Specify something for --seg. It just needs to be a surface overlay of the same size as the input.
On 08/27/2015 01:49 AM, A-reum Min wrote: > Hello doug > > i enter the ' mri_segstats --i y.mgh --vox 33 0 0 --avgwf out.dat' > then, error occured --> ERROR: must specify a segmentation volume > > How can i to do? > > 2015-08-27 12:50 GMT+09:00 Douglas Greve <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu>>: > > don't use "vertexno", just put the vertex number, eg, --vox 33 0 0 > > > On 8/26/15 9:22 PM, A-reum Min wrote: >> Hello developer, >> >> I have some question to you. >> >> How can i get the significant vertices value using Qdec result? >> >> When i enter the 'mri_segstats --i y.mgh --vox vertexno 33 0 0 >> --avgwf out.dat', then error ouccured --> ERROR : Option out.dat >> unknown. >> >> So, i enter the 'mri_segstats --i y.mgh --vox vertexno 33 0 0 >> --avgwf out.dat', then error occured --> ERROR : Option 0 unkown. >> >> How can i fix it? >> >> >> >> >> >> >> >> 2015-08-25 23:41 GMT+09:00 Douglas Greve >> <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>>: >> >> >> >> On 8/25/15 9:35 AM, A-reum Min wrote: >>> Hello developers >>> >>> I have some question to you. >>> >>> 1.In fig.png, how many vertices were composed of cluster at >>> least? >> I'm not sure what you mean. it does not look like there are >> any clusters there >>> >>> 2. How to change Area Threshold(fig.png)? >> The area is controlled by the clusterwise threshold (--cwp) >> to mri_glmfit-sim >>> >>> 3. How to change CSD thresh(fig.png)? >> That is controlled by the threshold when specifying "--cache >> threshold sign" to mri_glmfit-sim >>> >>> 4. What is the difference between two words(Area Threshold, >>> CSD thresh)? >> One is the cluster-pvalue and the other is the >> cluster-forming thershold >>> >>> 5. What is the exactly mean two words(Area Threshold, CSD >>> thresh)? >> See above >> >>> >>> Thank you >>> >>> 2015-08-12 23:23 GMT+09:00 Douglas N Greve >>> <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>>: >>> >>> >>> >>> On 08/10/2015 10:06 PM, A-reum Min wrote: >>> > HI expert ! >>> > >>> > My name is Areum. I have some question to you. >>> > >>> > 1. Does FreeSurfer offer a effect size? if that offer, >>> how can i use >>> > effect size? >>> > >>> If you're doing a group analysis, you can compute >>> fscalc glmdir/contrast/gamma.mgh div glmdir/rstd.mgh -o >>> glmdir/contrast/effectsize.mgh >>> > >>> > 2. I was wondering about the stats.dat file in >>> stats_table (in Qdec >>> > folder). >>> > >>> > Stats.dat file’s value mean that each area’s average >>> (include whole >>> > vertex) or each >>> > >>> > area’s average (only significant vertex)? >>> > >>> what stats.dat? if subject/stats/lh.aparc.stats, then >>> the area is the >>> total area for the ROI >>> > >>> > 3. Can I get whole vertex value or significant vertex >>> value? Because, >>> > I want to >>> > >>> > compare two groups correlation using SPSS. In >>> addition, I want to compare >>> > >>> > thickness, volume and surface area correlation within >>> the one group >>> > using SPSS. >>> > >>> You can extract a given vertex with >>> mri_segstats --i y.mgh --crs vertexno 0 0 --avgwf >>> vertexno.dat >>> vertexno.dat will be a text file with number of rows >>> equalt to thge >>> number of subjects where the value is the data from the >>> given (0-based) >>> vertex no. y.mgh is the input to mri_glmfit >>> > >>> > 4. I currently use the default cluster >>> size(significant area threshold >>> > is 0mm^2). So, I >>> > >>> > want to control cluster size larger than default >>> cluster size. How can >>> > I control the >>> > >>> > cluster size? >>> > >>> I don't know what you mean. >>> > >>> > 5. In FreeSurfer manual, GLM and Qdec have a same >>> results. But when I >>> > use the >>> > >>> > both(GLM, Qdec) group analysis program results are not >>> same. What is >>> > differences >>> > >>> > between two analysis program? How can I get same >>> result while GLM and >>> > Qdec? >>> > >>> No way to know unless you tell us the specifics of what >>> you did >>> > >>> > 6. How can I get surface area and volume using >>> GLM(group analysis >>> > program)? >>> > >>> surface area and volume are outputs of recon-all, not glm >>> > >>> > >>> > plz reply to me >>> > >>> > >>> > 2015-08-10 21:35 GMT+09:00 A-reum Min >>> <naniy...@gmail.com <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com <mailto:naniy...@gmail.com>>>: >>> > >>> > Hello developer~ >>> > >>> > I have some questions to you. >>> > >>> > 1. Does FreeSurfer offer a effect size? if that >>> offer, how can i >>> > use effect size? >>> > >>> > 2. I was wondering about the stats.dat file in >>> stats_table (in >>> > Qdec folder). >>> > >>> > Stats.dat file’s value mean that each area’s >>> average (include >>> > whole vertex) or each >>> > >>> > area’s average (only significant vertex)? >>> > >>> > 3. Can I get whole vertex value or significant >>> vertex value? >>> > Because, I want to >>> > >>> > compare two groups correlation using SPSS. In >>> addition, I want to >>> > compare >>> > >>> > thickness, volume and surface area correlation >>> within the one >>> > group using SPSS. >>> > >>> > 4. I currently use the default cluster >>> size(significant area >>> > threshold is 0mm^2). So, I >>> > >>> > want to control cluster size larger than default >>> cluster size. How >>> > can I control the >>> > >>> > cluster size? >>> > >>> > 5. In FreeSurfer manual, GLM and Qdec have a same >>> results. But >>> > when I use the >>> > >>> > both(GLM, Qdec) group analysis program results are >>> not same. What >>> > is differences >>> > >>> > between two analysis program? How can I get same >>> result while GLM >>> > and Qdec? >>> > >>> > 6. How can I get surface area and volume using >>> GLM(group analysis >>> > program)? >>> > >>> > >>> > thanks for your help >>> > >>> > >>> > 2015-07-27 14:28 GMT+09:00 A-reum Min >>> <naniy...@gmail.com <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>>>: >>> > >>> > Hello bruce >>> > >>> > I solve this problem(12.png) >>> > >>> > Thank you >>> > >>> > 2015-07-27 13:03 GMT+09:00 dgw >>> <dgwake...@gmail.com <mailto:dgwake...@gmail.com> >>> > <mailto:dgwake...@gmail.com >>> <mailto:dgwake...@gmail.com>>>: >>> > >>> > Hi A-reum, >>> > >>> > I think you may be able to get a faster >>> response if you >>> > include some >>> > details about your setup: I would start >>> with the following: >>> > >>> > http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>> > and run bugr. >>> > >>> > hth >>> > D >>> > >>> > On 7/26/15 5:17 PM, A-reum Min wrote: >>> > > Hi, Bruce >>> > > >>> > > When i use a Qdec, this message(12.png) >>> show up.. >>> > > How can i solve this problem? >>> > > >>> > > 2015-07-23 22:57 GMT+09:00 Bruce Fischl >>> > <fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>> >>> > > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>>>>: >>> > > >>> > > 1. No, each subject has a different >>> #. You can map >>> > to fsaverage >>> > > (this is what -qcache does if you >>> specify it for >>> > recon-all), then >>> > > they will have the same #. >>> > > >>> > > 2. What result data do you mean? >>> > > >>> > > 3. Yes, although I'll leave the >>> details to Doug >>> > (since I don't >>> > > remember how his cluster code works). >>> > > >>> > > 4. The significance doesn't depend >>> on the cluster >>> > size unless you do >>> > > multiple comparison corrections (and >>> even then only >>> > if you do them a >>> > > certain way) >>> > > >>> > > cheers >>> > > Bruce >>> > > >>> > > >>> > > On Thu, 23 Jul 2015, A-reum Min wrote: >>> > > >>> > > HELLO developer >>> > > I have some question to you.. >>> > > >>> > > 1. Every patient is given to the >>> same number >>> > of vertex? >>> > > >>> > > 2. When i use a Qdec, How can I get the >>> > subject result data? >>> > > >>> > > 3. Could i get the significant vertex’s >>> > number, extent of the >>> > > significant area and gray matter volume? >>> > > >>> > > 4. Is it significant blue color >>> which how >>> > many connected >>> > > vertex? >>> > > >>> > > >>> > > 2015-05-29 2:03 GMT+09:00 A-reum Min >>> > <naniy...@gmail.com >>> <mailto:naniy...@gmail.com> <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>> >>> > > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>>>>: >>> > > hello developer~ >>> > > reconstruction is well done, so i'm >>> doing on >>> > 'qdec' step.. >>> > > Actually, i don't know how to treat the >>> Design >>> > menu exactly.. >>> > > >>> > >>> >>> --------------------------------------------------------------------------- >>> > > Discrete(fixed factors) : diagnosis >>> > > continuous (covariate) : age , >>> > Left-Lateral-Ventricle >>> > > >>> > >>> >>> --------------------------------------------------------------------------- >>> > > which one click before analyze? >>> > > >>> > > age range is 12years~24years/ >>> > > all subjects are adolescent. >>> > > and no outlier in age range.. >>> so.. age >>> > (continuous factor) does not >>> > > nasessart? >>> > > >>> > > >>> > > 2015-05-29 1:19 GMT+09:00 A-reum Min >>> > <naniy...@gmail.com >>> <mailto:naniy...@gmail.com> <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>> >>> > > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>>>>: >>> > > hello developer~ >>> > > reconstruction is well done, so i'm >>> doing on >>> > 'qdec' step.. >>> > > Actually, i don't know how to treat the >>> Design >>> > menu exactly.. >>> > > >>> > >>> >>> --------------------------------------------------------------------------- >>> > > Discrete(fixed factors) : diagnosis >>> > > continuous (covariate) : age , >>> > Left-Lateral-Ventricle >>> > > >>> > >>> >>> --------------------------------------------------------------------------- >>> > > which one click before analyze? >>> > > >>> > > >>> > > >>> > > 2015-04-05 21:41 GMT+09:00 Bruce Fischl >>> > > <fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>>>>: >>> > > I'm glad it worked out >>> > > Bruce >>> > > On Sun, 5 Apr 2015, A-reum Min wrote: >>> > > >>> > > Hello Bruce~ >>> > > You're right.. my PISA dicom file >>> > header >>> > > is too short >>> > > so, freesurfer didn't read it. >>> > > >>> > > Therefore I use another subjects >>> dicom >>> > > file and then freesurfer read it! >>> > > >>> > > thank you for u r adavice to me. >>> > > >>> > > I really appreciate u >>> > > >>> > > 2015-04-05 7:08 GMT+09:00 Bruce >>> Fischl >>> > > <fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>> >>> > > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>>>>: >>> > > Hi A-reum >>> > > >>> > > the problem is that newer >>> > versions >>> > > of scanner software compress >>> > > dicoms and the version of FS you >>> > > have doesn't know how to read >>> > > it. So you need to >>> decompress >>> > them >>> > > before passing them to >>> > > recon-all >>> > > >>> > > cheers >>> > > Bruce >>> > > On Sun, 5 Apr 2015, >>> A-reum Min >>> > > wrote: >>> > > >>> > > Hello developer~ >>> > > >>> > > Can you summarize what the >>> > > problem is? >>> > > ==> >>> > > my problem is recon-all -i >>> > > didn't working... >>> > > so, if i type the recon-all >>> > > -i~then show up theses >>> > > >>> > > >>> > > >>> > >>> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > ERROR: 32512, see >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.55srMV.dcmdjpeg.out >>> > > for >>> > > more details >>> > > Linux localhost.localdomain >>> > > 2.6.32-504.el6.x86_64 #1 >>> > > SMP Wed Oct 15 04:27:16 >>> > > UTC 2014 x86_64 x86_64 >>> > > x86_64 GNU/Linux >>> > > >>> > > dcmdjpeg.fs: error while >>> > > loading shared libraries: >>> > > libijg8.so.3.6: cannot >>> > > open shared object file: No >>> > > such file or directory >>> > > >>> > > >>> > > >>> > >>> +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > >>> > > then, i click the >>> > > >>> > > >>> root.tmp.decompressed.dcm.55srMV.dcmdjpeg.out, >>> > > show >>> > > up >>> > > these >>> > > dcmdjpeg.fs: error while >>> > > loading shared libraries: >>> > > libijg8.so.3.6: cannot >>> > > open shared object file: No >>> > > such file or directory >>> > > >>> > > Are you trying to read >>> > > compressed dicom? >>> > > ==> >>> > > Am i trying to read >>> > > compressed dicom? >>> > > I send my 10071579.dicom(i >>> > > use this) to you, >>> > > using -i, convert the dicom >>> > > file to mgh file. i just >>> > > know that dicom file >>> > > convert to mgz format using >>> > > -i /my data path >>> > > Is it right..?? >>> > > >>> > > >>> > > If so, Can you try running >>> > > dcmdjpeg on it to create >>> > > a new (uncompressed) >>> > > series and give that to >>> > > recon-all? >>> > > ==> (actually, i didn't >>> > > understand your sentence >>> > > means perfectly..) >>> > > zeke >>> > > >>> > >>> >>> tomeaurl(ftp://surfer.nmr.mgh.harvard.edu//pub/dist/freesurfer/dev_binaries/c >>> > > >>> > > en >>> > > t >>> > > os6_x86_64/dcmdjpeg.fs) >>> > > and then, replace my >>> > > existing >>> > > >>> > > $FREESURFER_HOME/bin/dcmdjpeg.fs file. >>> > > Also, make sure it is set to >>> > > executable by typing >>> > > the following in a >>> > > terminal window: >>> > > $> chmod a+x >>> > > $FREESURFER_HOME/bin/dcmdjpeg.fs >>> > > >>> > > >>> > > 2015-04-05 2:30 GMT+09:00 >>> > > Bruce Fischl >>> > > >>> > > <fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>> >>> > > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu> >>> > <mailto:fis...@nmr.mgh.harvard.edu >>> <mailto:fis...@nmr.mgh.harvard.edu>>>>: >>> > > Hi A-reum >>> > > >>> > > sorry, I'm coming into >>> > > this late. Can you >>> > > summarize what the >>> > > problem is? Are you >>> > > trying to read compressed >>> > > dicom? If so, can >>> > > you try running >>> > > dcmdjpeg on it to create a new >>> > > (uncompressed) >>> > > series and give that >>> > > to recon-all? >>> > > >>> > > cheers >>> > > Bruec >>> > > >>> > > >>> > > >>> > > On Sat, 4 Apr 2015, >>> > > A-reum Min wrote: >>> > > >>> > > Hello >>> > > developers.. >>> > > >>> > > i type the >>> > > recon-all -i~then show up >>> > > theses >>> > > >>> > > >>> > > >>> > > >>> > >>> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > ERROR: 32512, >>> > > see >>> > > >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.55srMV.dcmdjpeg.out >>> > > for >>> > > more details >>> > > Linux >>> > > localhost.localdomain >>> > > 2.6.32-504.el6.x86_64 #1 >>> > > SMP Wed Oct 15 >>> > > 04:27:16 >>> > > UTC 2014 x86_64 >>> > > x86_64 x86_64 GNU/Linux >>> > > >>> > > dcmdjpeg.fs: >>> > > error while loading shared >>> > > libraries: >>> > > libijg8.so.3.6: >>> > > cannot >>> > > open shared >>> > > object file: No such file or >>> > > directory >>> > > >>> > > >>> > > >>> > > >>> > >>> +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > >>> > > error is occured >>> > > (a little differntly..) >>> > > then, i click >>> > > the >>> > > >>> > > >>> > > >>> root.tmp.decompressed.dcm.55srMV.dcmdjpeg.out, >>> > > show >>> > > up >>> > > these >>> > > >>> > > dcmdjpeg.fs: >>> > > error while loading shared >>> > > libraries: >>> > > libijg8.so.3.6: >>> > > cannot >>> > > open shared >>> > > object file: No such file or >>> > > directory >>> > > >>> > > i'm so sorry..to >>> > > bother you.. >>> > > >>> > > >>> > > >>> > > 2015-04-04 9:21 >>> > > GMT+09:00 A-reum Min >>> > > >>> > > <naniy...@gmail.com >>> <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>> <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com> >>> > <mailto:naniy...@gmail.com >>> <mailto:naniy...@gmail.com>>>>: >>> > > hello >>> > > >>> > > i type the >>> > > recon-all -i~ >>> > > then show up >>> > > theses >>> > > >>> > >>> >>> +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > >>> > > >>> > > >>> > > +++++++ >>> > > >>> > > ERROR: 32256, >>> > > see >>> > > >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.XhbJG3.dcmdjpeg.out >>> > > for more details >>> > > Linux >>> > > localhost.localdomain >>> > > 2.6.32-504.el6.x86_64 #1 >>> > > SMP Wed Oct 15 >>> > > 04:27:16 UTC >>> > > 2014 x86_64 x86_64 x86_64 >>> > > GNU/Linux >>> > > >>> > >>> >>> +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > >>> > > >>> > > >>> > > +++++++ >>> > > the error is >>> > > occured (a little >>> > > differntly..) >>> > > then, i click >>> > > the >>> > > >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.XhbJG3.dcmdjpeg.out, >>> > > show iuo these >>> > > >>> > > sh: >>> > > >>> > > /usr/local/freesurfer/bin/dcmdjpeg.fs: >>> > > >>> > > /lib/ld-linux.so.2: bad ELF >>> > > interpreter: No >>> > > such file or directory >>> > > >>> > > plz help me >>> > > 2015-04-04 4:12 >>> > > GMT+09:00 >>> > > >>> > > <zkauf...@nmr.mgh.harvard.edu >>> <mailto:zkauf...@nmr.mgh.harvard.edu> >>> > <mailto:zkauf...@nmr.mgh.harvard.edu >>> <mailto:zkauf...@nmr.mgh.harvard.edu>> >>> > > <mailto:zkauf...@nmr.mgh.harvard.edu >>> <mailto:zkauf...@nmr.mgh.harvard.edu> >>> > <mailto:zkauf...@nmr.mgh.harvard.edu >>> <mailto:zkauf...@nmr.mgh.harvard.edu>>>>: >>> > > A-reum, >>> > > >>> > > Please >>> > > download the following >>> > > file: >>> > > >>> > > >>> > >>> >>> ftp://surfer.nmr.mgh.harvard.edu//pub/dist/freesurfer/dev_binaries/centos6_ >>> > > >>> > > >>> > > >>> > > >>> > > x86_64/dcmdjpeg.fs >>> > > >>> > > And >>> > > replace your existing >>> > > >>> > > $FREESURFER_HOME/bin/dcmdjpeg.fs >>> > > file with >>> > > the >>> > > one from >>> > > the link above. Also, >>> > > make sure it is >>> > > set to >>> > > executable >>> > > by typing >>> > > the >>> > > following in a terminal >>> > > window: >>> > > >>> > > $> chmod >>> > > a+x >>> > > >>> > > $FREESURFER_HOME/bin/dcmdjpeg.fs >>> > > >>> > > And then >>> > > try again. >>> > > >>> > > -Zeke >>> > > >>> > > >>> > > > Hi >>> > > doug... recon-all dosen't >>> > > working.. >>> > > > >>> > > > If i >>> > > type the recon-all -i~ >>> > > > then, >>> > > error occured... >>> > > > >>> > > >>> > > >>> > >>> >>> >++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > + >>> > > + >>> > > + >>> > > ++ >>> > > > >>> > > > JPEG >>> > > compressed, decompressing >>> > > > cd >>> > > >>> > > >>> > > >>> /usr/local/freesurfer/subjects/PISA_FSPGR/1/subj01 >>> > > > >>> > > dcmdjpeg.fs +te >>> > > >>> > > >>> > > >>> > > >>> > > >>> /usr/local/freesurfer/subjects/PISA_FSPGR/1/I0071579.dcm >>> > > > >>> > > >>> > > /tmp/root.tmp.decompressed.dcm.kBIYHL >& >>> > > > >>> > > >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.kBIYHL.dcmdjpeg.out >>> > > > ERROR: >>> > > 32512, see >>> > > >>> > > >>> > > >>> > > >>> /tmp/root.tmp.decompressed.dcm.kBIYHL.dcmdjpeg.out >>> > > for >>> > > > more >>> > > details >>> > > > Linux >>> > > localhost.localdomain >>> > > >>> > > 2.6.32-504.el6.x86_64 #1 SMP >>> > > Wed Oct 15 >>> > > > 04:27:16 >>> > > UTC 2014 x86_64 x86_64 >>> > > x86_64 >>> > > GNU/Linux >>> > > > >>> > > > >>> > > recon-all -s subj01 exited with >>> > > ERRORS at >>> > > Fri Apr 3 >>> > > 10:39:27 >>> > > PDT 2015 >>> > > > >>> > > > For more >>> > > details, see the log >>> > > file >>> > > > >>> > > >>> > > >>> > > >>> > > >>> > > >>> > >>> >>> /usr/local/freesurfer/subjects/PISA_FSPGR/1/subj01/scripts/recon-all.log >>> > > > To >>> > > report a problem, see >>> > > > >>> > > >>> > > >>> > > >>> http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>> > > > >>> > > >>> > > >>> > >>> >>> >++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ >>> > > + >>> > > + >>> > > + >>> > > +++ >>> > > > >>> > > > I copy >>> > > the libdcmjpeg.so.3.6 and >>> > > paste in >>> > > >>> > > FREESURFER_HOME/lib >>> > > > after >>> > > that type the setenv >>> > > LD_LIBRARY_PATH >>> > > >>> > > $FREESURFER_HOME/lib >>> > > > >>> > > > but.. >>> > > didn't working .. >>> > > > >>> > > > same >>> > > error occured --> >>> > > dcmdjpeg.fs: error >>> > > while loading >>> > > shared >>> > > libraries: >>> > > > >>> > > libdcmjpeg.so.3.6: cannot open >>> > > shared object >>> > > file: No >>> > > such file >>> > > or >>> > > > >>> > > directory >>> > > > >>> > > > and i >>> > > click the >>> > > >>> > > >>> > > >>> root.tmp.decompressed.dcm.kBIYHL.dcmdjpeg.out >>> > > then show up >>> > > > these >>> > > > >>> > > > >>> > > dcmdjpeg.fs: error while loading >>> > > shared >>> > > libraries: >>> > > >>> > > libdcmjpeg.so.3.6: >>> > > > cannot >>> > > open shared object file: >>> > > No such file >>> > > or >>> > > directory >>> > > > >>> > > > how can i to >>> > > do ㅜㅜ help me doug >>> > > > >>> > > >>> > > >>> _______________________________________________ >>> > > > Freesurfer >>> > > mailing list >>> > > > >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > > > >>> > > >>> > > >>> > > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer >>> > > mailing list >>> > > >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > > >>> > > >>> > > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > > >>> > > >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer mailing list >>> > > >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > > >>> > > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer mailing list >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > >>> >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer mailing list >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > >>> >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > > >>> > > >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer mailing list >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>>> >>> > >>> >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > > >>> > > >>> > > >>> > > >>> _______________________________________________ >>> > > Freesurfer mailing list >>> > > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > >>> >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > > >>> > > >>> > > 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. >>> > > >>> > _______________________________________________ >>> > Freesurfer mailing list >>> > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > <mailto:Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >>> > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> > >>> > >>> > >>> > >>> > >>> > >>> > _______________________________________________ >>> > Freesurfer mailing list >>> > Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> -- >>> Douglas N. Greve, Ph.D. >>> MGH-NMR Center >>> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> >>> Phone Number: 617-724-2358 >>> Fax: 617-726-7422 >>> >>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >>> Outgoing: >>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> 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. >> >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
