<div dir="ltr">Thanks David.<div><br></div><div>Regards,</div><div>Ahmed</div><div><br></div></div><div class="gmail_extra"><br><div class="gmail_quote">On Wed, Nov 5, 2014 at 12:22 PM, Ana Margarida Mota <span dir="ltr"><<a href="mailto:ninimota87@gmail.com" target="_blank">ninimota87@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Yes, thank you! I delete the ".md5" and it was OK! <div><br></div><div>The other two questions are more complicated (I guess...)</div></div><div class="HOEnZb"><div class="h5"><div class="gmail_extra"><br><div class="gmail_quote">2014-11-05 17:09 GMT+00:00 David Sarrut <span dir="ltr"><<a href="mailto:David.Sarrut@creatis.insa-lyon.fr" target="_blank">David.Sarrut@creatis.insa-lyon.fr</a>></span>:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hello, <div><br></div><div>md5 is only the signature of the data (see <a href="http://en.wikipedia.org/wiki/MD5" target="_blank">en.wikipedia.org/wiki/MD5</a>) used to retrieve the data from the website (see my previous reply). Just ignore the link. </div><div><br></div><div>If you want to change the phantom, put the file in a folder and modify the Gate macro. </div><div><br></div><div>For the other error related to interfile file format, I dont know I do not use this format. </div><div><br></div><div>David</div></div><div class="gmail_extra"><div><div><br><div class="gmail_quote">On Wed, Nov 5, 2014 at 5:54 PM, Ahmed Elmekawy <span dir="ltr"><<a href="mailto:ahmedfelmekawy@gmail.com" target="_blank">ahmedfelmekawy@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Hi Ana,<br><br><div>I believe the <span style="font-family:arial,sans-serif;font-size:13px">brain_phantom.md5 is soft link but also I don't understand ẃhy the user put it in soft link if you need to understant more just go to brain_phantom.i33 and then write $ ls -ltr brain_phantom.i33 so you will find the soft link.<br><br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px">I think the problem not coming from your phantom but you have to attach this soft link to your phantom specially the .i33 file.<br><br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px">any way I have the same problem right now.<br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px"><br><br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px">Regards<br></span></div><div><span style="font-family:arial,sans-serif;font-size:13px">Ahmed<br></span></div></div><div class="gmail_extra"><br><div class="gmail_quote"><div><div>On Wed, Nov 5, 2014 at 5:31 PM, Ana Margarida Mota <span dir="ltr"><<a href="mailto:ninimota87@gmail.com" target="_blank">ninimota87@gmail.com</a>></span> wrote:<br></div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div><div dir="ltr"><div><div><div><div><div><div><div><div>Dear Gate users,<br><br></div>I am having some problems with GATE7. I am new at Gate so I apologize if the questions I ask here are basic. I have mainly 3 questions:<br><br></div>(1) In examples/example_PHANTOM_SOURCE/Voxelized_Phantom_Source/ why the data file brain_phantom.i33 is brain_phantom.md5?What is the meaning of md5?<br><br></div>(2) In the same folder, when I try to run mainMacro.mac, it starts normally but than suddenly stops and I receive the message <br>"<b>GateVImageVolume.cc (l.570): I find R=25907 in the image, while range stop at 15</b>"<br></div>What's wrong?<br><br></div>(3) I try to run the same file but with my voxelized source and I receive the following error:<br><br><b>GateSourceVoxelImageReader::ReadFile : fileName: <br>', assuming default BIGENDIAN'LITTLEENDIAN<br><br>'nrecognised type name 'unsigned integer<br>', assuming default BIGENDIAN'BIGENDIAN<br><br>'nrecognised type name 'unsigned integer<br> Header read from 'PET_PVC-MTC.h33'<br> Data file name 'PET_PVC-MTC.i33'<br> Nb of planes: 176<br> Nb of pixels per plane: 448 512<br> Pixel size: 5.273e-01 5.273e-01<br> Slice thickness: 2.086e+00<br> Matrix size: 2.363e+02 2.700e+02<br> Data type: <br> Data byte order: BIGENDIAN<br><br> **** Error: Volume does not exist **** <br> Ignoring confine condition</b><br><br><br></div>and after some lines:<br><br><br><b>*** Break *** segmentation violation</b><br></div><div><br><br><br>My interfile is:<b><br><br>!INTERFILE := <br>!imaging modality :=nucmed <br>!originating system :=ImageJ <br>!version of keys :=3.3 <br>!date of keys :=1992:01:01 <br>!conversion program :=ImageJ <br>!program author :=J. Anthony Parker, MD PhD (J.A.Parker@IEEE.org) <br>!program version :=15January2002 <br>!program date :=2002:01:15 <br>; <br>!GENERAL DATA := <br>original institution := NucMed <br>!data offset in bytes := 0 <br>!name of data file := PET_PVC-MTC.img <br>patient name := Unknown <br>!patient ID := Unknown <br>patient dob := 0000:00:00 <br>patient sex := Unknown <br>!study ID := Unknown <br>exam type := Unknown <br>data compression := none <br>data encode := none <br>organ := Unknown <br>isotope := Unknown <br>dose := 0 <br>NUD/Patient Weight [kg] := 0.00 <br>NUD/imaging modality := NM <br>NUD/activity := 0 <br>NUD/activity start time := 00:00:00 <br>NUD/isotope half life [hours] := 0.000000 <br>; <br>!GENERAL IMAGE DATA := <br>!type of data := Tomographic <br>!total number of images := 176 <br>study date := 0000:00:00 <br>study time := 00:00:00 <br>imagedata byte order := LITTLEENDIAN <br>process label := <br>; <br>quantification units := +1.000000e+000 <br>NUD/rescale slope := +1.000000e+000 <br>NUD/rescale intercept := +0.000000e+000 <br>; <br>number of energy windows := 1 <br>; <br>energy window [1] := <br>energy window lower level [1] := <br>energy window upper level [1] := <br>flood corrected := N <br>decay corrected := N <br>; <br>!SPECT STUDY (general) := <br>number of detector heads := 1 <br>; <br>!number of images/energy window := 176 <br>!process status := Reconstructed <br>!matrix size [1] := 512 <br>!matrix size [2] := 448 <br>!number format := unsigned integer <br>!number of bytes per pixel := 2 <br>scaling factor (mm/pixel) [1] := +5.273440e-001 <br>scaling factor (mm/pixel) [2] := +5.273440e-001 <br>!number of projections := 176 <br>!extent of rotation := <br>!time per projection (sec) := 0 <br>study duration (sec) := 0 <br>!maximum pixel count := +2.550000e+002 <br>patient orientation := Unknown <br>patient rotation := Unknown <br>; <br>!SPECT STUDY (reconstructed data) := <br>method of reconstruction := Unknown <br>!number of slices := 176 <br>number of reference frame := 0 <br>slice orientation := unknown <br>slice thickness (pixels) := +2.085925e+000 <br>centre-centre slice separation (pixels) := +2.085925e+000 <br>filter name := Unknown <br>filter parameters := Cutoff <br>method of attenuation correction := measured <br>scatter corrected := N <br>oblique reconstruction := N <br>!END OF INTERFILE :=</b><br><br></div>Can anyone help me please??<br><br></div>Thank you!!<br></div> <br></div></div>_______________________________________________<br> Gate-users mailing list<br> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a><br> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a><br></blockquote></div><br></div> <br>_______________________________________________<br> Gate-users mailing list<br> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a><br> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a><br></blockquote></div><br><br clear="all"><div><br></div></div></div><span><font color="#888888">-- <br><div><div dir="ltr">David Sarrut, Phd<br>Directeur de recherche CNRS<br>CREATIS, UMR CNRS 5220, Inserm U 1044<div>Centre de lutte contre le cancer Léon Bérard<br>28 rue Laënnec, 69373 Lyon cedex 08<br>Tel : 04 78 78 51 51 / 06 74 72 05 42<br><a href="http://www.creatis.insa-lyon.fr/~dsarrut" target="_blank">http://www.creatis.insa-lyon.fr/~dsarrut</a><br>_________________________________</div><div> "2 + 2 = 5, for extremely large values of 2"<br>_________________________________</div></div></div> </font></span></div> </blockquote></div><br></div> </div></div></blockquote></div><br></div>