Hi Anderson,
Thanks a lot for the explanation. I am not sure what you would call as "enough RAM" for such analysis.I use a a macOS with the following features:Processor: 4.2 GHz Intel Core i7Memory: 16 GB 2400 MHz DDR4
Not sure if this is sufficient enough to run this analysis. Does it make a big difference if we upgrade our RAM to 64 GB?
Thanks,Sara
From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Anderson M. Winkler [[log in to unmask]]
Sent: Monday, October 01, 2018 3:44 PM
To: [log in to unmask]
Subject: Re: [FSL] Dual regression taking so long!
Hi Sara,
I would leave at 1mm and would be patient. Often it takes many months or years to collect data, at a high cost (time and money). My opinion is that it isn't worth to throw resolution away just to save a handful of extra days of processing which, btw, is being done by a computer automatically...
Of course, this is a personal decision, but unless you don't have enough RAM (in which case running might be impossible without swap space, and even there, it would be way slower), it seems better to wait. Only make sure that the program is actually running, i.e., that you receive feedback in the screen (or in log files if that is the case), and that the process hasn't become a "zombie" (check with the command "htop" or "top").
All the best,
Anderson
Thanks Anderson!
I also noticed that I am using an image size of 1*1*1. I guess I have to make them smaller to make the process faster as well. Right?
Thanks,Sara
From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Anderson M. Winkler [[log in to unmask]]
Sent: Sunday, September 30, 2018 5:19 PM
To: [log in to unmask]
Subject: Re: [FSL] Dual regression taking so long!
Hi Sara,
Yes, it can be slow, particularly if the design includes regressors to accommodate repeated measures, many contrasts, spatial statistics, and if all ICs are tested.
All the best,
Anderson
Hi,
I am running dual regression on 52 scans from 26 subject to find an intervention effect on their functional connectivity. We have 51 components from group level ICA.I let the command run yesterday morning, it finished the first two stages and created all the file for those stages by 7 pm. However, it's been about 23 hours that it has created only two files from stage 3.
Here is the command that I am running:dual_regression groupmelodic.gica/melodic_IC.nii.gz 1 GroupICA.mat GroupICA.con 5000 /Users/sizadi/Desktop/Dual_Regression Post_006B_filtered_func_data_clean_standard.nii.gz Post_008B_filtered_func_data_clean_standard.nii.gz Post_012C_filtered_func_data_clean_standard.nii.gz Post_015C_filtered_func_data_clean_standard.nii.gz Post_027C_filtered_func_data_clean_standard.nii.gz Post_028B_filtered_func_data_clean_standard.nii.gz Post_032C_filtered_func_data_clean_standard.nii.gz Post_033B_filtered_func_data_clean_standard.nii.gz Post_034C_filtered_func_data_clean_standard.nii.gz Post_035C_filtered_func_data_clean_standard.nii.gz Post_039B_filtered_func_data_clean_standard.nii.gz Post_040B_filtered_func_data_clean_standard.nii.gz Post_042C_filtered_func_data_clean_standard.nii.gz Post_045B_filtered_func_data_clean_standard.nii.gz Post_047B_filtered_func_data_clean_standard.nii.gz Post_048C_filtered_func_data_clean_standard.nii.gz Post_050C_filtered_func_data_clean_standard.nii.gz Post_054B_filtered_func_data_clean_standard.nii.gz Post_058C_filtered_func_data_clean_standard.nii.gz Post_064C_filtered_func_data_clean_standard.nii.gz Post_066B_filtered_func_data_clean_standard.nii.gz Post_069C_filtered_func_data_clean_standard.nii.gz Post_072B_filtered_func_data_clean_standard.nii.gz Post_073C_filtered_func_data_clean_standard.nii.gz Post_075B_filtered_func_data_clean_standard.nii.gz Post_078B_filtered_func_data_clean_standard.nii.gz Pre_006A_filtered_func_data_clean_standard.nii.gz Pre_008A_filtered_func_data_clean_standard.nii.gz Pre_012B_filtered_func_data_clean_standard.nii.gz Pre_015B_filtered_func_data_clean_standard.nii.gz Pre_027B_filtered_func_data_clean_standard.nii.gz Pre_028A_filtered_func_data_clean_standard.nii.gz Pre_032B_filtered_func_data_clean_standard.nii.gz Pre_033A_filtered_func_data_clean_standard.nii.gz Pre_034B_filtered_func_data_clean_standard.nii.gz Pre_035B_filtered_func_data_clean_standard.nii.gz Pre_039A_filtered_func_data_clean_standard.nii.gz Pre_040A_filtered_func_data_clean_standard.nii.gz Pre_042B_filtered_func_data_clean_standard.nii.gz Pre_045A_filtered_func_data_clean_standard.nii.gz Pre_047A_filtered_func_data_clean_standard.nii.gz Pre_048B_filtered_func_data_clean_standard.nii.gz Pre_050B_filtered_func_data_clean_standard.nii.gz Pre_054A_filtered_func_data_clean_standard.nii.gz Pre_058B_filtered_func_data_clean_standard.nii.gz Pre_064B_filtered_func_data_clean_standard.nii.gz Pre_066A_filtered_func_data_clean_standard.nii.gz Pre_069B_filtered_func_data_clean_standard.nii.gz Pre_072A_filtered_func_data_clean_standard.nii.gz Pre_073B_filtered_func_data_clean_standard.nii.gz Pre_075A_filtered_func_data_clean_standard.nii.gz Pre_078A_filtered_func_data_clean_standard.nii.gz
I was wondering if it's suppose to take that long. If so, it means that my analysis would be finish in more than a month.
Please let me know what i should do to expedite the process.
Thanks,Sara
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