Re: [Freesurfer] mri_surf2surf command error

2021-03-16 Thread Douglas N. Greve 

Can you give the command line that is failing and the terminal output?


On 3/4/2021 12:53 AM, 1248742467 wrote:


?0?2?0?2?0?2?0?2?0?2?0?2?0?2?0?2External Email - Use Caution

Hello, Fs
I want to template some subject to fsaverage5, but now I meet some 
problems

FreeSurfer version: Fs6
Download the files: HLN-12-2.tar.gz OASIS-TRT-20-1.tar.gz 
?0?2Twins-2-1.tar.gz?0?2?0?2Twins-2-2.tar.gz(https://osf.io/wzqmg/)


Register the following 5 files into the fsaverage5 space:
lh.area?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 lh.jacobian_white?0?2 ?0?2 ?0?2lh.volume ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 
?0?2lh.labels.DKT31.manual.annot


The error message:
HLN-12-2: lh.area?0?2 ?0?2 lh.volume?0?2 ?0?2 lh.jacobian_white
?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2can't match the surface 
??148208,146833??
OASIS-20-1?? lh.labels.DKT31.manual.annot
?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2here is a problem with the registration of the 
.annot file?? can't allocate memory

Twins-2-1/Twins-2-2:
?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2 ?0?2File missing: 
lh.area lh.volume lh.jacobian_white

template to fsaverage5 space command: mri_surf2surf
example 1:?0?2 ?0?2mri_surf2surf --srcsubject Afterthought-1 --sval 
thickness --src_type curv --trgsubject fsaverage5 --trgsurfval 
/home/tj/application/freesurfer/subjects/Afterthought-1-target/thickness 
--trg_type curv --hemi rh


example?0?2 2:?0?2 mri_surf2surf --srcsubject OASIS-TRT-20-1 --trgsubject 
fsaverage5 --hemi lh --sval-annot 
/home/tj/application/freesurfer/subjects/OASIS-TRT-20-1/label/lh.labels.DKT31.manual.annot 
--tval 
/home/tj/application/freesurfer/subjects/min_template/OASIS-TRT-20-1-target/lh.labels.DKT31.manual.annot


Do you know how to solve these problem? Could you please download the 
four folder, and template the four file to fsaverage5 space? Then send 
the peocessed file to me.?0?2 Thank you very much!



*??QQ??*

Description.txt 
(1.2K, 
2021??03??04?? 10:52 )
 
??http://mail.qq.com/cgi-bin/ftnExs_download?t=exs_ftn_download&k=2265303515cb9e9925295e7f103053495506090c075250034b550006011d550407531d545452024b5e57030600555453005d0857363f6122031653475f40150f090b1e414e44615b&code=fe0560af


HLN-12-2.tar.gz

[Freesurfer] mri_surf2surf command error

2021-03-03 Thread 1248742467 
External Email - Use Caution

Hello, Fs
I want to template some subject to fsaverage5, but now I meet some problems
FreeSurfer version: Fs6
Download the files: HLN-12-2.tar.gz    OASIS-TRT-20-1.tar.gz  
 Twins-2-1.tar.gz  Twins-2-2.tar.gz(https://secure-web.cisco.com/1yywjdkihIUyeuY7hFipb87XklaxLwbZLe2QL2---s_fK-nE83BFo2qLnTIxrpfr03QPbYjK5EiK9CV2zp5j8blIQiOrwLboJ9E6xSpJT3iwQoB4PQpqDg35Zmi8MY0XZCoayc2olZ7KIILnAncgm-NiKtOJYZ6kmhAAJlH2OjNQnuzQuF4FLLUiRhZx7-3PFqoNLT6YIA5nDRnnNcs9JSEc9yJ4TBP4UZziy8kENeniwtUqKhxIKe7yXkWaUzSJNkAAR3ryEXlnSj0aNK-8QiA/https%3A%2F%2Fosf.io%2Fwzqmg%2F)


Register the following 5 files into the fsaverage5 space:
lh.area            lh.jacobian_white    
 lh.volume                  
   lh.labels.DKT31.manual.annot


The error message:
HLN-12-2: lh.area    lh.volume    lh.jacobian_white
                 can't match the 
surface ??148208,146833??
OASIS-20-1?? lh.labels.DKT31.manual.annot
                      
 here is a problem with the registration of the .annot file?? can't 
allocate memory
Twins-2-1/Twins-2-2: 
                      
 File missing: lh.area lh.volume lh.jacobian_white


template to fsaverage5 space command: mri_surf2surf
example 1:   mri_surf2surf --srcsubject Afterthought-1 --sval 
thickness --src_type curv --trgsubject fsaverage5 --trgsurfval 
/home/tj/application/freesurfer/subjects/Afterthought-1-target/thickness 
--trg_type curv --hemi rh


example  2:  mri_surf2surf --srcsubject OASIS-TRT-20-1 --trgsubject 
fsaverage5 --hemi lh --sval-annot 
/home/tj/application/freesurfer/subjects/OASIS-TRT-20-1/label/lh.labels.DKT31.manual.annot 
 --tval  
/home/tj/application/freesurfer/subjects/min_template/OASIS-TRT-20-1-target/lh.labels.DKT31.manual.annot



Do you know how to solve these problem? Could you please download the four 
folder, and template the four file to fsaverage5 space? Then send the peocessed 
file to me.  Thank you very much!



??QQ??

Description.txt (1.2K, 2021??03??04?? 10:52 
)??http://secure-web.cisco.com/1jd2liRa00yonNeFyG9AZ2bcluJP4-ULFyYofPB6dk8P4W-b6OLQQekGtbJXJPxTd2zPkefh2rE317c416UX8ieZx0pv84HR-hrJVl6HPUYhClxDig8qjhAn34zmAC8SO-CtwAloSmB1Qgtslo4qcXD0Mm61dspQOjc9N8e4hEbSK_SCdsc5GKGkRqfu5tZhvqvA9i0SQf-zpPILcQ15_r89NcYIJEOu_CZ4CYrtRuQvF8QtDMJi5Wp18ljaIso0o_fFlWrbb4ddj4gDiLftGfQ/http%3A%2F%2Fmail.qq.com%2Fcgi-bin%2FftnExs_download%3Ft%3Dexs_ftn_download%26k%3D2265303515cb9e9925295e7f103053495506090c075250034b550006011d550407531d545452024b5e57030600555453005d0857363f6122031653475f40150f090b1e414e44615b%26code%3Dfe0560af




HLN-12-2.tar.gz (313.74M, 2021??04??03?? 10:45 
)??http://secure-web.cisco.com/1J-fWxcdcF6bvpmsz6UIpIJxIGomCAdLkeFooypdsfGsU1DMLpD1LnmGwGp_hIpTyhMAHjn2XXACOXovtPzUErGxPUfGHJDMIAWHvtCEbLrtwzObmlwyB0TjVZuQsT9bBYFmxf349yEFO5rNYN7twc20iORYAIyKbA5ol6qabfWoRl_HXT0AuUVzRv0TpAmwyKjmbOwY3jCUJXubRw4R0WGhZLuosRT2wFKtB5NLJZvgMRhu7SJl5ZdJ--lBPYdStYvNiKc2qt_bDEPpoXVKyCw/http%3A%2F%2Fmail.qq.com%2Fcgi-bin%2FftnExs_download%3Ft%3Dexs_ftn_download%26k%3D753531361e0e028972795f7c1534544a08500653045051571c0408020b19525601541c0e07050448500255570205075604500607333b662d7d7b1c070119544b45544318544e6658%26code%3D151634fe




OASIS-TRT-20-1.tar.gz (317.69M, 2021??04??03?? 10:53 
)??http://secure-web.cisco.com/11SlUOJyt6MBMrV6J67jeFNISMvisa-dACbQNXHClGgk9RocP8zYriyUYcu7hIREVDc4DJkXTe_JZ6W2zMSGvIJo9CNyU4dQpHtfD_S0MD_1JuNlp-hpPx_QGDF0mxL43Zwh-okhUK9spIGZ0OAs-q34846xktimBppwF8kqnbotnCeMiOjqWycVM8BPnoJETmehxFWhtFntI1MXQV1ea_1PihYj3l1TjfWshFemNwlDkg4JzAWfolr91WiTVpa4nJX_dgKOHB6zbaDsqBNh1iw/http%3A%2F%2Fmail.qq.com%2Fcgi-bin%2FftnExs_download%3Ft%3Dexs_ftn_download%26k%3D7e3165624dc612de777d0b281238041d020501550100020b19520706061502075103485a035c0e1f50535406040053040052342d367d75622c31196c64661903554f05164253461f02183405%26code%3D41eb4862




Twins-2-1.tar.gz (227.10M, 2021??04??03?? 11:02 
)??http://secure-web.cisco.com/1EXcLgILy53kxZ_CKjJSDkth4O91WhxEdozgc9j6QloXpB5eBD5XYeE_4LDSrPyRyPr51nyFSUrmNnUTxWQDRsJ0bIuoSTPgY0y5wPxh7EX_KqTucMf_-ABMy0k23k2ZWNmu3sGGDSgovjgPHhmHwtP-XBEqwOfZIEHpYF9xYXF4XtKXl1B4Q_s8Gq4wNAoqt0cpCKsv0XRD0cwF3A328bLELqDJ1OB6objZ7cBdZMgBi-Z38x6GDtqg3bJJTVVSTWwb9EF-o1rw8otmak3uzzA/http%3A%2F%2Fmail.qq.com%2Fcgi-bin%2FftnExs_download%3Ft%3Dexs_ftn_download%26k%3D72313730f458acc3747d597a4336501d53520005070e07561a060604571b560a54091a095c53041f05005501510604010f050705652662664058594348044f03194556424b5118320a%26code%3D7170e6b2




Twins-2-2.tar.gz (265.12M, 2021??04??03?? 11:07 
)??http://secure-web.cisco.com/1R9eFYoZnJyEzQ0wpWbZLeO41mITjC214u7P89KowtZU06Tcp0xueNncOGZANZlc6ZPhZTqpZSQd4Wq7v5tkZWxM7Xst3cf4RQn6_Z2gjeem9yRciGv94JWAlwb9hy7FJ6dvolq80BUQLl3v5NB7N4kUGN3Ob3iMg0QgijC463VFfkDy_RNpHe0kfyUO7u5zWsVlq09e3n43SPtmNoOLuj7LKdGcuKjiL8YDG-u6CM3IGoa4Pj1CjFTq2sFrm6rUR5517XDrcxjAczQzGuI0_7A/http%3A%2F%2Fmail.qq.com%2Fcgi-bin%2FftnExs_download%3Ft%3Dexs_ftn_download%26k%3D24366439ea625b8e227a0a731f62074e055406015f5456004c0e055b0d4f0159525549005f