OS was "window XP professional". > >>>> If I selected[choose spec file] -- [PALS_B12.RIGHT.DEMO.73730.spec] -- > >>>> [Load Scenes] -- selected [Inflated, Lateral view (PALS-B13 RIGHT)] > --[Show > >>>> Selected Scene], then it crashed.. the error message was "out of > memory". (I > >>>> have tried to choose different spec file and different scenes, and > everytime > >>>> I selected "show selected Scene, it crashed.) > >>>> > >>>> > >>>> I have tried it on two personal computers (windows system) . One was > 2G > >>>> RAM (windows XP professional), and other was 5G RAM (windows 2003). > The > >>>> "windows task manager" showed that the memory used arose to 9xx MB > then > >>>> crashed. Although there was 5G RAM, It could not assign task to >1G > RAM. > >>>> > >>>> > >>> Wow. You're really having lousy luck with Caret! > >>> > >>> I wish I could think of something else to try for either platform, but > I'm > >>> stumped. We have it working on both MacOSX and Windows here in the > lab, and > >>> these particular triggers (loading volume, show scenese) are not > familiar > >>> trouble spots. > >>> > >>> You aren't by chance using a network drive to access the data, are you? > If > >>> so, does the problem persist when accessed locally? We use network > drives > >>> here all the time, but occasionally they can be a source of trouble, > >>> depending on both the drive/platform combination. > >>> > >>> I confess I'm reaching for an idea here. I'm out of good ones. > >>> > >>> > >>>> Thanks for these kind suggestions. > >>>> > >>>> .Midoli. :-) > >>>> > >>>> > >>>> > >>>> > >>>> On Wed, Jun 17, 2009 at 3:09 AM, John Harwell < > j...@brainvis.wustl.edu<mailto: > >>>> j...@brainvis.wustl.edu>> wrote: > >>>> > >>>> Midoli, > >>>> > >>>> Which version of OS X is installed on your Mac (Apple Menu->About > this > >>>> Mac will tell you)? We know that Caret will not run on versions > prior > >>>> to 10.4. > >>>> > >>>> John > >>>> > >>>> > >>>> > >>>> On Jun 12, 2009, at 8:57 PM, midoli wrote: > >>>> > >>>> > Thanks for these kind suggestions. > >>>> > > >>>> > In fact, my Carot was broken down after my stupid operation. > >>>> > Everytime I open it, it seems to do the wrong process > automatically > >>>> > then crashes. I have tried to reinstall it and it still keeps > >>>> > crashing. > >>>> > How could I kill the fail process clearly? > >>>> > If I can't kill it clearly, I will reinstall the MacOSX to repair > >>>> > the Carot and then follow suggestions. > >>>> > > >>>> > Thanks, > >>>> > Midoli :-) > >>>> > > >>>> > > >>>> > On Sat, Jun 13, 2009 at 2:03 AM, Donna Dierker > >>>> <do...@brainvis.wustl.edu <mailto:do...@brainvis.wustl.edu> > >>>> > >>>> > > wrote: > >>>> > If you don't have AFNI installed, you can upload your .hdr here, > >>>> and I > >>>> > can try mayo_analyze on my end: > >>>> > > >>>> > http://pulvinar.wustl.edu/cgi-bin/upload.cgi > >>>> > > >>>> > If you upload the .img file, too, I can try opening it in Caret. > >>>> > > >>>> > On 06/12/2009 11:43 AM, John Harwell wrote: > >>>> > > If you tried to load the "img" file, caret will ask the user > >>>> for the > >>>> > > type of file. Do not select the img file. > >>>> > > > >>>> > > Try selecting and loading the "hdr" file. If caret is getting > >>>> stuck > >>>> > > loading the file, then there is probably a problem the with > >>>> hdr/img > >>>> > > files, most likely the byte order is incorrect so that > dimensions > >>>> > > appear enormous to Caret. > >>>> > > > >>>> > > How were the hdr/img files created? > >>>> > > > >>>> > > If you have AFNI installed, try running "mayo_analyze > >>>> <name-of-hdr- > >>>> > > file>". What is the output? > >>>> > > > >>>> > > On Jun 12, 2009, at 9:37 AM, midoli wrote: > >>>> > > > >>>> > > > >>>> > >> Hi, All > >>>> > >> > >>>> > >> I'm just beginning to use Caret. > >>>> > >> > >>>> > >> I installed Caret5 in Mac OS. > >>>> > >> I used "File/Open Data File" to upload .hdr or .img file > >>>> (sorry, I > >>>> > >> forgot which one I chose.) and it was hanging. > >>>> > >> The cursor kept on showing "processing" status, I waited for > >>>> a long > >>>> > >> time... finally I used Ctrl+C to terminate Caret. > >>>> > >> I reopened Caret, it still showed "processing" status at the > >>>> > opening > >>>> > >> time, I had no chance to do anything. > >>>> > >> I tried to restart OS, even reinstall Caret in a different > >>>> > >> directory.... these efforts were in vain. > >>>> > >> > >>>> > >> Did Caret hide something outside Caret's directory? > >>>> > >> How could I kill this fail process clearly and use Caret > again? > >>>> > >> > >>>> > >> Thank you. :-) > >>>> > >> > >>>> > >> Shih-Chuan Chen. > >>>> > > >>>> > _______________________________________________ > >>>> > caret-users mailing list > >>>> > caret-users@brainvis.wustl.edu > >>>> <mailto:caret-users@brainvis.wustl.edu> > >>>> > http://brainvis.wustl.edu/mailman/listinfo/caret-users > >>>> > > >>>> > _______________________________________________ > >>>> > caret-users mailing list > >>>> > caret-users@brainvis.wustl.edu > >>>> <mailto:caret-users@brainvis.wustl.edu> > >>>> > http://brainvis.wustl.edu/mailman/listinfo/caret-users > >>>> > >>>> _______________________________________________ > >>>> caret-users mailing list > >>>> caret-users@brainvis.wustl.edu <mailto: > caret-users@brainvis.wustl.edu> > >>>> http://brainvis.wustl.edu/mailman/listinfo/caret-users > >>>> > >>>> > >>>> > ------------------------------------------------------------------------ > >>>> > >>>> _______________________________________________ > >>>> caret-users mailing list > >>>> caret-users@brainvis.wustl.edu > >>>> http://brainvis.wustl.edu/mailman/listinfo/caret-users > >>>> > >>>> > >>>> > >>> Analyze Header Dump of: </upload/beta_0003.hdr> > >>> sizeof_hdr: <348> > >>> data_type: <dsr > > >>> db_name: <beta_0003> > >>> extents: <0> > >>> session_error: <0> > >>> regular: <r> > >>> hkey_un0: <^@> > >>> dim[0]: <4> > >>> dim[1]: <61> > >>> dim[2]: <73> > >>> dim[3]: <85> > >>> dim[4]: <1> > >>> dim[5]: <0> > >>> dim[6]: <0> > >>> dim[7]: <0> > >>> datatype: <16> > >>> bitpix: <32> > >>> pixdim[0]: <0.0000> > >>> pixdim[1]: <3.0000> > >>> pixdim[2]: <3.0000> > >>> pixdim[3]: <3.0000> > >>> pixdim[4]: <1.0000> > >>> pixdim[5]: <0.0000> > >>> pixdim[6]: <0.0000> > >>> pixdim[7]: <0.0000> > >>> vox_offset: <0.0000> > >>> funused1: <1.0000> > >>> funused2: <0.0000> > >>> funused3: <0.0000> > >>> cal_max: <1.0000> > >>> cal_min: <0.0000> > >>> compressed: <0.0000> > >>> verified: <0.0000> > >>> glmax: <1> > >>> glmin: <0> > >>> descrip: <spm_spm:beta (0003) - Sn(1) nopain*bf(1)> > >>> aux_file: <> > >>> orient: <0> > >>> SPM originator decodes to 31 43 25 > >>> originator: <^_> > >>> generated: <today> > >>> scannum: <> > >>> patient_id: <> > >>> exp_date: <> > >>> exp_time: <> > >>> hist_un0: <> > >>> views: <0> > >>> vols_added: <0> > >>> start_field:<0> > >>> field_skip: <0> > >>> omax: <0> > >>> omin: <0> > >>> smin: <0> > >>> smin: <0> > >>> > >>> _______________________________________________ > >>> caret-users mailing list > >>> caret-users@brainvis.wustl.edu > >>> http://brainvis.wustl.edu/mailman/listinfo/caret-users > >>> > >>> > >>> > >> -------------- next part -------------- > >> An HTML attachment was scrubbed... > >> URL: > http://brainvis.wustl.edu/pipermail/caret-users/attachments/20090621/4a819a71/attachment.html > >> > >> ------------------------------ > >> > >> _______________________________________________ > >> caret-users mailing list > >> caret-users@brainvis.wustl.edu > >> http://brainvis.wustl.edu/mailman/listinfo/caret-users > >> > >> > >> End of caret-users Digest, Vol 69, Issue 9 > >> ****************************************** > >> > >> > > > > > > > > > > > > _______________________________________________ > > caret-users mailing list > > caret-users@brainvis.wustl.edu > > http://brainvis.wustl.edu/mailman/listinfo/caret-users > > > > _______________________________________________ > caret-users mailing list > caret-users@brainvis.wustl.edu > http://brainvis.wustl.edu/mailman/listinfo/caret-users >
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