Dear FSL experts,
I am dealing with a problem. I am trying to run dual_regression again in my data for another IC. This data is "old"...and I am working with it with other path that the initial one. For this reason, I have gone to .filelist file in order to change the path to may subjects accordingly to the actual path I have now. Well, after doing this, I am trying to run dual_regression unsuccessfully. When I run dual_regression script, as usual, it only runs dual_regression for just one subject and only arrives at dr_stage2 level, without doing permutations....
Important information:
1. Error that appears in the shell:
mkdir: cannot create directory ‘/home/rosalia/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard/filtered_func_data’: File exists
2. I have activated dual_regression typing chmod a+x dual_regression (in the folder where it is the script)
3. I am trying to run dual_regression in the folder where it is the script, design.con...etc...for XX_IC...so the call is: ./dual_regression XX_IC.nii.gz 1 design.mat design.con `cat .filelist` (this command has always worked perfectly)
4. I attach the .filelist file in order you can see how are organized my subjects (n = 27)
5. The organization of my directory:
rosalia@rosalia-PORTEGE-Z930:~$ cd /home/rosalia/Desktop/MELODIC_ESPECTRO
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO$ ls
aag_c ale_c cso_c flp jch_c jjm_c joo jsb pbv_c ssg
acr cfr_c drh gjm jcm_c jmf jpm mmg rap
adj_c cnt_c ecm_c ime_c jcr_c jmg_c jrm_c mvg_c scl_c
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO$ cd /home/rosalia/Desktop/MELODIC_ESPECTRO/aag_c
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c$ ls
aag_c_..ica aag_c.nii.gz mask.nii.gz t1_brain.nii.gz
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c$ cd /home/rosalia/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica$ ls
absbrainthresh.txt mask.nii.gz reg_standard
design.fsf mc report.html
example_func.nii.gz mean_func.nii.gz report_log.html
filtered_func_data.nii.gz MNI152_T1_2mm_brain.nii.gz report_prestats.html
logs reg report_reg.html
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica$ cd /home/rosalia/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard/
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard$ ls
bg_image.nii.gz filtered_func_data.nii.gz reg stats
filtered_func_data mask.nii.gz standard.nii.gz
This is the exact organization for every subject....where reg_standard is a folder that contains three empty folders (reg, filtered_func_data, stats) and four images: bg_image, filtered_func_data, standard, mask.
When calling dual_regression...it only arrives at second stage with the first subject: aag_c and it appears the following:
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard$ cd /home/rosalia/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard/filtered_func_data/
rosalia@rosalia-PORTEGE-Z930:~/Desktop/MELODIC_ESPECTRO/aag_c/aag_c_..ica/reg_standard/filtered_func_data$ ls
design.con dr_stage2_subject00007.nii.gz
design.mat dr_stage2_subject00007_Z.nii.gz
dr_stage1_subject00000.txt dr_stage2_subject00008.nii.gz
dr_stage1_subject00001.txt dr_stage2_subject00008_Z.nii.gz
dr_stage1_subject00002.txt dr_stage2_subject00009.nii.gz
dr_stage1_subject00003.txt dr_stage2_subject00009_Z.nii.gz
dr_stage1_subject00004.txt dr_stage2_subject00010.nii.gz
dr_stage1_subject00005.txt dr_stage2_subject00010_Z.nii.gz
dr_stage1_subject00006.txt dr_stage2_subject00011.nii.gz
dr_stage1_subject00007.txt dr_stage2_subject00011_Z.nii.gz
dr_stage1_subject00008.txt dr_stage2_subject00012.nii.gz
dr_stage1_subject00009.txt dr_stage2_subject00012_Z.nii.gz
dr_stage1_subject00010.txt dr_stage2_subject00013.nii.gz
dr_stage1_subject00011.txt dr_stage2_subject00013_Z.nii.gz
dr_stage1_subject00012.txt dr_stage2_subject00014.nii.gz
dr_stage1_subject00013.txt dr_stage2_subject00014_Z.nii.gz
dr_stage1_subject00014.txt dr_stage2_subject00015.nii.gz
dr_stage1_subject00015.txt dr_stage2_subject00015_Z.nii.gz
dr_stage1_subject00016.txt dr_stage2_subject00016.nii.gz
dr_stage1_subject00017.txt dr_stage2_subject00016_Z.nii.gz
dr_stage1_subject00018.txt dr_stage2_subject00017.nii.gz
dr_stage1_subject00019.txt dr_stage2_subject00017_Z.nii.gz
dr_stage1_subject00020.txt dr_stage2_subject00018.nii.gz
dr_stage1_subject00021.txt dr_stage2_subject00018_Z.nii.gz
dr_stage1_subject00022.txt dr_stage2_subject00019.nii.gz
dr_stage1_subject00023.txt dr_stage2_subject00019_Z.nii.gz
dr_stage1_subject00024.txt dr_stage2_subject00020.nii.gz
dr_stage1_subject00025.txt dr_stage2_subject00020_Z.nii.gz
dr_stage1_subject00026.txt dr_stage2_subject00021.nii.gz
dr_stage2_ic0000.nii.gz dr_stage2_subject00021_Z.nii.gz
dr_stage2_subject00000.nii.gz dr_stage2_subject00022.nii.gz
dr_stage2_subject00000_Z.nii.gz dr_stage2_subject00022_Z.nii.gz
dr_stage2_subject00001.nii.gz dr_stage2_subject00023.nii.gz
dr_stage2_subject00001_Z.nii.gz dr_stage2_subject00023_Z.nii.gz
dr_stage2_subject00002.nii.gz dr_stage2_subject00024.nii.gz
dr_stage2_subject00002_Z.nii.gz dr_stage2_subject00024_Z.nii.gz
dr_stage2_subject00003.nii.gz dr_stage2_subject00025.nii.gz
dr_stage2_subject00003_Z.nii.gz dr_stage2_subject00025_Z.nii.gz
dr_stage2_subject00004.nii.gz dr_stage2_subject00026.nii.gz
dr_stage2_subject00004_Z.nii.gz dr_stage2_subject00026_Z.nii.gz
dr_stage2_subject00005.nii.gz maskALL.nii.gz
dr_stage2_subject00005_Z.nii.gz mask.nii.gz
dr_stage2_subject00006.nii.gz scripts+logs
dr_stage2_subject00006_Z.nii.gz
And stops...even with this subject does not arrive at dr_stage3.....
