fix: Greyplots in fdir, remove moving, better setup.

smoia · Jan 23, 2023 · 3b197c2 · 3b197c2
1 parent 3c2ff2c
commit 3b197c2
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Showing 2 changed files with 3 additions and 18 deletions.
diff --git a/00.pipelines/func_preproc.sh b/00.pipelines/func_preproc.sh
@@ -164,14 +164,6 @@ do
 	${scriptdir}/12.func_grayplot.sh -func_in ${bold} -fdir ${fdir} -anat_in ${anat} \
 									 -mref ${sbref} -aseg ${aseg} -polort 4 -tmp ${tmp}
 
-	bold_in=${bold%_*}
-	echo "mv ${bold_in}_gp_PVO.png ${fdir}/$( basename ${bold_in} )_raw_gp_PVO.png"
-	mv ${bold_in}_gp_PVO.png ${fdir}/$( basename ${bold_in} )_raw_gp_PVO.png
-	echo "mv ${bold_in}_gp_IJK.png ${fdir}/$( basename ${bold_in} )_raw_gp_IJK.png"
-	mv ${bold_in}_gp_IJK.png ${fdir}/$( basename ${bold_in} )_raw_gp_IJK.png
-	echo "mv ${bold_in}_gp_peel.png ${fdir}/$( basename ${bold_in} )_raw_gp_peel.png"
-	mv ${bold_in}_gp_peel.png ${fdir}/$( basename ${bold_in} )_raw_gp_peel.png
-
 done
 
 echo "************************************"
@@ -255,13 +247,6 @@ do
 	${scriptdir}/12.func_grayplot.sh -func_in ${boldsource} -fdir ${fdir} -anat_in ${anat} \
 									 -mref ${sbref} -aseg ${aseg} -polort 4 -tmp ${tmp}
 
-	echo "mv ${bold}_gp_PVO.png ${fdir}/00.${boldout}_native_preprocessed_gp_PVO.png"
-	mv ${bold}_gp_PVO.png ${fdir}/00.${boldout}_native_preprocessed_gp_PVO.png
-	echo "mv ${bold}_gp_IJK.png ${fdir}/00.${boldout}_native_preprocessed_gp_IJK.png"
-	mv ${bold}_gp_IJK.png ${fdir}/00.${boldout}_native_preprocessed_gp_IJK.png
-	echo "mv ${bold}_gp_peel.png ${fdir}/00.${boldout}_native_preprocessed_gp_peel.png"
-	mv ${bold}_gp_peel.png ${fdir}/00.${boldout}_native_preprocessed_gp_peel.png
-
 done
 
 [[ ${debug} == "yes" ]] && set +x

diff --git a/02.func_preproc/12.func_grayplot.sh b/02.func_preproc/12.func_grayplot.sh
@@ -128,13 +128,13 @@ tmpseg=${tmp}/$( basename ${aseg} )_seg2sbref
 #Plot some grayplots!
 
 3dGrayplot -input ${func_in}.nii.gz -mask ${tmpseg}.nii.gz \
-		   -prefix ${tmp}/${func}_gp_PVO.png -dimen 1800 1200 \
+		   -prefix ${func}_gp_PVO.png -dimen 1800 1200 \
 		   -polort ${polort} -pvorder -percent -range 3
 3dGrayplot -input ${func_in}.nii.gz -mask ${tmpseg}.nii.gz \
-		   -prefix ${tmp}/${func}_gp_IJK.png -dimen 1800 1200 \
+		   -prefix ${func}_gp_IJK.png -dimen 1800 1200 \
 		   -polort ${polort} -ijkorder -percent -range 3
 3dGrayplot -input ${func_in}.nii.gz -mask ${tmpseg}.nii.gz \
-		   -prefix ${tmp}/${func}_gp_peel.png -dimen 1800 1200 \
+		   -prefix ${func}_gp_peel.png -dimen 1800 1200 \
 		   -polort ${polort} -peelorder -percent -range 3
 
 cd ${cwd}