Re: [Freesurfer] Mac OSX installations incomplete? What to do?
Thank you Zeke, that seems to work all fine! Best, Markus 2014-04-08 21:17 GMT+02:00 Z K zkauf...@nmr.mgh.harvard.edu: Markus, Thanks for pointing that out. I have added those files to the ftp link. -Zeke On 04/04/2014 04:16 PM, Markus Gschwind wrote: Thank you Zeke, What about these? /usr/local/freesurfer/bin/bet.fsl /usr/local/freesurfer/bin/flirt.fsl /usr/local/freesurfer/bin/slicetimer.fsl They are not there neither compared to the ubuntu install. Best, Markus 2014-04-04 19:05 GMT+02:00 Z K zkauf...@nmr.mgh.harvard.edu mailto:zkauf...@nmr.mgh.harvard.edu: There are 3 missing fsl files from the OSX snow leopard installation. They can be downloaded from here: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/zkaufman/fsl Copy them into your $FREESURFER_HOME/bin directory. -Zeke On 04/04/2014 12:32 PM, Markus Gschwind wrote: Dear Freesurfers, As discovered here, http://www.mail-archive.com/freesurfer@nmr.mgh.harvard. edu/msg35160.html it seams that some Mac OSX installations suffered from incomplete files. I just veryfied that I had downloaded the complete image and wget says yes: Logging in as anonymous ... Logged in! == SYST ... done.== PWD ... done. == TYPE I ... done. == CWD (1) /pub/dist/freesurfer/5.3.0 ... done. == SIZE freesurfer-Darwin-snowleopard- i686-stable-pub-v5.3.0.dmg ... 3394499614 File has already been retrieved. 2014-04-04 18:24:26 (0.00 B/s) - 'freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg' saved [3394499614] So this is what I installed recently and it seems that there are some files missing (at least some of the fsl-functions in bin). Doug, you said that you suspected that it could be a problem of the installer script? What should we do (also Eiran) in order to complete the installation? Thanks for you work! Markus ___ 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 ___ Freesurfer mailing list 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.
Re: [Freesurfer] Mac OSX installations incomplete? What to do?
Markus, Thanks for pointing that out. I have added those files to the ftp link. -Zeke On 04/04/2014 04:16 PM, Markus Gschwind wrote: Thank you Zeke, What about these? /usr/local/freesurfer/bin/bet.fsl /usr/local/freesurfer/bin/flirt.fsl /usr/local/freesurfer/bin/slicetimer.fsl They are not there neither compared to the ubuntu install. Best, Markus 2014-04-04 19:05 GMT+02:00 Z K zkauf...@nmr.mgh.harvard.edu mailto:zkauf...@nmr.mgh.harvard.edu: There are 3 missing fsl files from the OSX snow leopard installation. They can be downloaded from here: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/zkaufman/fsl Copy them into your $FREESURFER_HOME/bin directory. -Zeke On 04/04/2014 12:32 PM, Markus Gschwind wrote: Dear Freesurfers, As discovered here, http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg35160.html it seams that some Mac OSX installations suffered from incomplete files. I just veryfied that I had downloaded the complete image and wget says yes: Logging in as anonymous ... Logged in! == SYST ... done.== PWD ... done. == TYPE I ... done. == CWD (1) /pub/dist/freesurfer/5.3.0 ... done. == SIZE freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg ... 3394499614 File has already been retrieved. 2014-04-04 18:24:26 (0.00 B/s) - ‘freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg’ saved [3394499614] So this is what I installed recently and it seems that there are some files missing (at least some of the fsl-functions in bin). Doug, you said that you suspected that it could be a problem of the installer script? What should we do (also Eiran) in order to complete the installation? Thanks for you work! Markus ___ 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 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] Mac OSX installations incomplete? What to do?
Dear Freesurfers, As discovered here, http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg35160.html it seams that some Mac OSX installations suffered from incomplete files. I just veryfied that I had downloaded the complete image and wget says yes: Logging in as anonymous ... Logged in! == SYST ... done.== PWD ... done. == TYPE I ... done. == CWD (1) /pub/dist/freesurfer/5.3.0 ... done. == SIZE freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg ... 3394499614 File has already been retrieved. 2014-04-04 18:24:26 (0.00 B/s) - 'freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg' saved [3394499614] So this is what I installed recently and it seems that there are some files missing (at least some of the fsl-functions in bin). Doug, you said that you suspected that it could be a problem of the installer script? What should we do (also Eiran) in order to complete the installation? Thanks for you work! Markus ___ Freesurfer mailing list 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.
Re: [Freesurfer] Mac OSX installations incomplete? What to do?
There are 3 missing fsl files from the OSX snow leopard installation. They can be downloaded from here: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/zkaufman/fsl Copy them into your $FREESURFER_HOME/bin directory. -Zeke On 04/04/2014 12:32 PM, Markus Gschwind wrote: Dear Freesurfers, As discovered here, http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg35160.html it seams that some Mac OSX installations suffered from incomplete files. I just veryfied that I had downloaded the complete image and wget says yes: Logging in as anonymous ... Logged in! == SYST ... done.== PWD ... done. == TYPE I ... done. == CWD (1) /pub/dist/freesurfer/5.3.0 ... done. == SIZE freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg ... 3394499614 File has already been retrieved. 2014-04-04 18:24:26 (0.00 B/s) - ‘freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg’ saved [3394499614] So this is what I installed recently and it seems that there are some files missing (at least some of the fsl-functions in bin). Doug, you said that you suspected that it could be a problem of the installer script? What should we do (also Eiran) in order to complete the installation? Thanks for you work! Markus ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list 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.
Re: [Freesurfer] Mac OSX installations incomplete? What to do?
Thank you Zeke, What about these? /usr/local/freesurfer/bin/bet.fsl /usr/local/freesurfer/bin/flirt.fsl /usr/local/freesurfer/bin/slicetimer.fsl They are not there neither compared to the ubuntu install. Best, Markus 2014-04-04 19:05 GMT+02:00 Z K zkauf...@nmr.mgh.harvard.edu: There are 3 missing fsl files from the OSX snow leopard installation. They can be downloaded from here: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/zkaufman/fsl Copy them into your $FREESURFER_HOME/bin directory. -Zeke On 04/04/2014 12:32 PM, Markus Gschwind wrote: Dear Freesurfers, As discovered here, http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg35160.html it seams that some Mac OSX installations suffered from incomplete files. I just veryfied that I had downloaded the complete image and wget says yes: Logging in as anonymous ... Logged in! == SYST ... done.== PWD ... done. == TYPE I ... done. == CWD (1) /pub/dist/freesurfer/5.3.0 ... done. == SIZE freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg ... 3394499614 File has already been retrieved. 2014-04-04 18:24:26 (0.00 B/s) - 'freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0.dmg' saved [3394499614] So this is what I installed recently and it seems that there are some files missing (at least some of the fsl-functions in bin). Doug, you said that you suspected that it could be a problem of the installer script? What should we do (also Eiran) in order to complete the installation? Thanks for you work! Markus ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list 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 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.
