Hello,
When FS5 came out, I copied over my FS4 reconstructions to my FS5 Subjects Directory, and then reran them using the FS5 recon-all stream. This updated their subject folders with the FS5 changes, but not in as many places as I would have thought. For example, on 6 test subjects, I created their FS5 folders from FS4 folders that I copied over and then ran the FS5 recon-all stream. I also created another copy of their FS5 folders from scratch. The average difference in their ICV values was -12,000 mm^3. Is it to be expected that FS5 reconstructions running on FS4 folders will not include all possible improvements? If I want to get an accurate an ICV measurement as possible, is it advisable to rerun all of my subjects in FS5, starting from scratch?
As always, thank you for your valuable assistance! Jeff Sadino
Hi Jeff
what command did you run to run them over?
cheers Bruce On Thu, 16 Jun 2011, Jeff Sadino wrote:
Hello,
When FS5 came out, I copied over my FS4 reconstructions to my FS5 Subjects Directory, and then reran them using the FS5 recon-all stream. This updated their subject folders with the FS5 changes, but not in as many places as I would have thought. For example, on 6 test subjects, I created their FS5 folders from FS4 folders that I copied over and then ran the FS5 recon-all stream. I also created another copy of their FS5 folders from scratch. The average difference in their ICV values was -12,000 mm^3. Is it to be expected that FS5 reconstructions running on FS4 folders will not include all possible improvements? If I want to get an accurate an ICV measurement as possible, is it advisable to rerun all of my subjects in FS5, starting from scratch?
As always, thank you for your valuable assistance! Jeff Sadino
Hello Bruce,
Thank you for your reply. I used recon-all -make all -s subject.
Thanks, Jeff
On Thu, Jun 16, 2011 at 3:11 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Jeff
what command did you run to run them over?
cheers Bruce
On Thu, 16 Jun 2011, Jeff Sadino wrote:
Hello,
When FS5 came out, I copied over my FS4 reconstructions to my FS5 Subjects Directory, and then reran them using the FS5 recon-all stream. This updated their subject folders with the FS5 changes, but not in as many places as I would have thought. For example, on 6 test subjects, I created their FS5 folders from FS4 folders that I copied over and then ran the FS5 recon-all stream. I also created another copy of their FS5 folders from scratch. The average difference in their ICV values was -12,000 mm^3. Is it to be expected that FS5 reconstructions running on FS4 folders will not include all possible improvements? If I want to get an accurate an ICV measurement as possible, is it advisable to rerun all of my subjects in FS5, starting from scratch?
As always, thank you for your valuable assistance! Jeff Sadino
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.
Hi Jeff,
in most cases that won't run anything. -make all will check the timestamps on the various volumes/surface and only rerun things in cases where something further back in the stream has a newer timestamp than something newer. You need to run it with -all
cheers Bruce
On Thu, 16 Jun 2011, Jeff Sadino wrote:
Hello Bruce,
Thank you for your reply. I used recon-all -make all -s subject.
Thanks, Jeff
On Thu, Jun 16, 2011 at 3:11 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Jeff
what command did you run to run them over?
cheers Bruce
On Thu, 16 Jun 2011, Jeff Sadino wrote:
Hello,
When FS5 came out, I copied over my FS4 reconstructions to my FS5 Subjects Directory, and then reran them using the FS5 recon-all stream. This updated their subject folders with the FS5 changes, but not in as many places as I would have thought. For example, on 6 test subjects, I created their FS5 folders from FS4 folders that I copied over and then ran the FS5 recon-all stream. I also created another copy of their FS5 folders from scratch. The average difference in their ICV values was -12,000 mm^3. Is it to be expected that FS5 reconstructions running on FS4 folders will not include all possible improvements? If I want to get an accurate an ICV measurement as possible, is it advisable to rerun all of my subjects in FS5, starting from scratch?
As always, thank you for your valuable assistance! Jeff Sadino
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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