Sorry, I mean the first time that you ran it to create the csd files in the first place doug
On 04/25/2013 05:30 PM, Jeni Chen wrote:
The original command line:
mri_glmfit-sim \ --glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \ --cwpvalthresh .999 \ --no-sim GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS/csd/mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csd
To which you suggested
mri_glmfit-sim \ --glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \ --cwpvalthresh .999 \ --no-sim 1GroupAvg-Cor-thickness-Mod-VAS
And it did not work either. Thanks. jeni
Douglas N Greve Thu, 25 Apr 2013 14:08:32 -0700
what was your orignal mri_glmfit-sim command line?
On 04/25/2013 05:17 PM, Jeni Chen wrote:
Hi Doug,
Sorry; didn't realize it wasn't included.
So to state the original problem, I tried running mri_glmfit-sim with the following options (previous message included below):
mri_glmfit-sim \ --glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \ --cwpvalthresh .999 \ --no-sim GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS/csd/mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csd
I get an error message saying "cannot find any csd files". You suggested putting just the csd base (i.e. 1GroupAvg-Cor-thickness-Mod-VAS) for the --no-sim flag, which I did, but still gave the same error message. I've attached the error log if you want to have a look.
Thanks.
Jeni
Hi Jeni, what is your command line and terminal output? In general, just saying that something does not work is not enough information to track down the problem. Also, please include previous correspondence. We answer a lot of emails here, and the easier you make it on us, the faster we can solve your problem. thanks! doug
On 04/25/2013 04:41 PM, Jeni Chen wrote:
Thansk Doug. I tried it but still doesn't work. Any other thoughts?
jeni
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Hi Jeni, done pass that path to the csd, just the csd base. In your case I think it would be 1GroupAvg-Cor-thickness-Mod-VAS doug
On 4/24/13 8:47 PM, Jeni Chen wrote:
Hello, I was trying to run mri_glmfit-sim at a lower cwpvalthresh so I specified the --no-sim option to avoid re-running the entire simulation again. I entered my DSC file but in the end I get the error message: "cannot find any csd files". Here is what I entered: mri_glmfit-sim \ --glmdir GLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS \ --cwpvalthresh .999 \ --no-simGLMFIT/LH_1GroupAvg_ModVAS_nuissanceAGE_DOSS/csd/mc-z.abs.3.j001-1GroupAvg-Cor-thickness-Mod-VAS.csdI copied and pasted the csd file from its own folder to the top directory, but it gave the same error. I've attached the error log in case you want to have a look.
Thanks for your help! Jeni
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