attempt three

alo18003 · Feb 28, 2020 · 64607ca · 64607ca
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diff --git a/bids/code/coeff.grad b/bids/code/coeff.grad
@@ -0,0 +1,68 @@
+#*[ Script ****************************************************************\
+#
+# Name        : coeff_AS82.grad
+#
+# Date        : 2013-06-26
+#
+# Author      : A. vom Endt
+#
+# Language    : 
+#
+# Description : Defines Legendre coefficients in spherical harmonics for
+#               Gradient Coil AS82 Redesign calculated with MFB up to 29. order
+#
+#****************************************************************************/
+
+#*] END: */
+ vision/AS82, Gradientsystem AS82 , Gx,y,z = 80/80 mT/m
+ win_low = 0, win_high = 0, win_algo = 0, win_dummy = 2;
+ 0.25 m = R0, lnorm = 4? A(1,0) = B(1,1) = A(1,1) = 0;
+ 0 = CoSyMode, 
+ Expansion in   Spherical   Harmonics
+ ================================
+
+ NO.    TYPE                  SPECTRUM                                AXIS
+
+  1 A( 3, 0)           -0.05625983                  z
+  2 A( 5, 0)           -0.11012906                  z
+  3 A( 7, 0)            0.04633207                  z
+  4 A( 9, 0)           -0.00657009                  z
+  5 A(11, 0)           -0.00428858                  z
+  6 A(13, 0)            0.00447544                  z
+  7 A(15, 0)           -0.00265928                  z
+  8 A(17, 0)            0.00127730                  z
+  9 A(19, 0)           -0.00053032                  z
+101 A( 3, 1)           -0.02516312                  x
+102 A( 3, 3)           -0.00348829                  x
+103 A( 5, 1)           -0.09458096                  x
+104 A( 5, 3)           -0.00327898                  x
+105 A( 5, 5)           -0.00273898                  x
+106 A( 7, 1)            0.01439247                  x
+107 A( 7, 3)            0.00735310                  x
+108 A( 7, 5)           -0.00159909                  x
+109 A( 7, 7)            0.00309240                  x
+110 A( 9, 1)            0.00856897                  x
+111 A( 9, 3)           -0.00482318                  x
+112 A(11, 1)           -0.00636167                  x
+113 A(11, 3)            0.00242824                  x
+114 A(13, 1)            0.00264039                  x
+115 A(13, 3)           -0.00117845                  x
+116 A(15, 1)           -0.00086287                  x
+117 A(15, 3)            0.00054252                  x
+201 B( 3, 1)           -0.03071487                  y
+202 B( 3, 3)            0.00742331                  y
+203 B( 5, 1)           -0.08810678                  y
+204 B( 5, 3)           -0.00469591                  y
+205 B( 5, 5)           -0.00106337                  y
+206 B( 7, 1)            0.01993985                  y
+207 B( 7, 3)           -0.00394800                  y
+208 B( 7, 5)           -0.00163401                  y
+209 B( 7, 7)            0.00150686                  y
+210 B( 9, 1)            0.00290452                  y
+211 B( 9, 3)            0.00336745                  y
+212 B( 9, 5)            0.00072598                  y
+213 B(11, 1)           -0.00376990                  y
+214 B(11, 3)           -0.00151889                  y
+215 B(13, 1)            0.00189707                  y
+216 B(13, 3)            0.00063797                  y
+217 B(15, 1)           -0.00077234                  y
diff --git a/bids/code/license.txt b/bids/code/license.txt
@@ -0,0 +1,4 @@
+roeland.hancock@uconn.edu 
+31749 
+*Co23yvTw2aHw 
+FSjbZuQ36UppM 
diff --git a/error_3190102_4294967294.log b/error_3190102_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190102/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190128_4294967294.log b/error_3190128_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190128/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190132_4294967294.log b/error_3190132_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190132/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190138_4294967294.log b/error_3190138_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190138/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190140_4294967294.log b/error_3190140_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190140/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190141_4294967294.log b/error_3190141_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190141/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190142_4294967294.log b/error_3190142_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190142/slurm_script: line 23: /data: Permission denied
diff --git a/error_3190144_4294967294.log b/error_3190144_4294967294.log
@@ -0,0 +1 @@
+/var/spool/slurmd/job3190144/slurm_script: line 24: /data: Permission denied
diff --git a/error_3190145_4294967294.log b/error_3190145_4294967294.log
diff --git a/output_3190138_4294967294.log b/output_3190138_4294967294.log
diff --git a/output_3190140_4294967294.log b/output_3190140_4294967294.log
diff --git a/output_3190141_4294967294.log b/output_3190141_4294967294.log
diff --git a/output_3190142_4294967294.log b/output_3190142_4294967294.log
diff --git a/output_3190144_4294967294.log b/output_3190144_4294967294.log
diff --git a/output_3190145_4294967294.log b/output_3190145_4294967294.log
diff --git a/sbatch_mriqc.sh b/sbatch_mriqc.sh
@@ -2,5 +2,27 @@
 
 # Add your SLURM options here
 
+#SBATCH --mail-type=ALL 			# Mail events (NONE, BEGIN, END, FAIL, ALL)
+#SBATCH --mail-user=aliyar.ozercan@uconn.edu	# Your email address
+#SBATCH --nodes=1					# OpenMP requires a single node
+#SBATCH --ntasks=1					# Run a single serial task
+#SBATCH --cpus-per-task=4
+#SBATCH --mem=8gb
+#SBATCH --time=04:00:00				# Time limit hh:mm:ss
+#SBATCH -e error_%A_%a.log			# Standard error
+#SBATCH -o output_%A_%a.log			# Standard output
+#SBATCH --job-name=mriqc			# Descriptive job name
+#SBATCH --partition=serial            # Use a serial partition 24 cores/7days
+
+
 # Add commands needed to run mriqc
 
+SUBJECT=$1
+
+module load singularity
+
+singularity run --cleanenv --bind /scratch/psyc5171/alo18003/bidscoiner/hw3/bids:/data --bind /scratch/psyc5171/alo18003/bidscoiner/hw3/output:/out \
+	/scratch/psyc5171/containers/mriqc_latest.sif \
+	/data /out participant \
+	--participant_label $SUBJECT \
+	--n_procs 4 --mem_gb 8 \