Freesurfer team,

Hi. Our lab tried to unpack DICOM files using both freesurfer v4.5.0 and
v5.3.0.

The command line is:

unpacksdcmdir -src $DATA_DIR/$SUBJECT/DICOM/day1 -targ
$DATA_DIR/$SUBJECT/bold_decode -fsfast -seqcfg $LOG_DIR/$UNPACK

And I get the error message:

$Id: unpacksdcmdir,v 1.19.2.2 2008/03/11 19:56:38 nicks Exp $

/home/jbang/Projects/replay/log
-src /home/jbang/Projects/replay/epi//replay01/DICOM/day1 -targ
/home/jbang/Projects/replay/epi//replay01/bold_decode -fsfast -seqcfg
/home/jbang/Projects/replay/log//

Wed Feb  3 18:12:41 EST 2016

mri_convert -all-info
ProgramName: mri_convert  ProgramArguments: -all-info  ProgramVersion:
$Name: stable4 $  TimeStamp: 2016/02/03-23:12:41-GMT  BuildTimeStamp: Aug
11 2009 07:36:05  CVS: $Id: mri_convert.c,v 1.146.2.5 2009/04/08 18:40:23
nicks Exp $  User: jbang  Machine: cpu166.cabiatl.com  Platform: Linux
PlatformVersion: 2.6.32-358.6.2.el6.x86_64  CompilerName: GCC
CompilerVersion: 30400

cpu166.cabiatl.com
Linux cpu166.cabiatl.com 2.6.32-358.6.2.el6.x86_64 #1 SMP Tue May 14
15:48:21 EDT 2013 x86_64 x86_64 x86_64 GNU/Linux

Wed Feb  3 18:12:41 EST 2016
Log File is /home/jbang/Projects/replay/epi//replay01/bold_decode/unpack.log
INFO: Logfile is
/home/jbang/Projects/replay/epi//replay01/bold_decode/unpack.log
SkipMoCo 0
Scanning source directory ...
INFO: summary file is
/home/jbang/Projects/replay/epi//replay01/bold_decode/dicomdir.sumfile
INFO: status file is
/home/jbang/Projects/replay/epi//replay01/bold_decode/parse.status
Scanning directory Wed Feb  3 18:12:41 EST 2016
mri_parse_sdcmdir --sortbyrun --d
/home/jbang/Projects/replay/epi//replay01/DICOM/day1 --o
/home/jbang/Projects/replay/epi//replay01/bold_decode/dicomdir.sumfile
--status /home/jbang/Projects/replay/epi//replay01/bold_decode/parse.status
0   2   4   6   8  10  12  14  16  18  20  22  24  26  28   30  32  34  36
38  40  42   44  46  48  50  52  54  56  58  60  62  64   66   68  70  72
74  76  78  80   82  84  86  88  90  92  94  96  98 100
Done scanning Wed Feb  3 18:17:33 EST 2016
------------------------------------------
  2            localizer  ok  512 512   3   1 00002_loc02.dcm
  3 fMRI_physio_1_decoder  ok   74  74  33 150 00001_dec01.dcm
  5 fMRI_physio_2_decoder  ok   74  74  33 150 00001_dec02.dcm
  7 fMRI_physio_3_decoder  ok   74  74  33 150 00001_dec03.dcm
  9 fMRI_physio_4_decoder  ok   74  74  33 150 00001_dec04.dcm
 11 fMRI_physio_5_decoder  ok   74  74  33 150 00001_dec05.dcm
 13 fMRI_physio_6_decoder  ok   74  74  33 150 00001_dec06.dcm
 15 fMRI_physio_7_decoder  ok   74  74  33 150 00001_dec07.dcm
 17 fMRI_physio_8_decoder  ok   74  74  33 150 00001_dec08.dcm
 19 fMRI_physio_9_decoder  ok   74  74  33 150 00001_dec09.dcm
 21 fMRI_physio_10_decoder  ok   74  74  33 150 00001_dec10.dcm
 23 fMRI_physio_1_retinotopy  ok   74  74  33 120 00001_retino01.dcm
 25 fMRI_physio_2_retinotopy  ok   74  74  32 120 00001_retino02.dcm
 27 fMRI_physio_3_retinotopy  ok   74  74  32 120 00001_retino03.dcm
 29 fMRI_physio_4_retinotopy  ok   74  74  32 120 00001_retino04.dcm
 31 fMRI_physio_5_retinotopy  ok   74  74  32 120 00001_retino05.dcm
 35          T1_MEMPRAGE  ok  256 256 176   4 00001_T1_MEMPRAGE_35.dcm
 36          T1_MEMPRAGE  ok  256 256 176   1 00001_RMS.dcm
error reading "file4": illegal operation on a directory
    while executing
"gets $FileId line"
    (procedure "ReadSeqCfg" line 11)
    invoked from within
"ReadSeqCfg $seqcfgfile"
    invoked from within
"if { [info exists seqcfgfile] } {
  set SeqCfgList [ReadSeqCfg $seqcfgfile];
}"
    (file "/home/jbang/freesurfer//bin/unpacksdcmdir.tcl" line 1048)

This same error message appeared on both v4.5.0 and v5.3.0.

Do you have any clue to fix it?

Thank you for your help.

Best,
Ji Won
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