External Email - Use Caution
Good Afternoon!
I was working with my IT department to install the development version of FreeSurfer on our server so that I could use WMH-SynthSeghttps://secure-web.cisco.com/13uSpbM7Qfplsr0IlNG1yQzvDu3TL4ODjz8qdEUly_QzsKyw_zUhSVYyk0xsWvI1lfi53hByeiVUZGcC2q5d_ptytL2xcaEe2dRDFLhZXMftJLKq27kNkFMcP_vRvsYfqE3RIclxc50dC42YX17gF01Z8cj3ejPDC2thsR1tNxgX6LPglKbVKrczgPiygAVNHnohmjtWWym--zjy8r_y5JkNc1SmiDwPTLo0nQn_QNgSTuyfyjBsdcELHKeVuy9ZrGjx9lNtAinJWd03jGP3zCASeP9MkXf5pHgO2bX1cKGD3p_B-IBDE1wtn7pK5jasU_sraLVaH2AVspvGQ2_98aQeRT76pHyispJhGjTpf000/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FSynthSeg. IT installed development version 2024-04-14. After loading the freesurfer development module, and running source $FREESURFER_HOME/SetUpFreeSurfer.sh, I still get the following error:
[cid:image001.png@01DA8780.B1BD2E60]
Is there any way to fix this or figure out what is wrong?
Thank you! Corinne
Dear Corinne, A bunch of libraries are currently broken in the development version; apologies for this. A way around this is installing FreeSurfer 7.4.1, and using its fspython to run the WMh-SynthSeg code. Apologies for the inconvenience! Cheers, /E PS: I just updated the wiki to include this information.
-- Juan Eugenio Iglesias http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Corinne Alison Donnay corinne.donnay@linacre.ox.ac.uk Date: Friday, April 5, 2024 at 12:43 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] WMH-SynthSeg - Torch module not found
External Email - Use Caution Good Afternoon!
I was working with my IT department to install the development version of FreeSurfer on our server so that I could use WMH-SynthSeghttps://secure-web.cisco.com/13uSpbM7Qfplsr0IlNG1yQzvDu3TL4ODjz8qdEUly_QzsKyw_zUhSVYyk0xsWvI1lfi53hByeiVUZGcC2q5d_ptytL2xcaEe2dRDFLhZXMftJLKq27kNkFMcP_vRvsYfqE3RIclxc50dC42YX17gF01Z8cj3ejPDC2thsR1tNxgX6LPglKbVKrczgPiygAVNHnohmjtWWym--zjy8r_y5JkNc1SmiDwPTLo0nQn_QNgSTuyfyjBsdcELHKeVuy9ZrGjx9lNtAinJWd03jGP3zCASeP9MkXf5pHgO2bX1cKGD3p_B-IBDE1wtn7pK5jasU_sraLVaH2AVspvGQ2_98aQeRT76pHyispJhGjTpf000/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FSynthSeg. IT installed development version 2024-04-14. After loading the freesurfer development module, and running source $FREESURFER_HOME/SetUpFreeSurfer.sh, I still get the following error:
[cid:image001.png@01DA8780.B1BD2E60]
Is there any way to fix this or figure out what is wrong?
Thank you! Corinne
Wrong answer: apparently this has been fixed in the latest dev; maybe try that? Cheers, /Eugenio
-- Juan Eugenio Iglesias http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Iglesias Gonzalez, Juan E. JIGLESIASGONZALEZ@mgh.harvard.edu Date: Friday, April 5, 2024 at 3:58 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] WMH-SynthSeg - Torch module not found Dear Corinne, A bunch of libraries are currently broken in the development version; apologies for this. A way around this is installing FreeSurfer 7.4.1, and using its fspython to run the WMh-SynthSeg code. Apologies for the inconvenience! Cheers, /E PS: I just updated the wiki to include this information.
-- Juan Eugenio Iglesias http://www.jeiglesias.com
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Corinne Alison Donnay corinne.donnay@linacre.ox.ac.uk Date: Friday, April 5, 2024 at 12:43 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] WMH-SynthSeg - Torch module not found
External Email - Use Caution Good Afternoon!
I was working with my IT department to install the development version of FreeSurfer on our server so that I could use WMH-SynthSeghttps://secure-web.cisco.com/13uSpbM7Qfplsr0IlNG1yQzvDu3TL4ODjz8qdEUly_QzsKyw_zUhSVYyk0xsWvI1lfi53hByeiVUZGcC2q5d_ptytL2xcaEe2dRDFLhZXMftJLKq27kNkFMcP_vRvsYfqE3RIclxc50dC42YX17gF01Z8cj3ejPDC2thsR1tNxgX6LPglKbVKrczgPiygAVNHnohmjtWWym--zjy8r_y5JkNc1SmiDwPTLo0nQn_QNgSTuyfyjBsdcELHKeVuy9ZrGjx9lNtAinJWd03jGP3zCASeP9MkXf5pHgO2bX1cKGD3p_B-IBDE1wtn7pK5jasU_sraLVaH2AVspvGQ2_98aQeRT76pHyispJhGjTpf000/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FSynthSeg. IT installed development version 2024-04-14. After loading the freesurfer development module, and running source $FREESURFER_HOME/SetUpFreeSurfer.sh, I still get the following error:
[cid:image001.png@01DA8780.B1BD2E60]
Is there any way to fix this or figure out what is wrong?
Thank you! Corinne
freesurfer@nmr.mgh.harvard.edu
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Corinne Alison Donnay -
Iglesias Gonzalez, Juan E.