Subject Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c

Current Stamp: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c

INFO: SUBJECTS_DIR is /autofs/cluster/atassigp/ALSspeech/FS/Subjects

Actual FREESURFER_HOME /autofs/cluster/freesurfer/centos6_x86_64/stable6_0_0

Linux epimetheus.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux

'/autofs/cluster/freesurfer/centos6_x86_64/stable6_0_0/bin/recon-all' -> '/autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/scripts/recon-all.local-copy'

/autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL

 mri_convert /autofs/cluster/atassigp/ALSspeech/BIO-ALS-701-005-BL/MPRAGE/005/78000-000005-000001.dcm /autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/mri/orig/001.mgz

mri_convert.bin /autofs/cluster/atassigp/ALSspeech/BIO-ALS-701-005-BL/MPRAGE/005/78000-000005-000001.dcm /autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/mri/orig/001.mgz

$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $

reading from /autofs/cluster/atassigp/ALSspeech/BIO-ALS-701-005-BL/MPRAGE/005/78000-000005-000001.dcm...

Getting Series No

INFO: Found 719 files in /autofs/cluster/atassigp/ALSspeech/BIO-ALS-701-005-BL/MPRAGE/005

INFO: Scanning for Series Number 5

Scanning Directory

INFO: found 704 files in series

INFO: loading series header info.

RunNo = 4

INFO: sorting.

sdfiSameSlicePos() eps = 0.000001

INFO: (256 256 176), nframes = 4, ismosaic=0

sdfi->UseSliceScaleFactor 0

datatype = 4, short=4, float=3

PE Dir ROW ROW

AutoAlign matrix detected

AutoAlign Matrix ---------------------

 0.98640   0.09502  -0.13409  -22.58164;

-0.07808   0.98890   0.12638   16.16202;

 0.14461  -0.11420   0.98288  -7.16005;

 0.00000   0.00000   0.00000   1.00000;

FileName /autofs/cluster/atassigp/ALSspeech/BIO-ALS-701-005-BL/MPRAGE/005/78000-000005-000001.dcm

Identification

NumarisVer        syngo MR B13 4VB13A

ScannerModel      TrioTim

PatientName       HUP_PBR03_ALS701-005_120604

Date and time

StudyDate         20120604

StudyTime         104553.448000

SeriesTime        110830.078000

AcqTime           110221.415000

Acquisition parameters

PulseSeq          tfl3d4_ns

Protocol          MEMPRAGE_4e_p3_1mm_iso

PhEncDir          ROW

EchoNo            1

FlipAngle         7

EchoTime          1.64

InversionTime     1200

RepetitionTime    2530

PhEncFOV          256

ReadoutFOV        256

Image information

RunNo             4

SeriesNo          5

ImageNo           1

NImageRows        256

NImageCols        256

NFrames           4

SliceArraylSize   1

IsMosaic          0

ImgPos            137.3315  96.1324 107.3163

VolRes              1.0000   1.0000   1.0000

VolDim            256      256      176

Vc                 -0.0950  -0.9889  -0.1142

Vr                 -0.1341   0.1264  -0.9829

Vs                 -0.9864   0.0781   0.1446

VolCenter          21.2017  -7.3992 -20.3829

TransferSyntaxUID 1.2.840.10008.1.2.1

UseSliceScaleFactor 0 (slice 0: 1)

IsDWI = 0

INFO: no Siemens slice order reversal detected (good!).

TR=2530.00, TE=1.64, TI=1200.00, flip angle=7.00

i_ras = (-0.095018, -0.988904, -0.114196)

j_ras = (-0.134094, 0.126384, -0.982876)

k_ras = (-0.986403, 0.078078, 0.144615)

writing to /autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/mri/orig/001.mgz...

#--------------------------------------------

#@# MotionCor Mon Sep 14 14:11:28 EDT 2020

Found 1 runs

/autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/mri/orig/001.mgz

Checking for (invalid) multi-frame inputs...

ERROR: input(s) cannot have multiple frames!

/autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/mri/orig/001.mgz has 4 frames

If this is a multi-frame MEMPRAGE image,

use mri_concat --rms to combine echo frames.

Linux epimetheus.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s BIO-ALS-701-005-BL exited with ERRORS at Mon Sep 14 14:11:29 EDT 2020

For more details, see the log file /autofs/cluster/atassigp/ALSspeech/FS/Subjects/BIO-ALS-701-005-BL/scripts/recon-all.log

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting