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hw2/step3_error_3107909_4294967294.log
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| [33mWARNING:[0m underlay of /usr/share/zoneinfo/Etc/UTC required more than 50 (57) bind mounts | |
| ERROR: ld.so: object 'libcr_run.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. | |
| ERROR: ld.so: object 'libcr_run.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. | |
| ERROR: ld.so: object 'libcr_run.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. | |
| ERROR: ld.so: object 'libcr_run.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. | |
| ERROR: ld.so: object 'libcr_run.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. | |
| 2020-02-24 16:34:04 - bidscoin - INFO | |
| 2020-02-24 16:34:04 - bidscoin - INFO -------------- START BIDScoiner 2.3: BIDS 1.2.1 ------------ | |
| 2020-02-24 16:34:04 - bidscoin - INFO >>> bidscoiner sourcefolder=/data/raw bidsfolder=/data/bids subjects=None force=True participants=False bidsmap=bidsmap.yaml subprefix=sub- sesprefix=ses- | |
| 2020-02-24 16:34:04 - bidscoin - INFO Creating dataset description file: /data/bids/dataset_description.json | |
| 2020-02-24 16:34:04 - bidscoin - INFO Creating README file: /data/bids/README | |
| 2020-02-24 16:34:04 - bidscoin - INFO Reading: /data/bids/code/bidscoin/bidsmap.yaml | |
| 2020-02-24 16:34:04 - bidscoin - INFO Writing ['extra_data/'] entries to /data/bids.bidsignore | |
| 2020-02-24 16:34:04 - bidscoin - INFO Coining subject (1/1): /data/raw/sub-IBRAIN003 | |
| 2020-02-24 16:34:04 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/001-AAHead_Scout | |
| 2020-02-24 16:34:04 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScout_dir-ROW_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/001-AAHead_Scout" | |
| 2020-02-24 16:34:08 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 128 DICOM file(s) | |
| Convert 128 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScout_dir-ROW_run-1_echo-1 (160x160x128x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScout_dir-ROW_run-1_echo-1.nii" | |
| Conversion required 3.880494 seconds (0.118163 for core code). | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScout_dir-ROW_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/001-AAHead_Scout" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/002-AAHead_Scout_MPR_sag | |
| 2020-02-24 16:34:08 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/002-AAHead_Scout_MPR_sag" | |
| 2020-02-24 16:34:08 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 5 DICOM file(s) | |
| slices not stacked: orientation varies (vNav or localizer?) [-0.0178669 0.945253 0.325848 0.0599034 0.326326 -0.943357] != [-0.00403708 0.994258 0.106932 0.0623806 0.106975 -0.992303] | |
| Convert 2 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001 (162x162x2x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00004 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00004.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002.nii" | |
| Conversion required 0.143772 seconds (0.010557 for core code). | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/002-AAHead_Scout_MPR_sag" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/003-AAHead_Scout_MPR_cor | |
| 2020-02-24 16:34:08 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/003-AAHead_Scout_MPR_cor" | |
| 2020-02-24 16:34:08 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 3 DICOM file(s) | |
| slices not stacked: orientation varies (vNav or localizer?) [0.998044 -0.00266448 0.0624543 0.0623806 0.106975 -0.992303] != [0.996946 -0.000148119 0.0780949 0.0779968 0.0520362 -0.995595] | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003.nii" | |
| Conversion required 0.057902 seconds (0.007172 for core code). | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/003-AAHead_Scout_MPR_cor" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/004-AAHead_Scout_MPR_tra | |
| 2020-02-24 16:34:08 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/004-AAHead_Scout_MPR_tra" | |
| 2020-02-24 16:34:08 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 3 DICOM file(s) | |
| slices not stacked: orientation varies (vNav or localizer?) [0.996112 0.00834584 0.0877026 -0.0176687 0.994202 0.106069] != [0.997106 -0.00620212 0.0757702 -0.0134301 0.966621 0.255857] | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00001.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00003.nii" | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002 (162x162x1x1) | |
| Warning: Check that 2D images are not mirrored. | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/extra_data/sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1_i00002.nii" | |
| Conversion required 0.067775 seconds (0.007493 for core code). | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/004-AAHead_Scout_MPR_tra" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/005-T1w | |
| 2020-02-24 16:34:08 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_run-1_T1w" -o "/data/bids/sub-IBRAIN003/anat" "/data/raw/sub-IBRAIN003/005-T1w" | |
| 2020-02-24 16:34:26 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 176 DICOM file(s) | |
| Convert 176 DICOM as /data/bids/sub-IBRAIN003/anat/sub-IBRAIN003_run-1_T1w (248x256x176x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/anat/sub-IBRAIN003_run-1_T1w.nii" | |
| Conversion required 17.915049 seconds (0.266267 for core code). | |
| 2020-02-24 16:34:26 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_run-1_T1w" -o "/data/bids/sub-IBRAIN003/anat" "/data/raw/sub-IBRAIN003/005-T1w" (errorcode 0) | |
| 2020-02-24 16:34:26 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/006-task-music_SBRef | |
| 2020-02-24 16:34:26 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/006-task-music_SBRef" | |
| 2020-02-24 16:34:26 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_sbref (84x84x60x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_sbref.nii" | |
| Conversion required 0.053942 seconds (0.006731 for core code). | |
| 2020-02-24 16:34:26 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/006-task-music_SBRef" (errorcode 0) | |
| 2020-02-24 16:34:26 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/007-task-music | |
| 2020-02-24 16:34:26 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/007-task-music" | |
| 2020-02-24 16:35:10 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 287 DICOM file(s) | |
| slices stacked despite varying acquisition numbers (if this is not desired recompile with 'mySegmentByAcq') | |
| Convert 287 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_bold (84x84x60x287) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_bold.nii" | |
| Conversion required 43.705142 seconds (0.646281 for core code). | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/007-task-music" (errorcode 0) | |
| 2020-02-24 16:35:10 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/008-task-music_PhysioLog | |
| 2020-02-24 16:35:10 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskmusicPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/008-task-music_PhysioLog" | |
| 2020-02-24 16:35:10 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| No valid DICOM images were found | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskmusicPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/008-task-music_PhysioLog" (errorcode 2) | |
| 2020-02-24 16:35:10 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/009-task-prosody_SBRef | |
| 2020-02-24 16:35:10 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/009-task-prosody_SBRef" | |
| 2020-02-24 16:35:10 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_sbref (84x84x60x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_sbref.nii" | |
| Conversion required 0.052374 seconds (0.005879 for core code). | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/009-task-prosody_SBRef" (errorcode 0) | |
| 2020-02-24 16:35:10 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/010-task-prosody | |
| 2020-02-24 16:35:10 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/010-task-prosody" | |
| 2020-02-24 16:35:11 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 13 DICOM file(s) | |
| slices stacked despite varying acquisition numbers (if this is not desired recompile with 'mySegmentByAcq') | |
| Convert 13 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_bold (84x84x60x13) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_bold.nii" | |
| Conversion required 1.101469 seconds (0.030411 for core code). | |
| 2020-02-24 16:35:11 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/010-task-prosody" (errorcode 0) | |
| 2020-02-24 16:35:11 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/011-task-prosody_PhysioLog | |
| 2020-02-24 16:35:11 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/011-task-prosody_PhysioLog" | |
| 2020-02-24 16:35:11 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| No valid DICOM images were found | |
| 2020-02-24 16:35:11 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/011-task-prosody_PhysioLog" (errorcode 2) | |
| 2020-02-24 16:35:12 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/012-task-prosody_SBRef | |
| 2020-02-24 16:35:12 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/012-task-prosody_SBRef" | |
| 2020-02-24 16:35:12 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| Convert 1 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_sbref (84x84x60x1) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_sbref.nii" | |
| Conversion required 0.053642 seconds (0.006211 for core code). | |
| 2020-02-24 16:35:12 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/012-task-prosody_SBRef" (errorcode 0) | |
| 2020-02-24 16:35:12 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/013-task-prosody | |
| 2020-02-24 16:35:12 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/013-task-prosody" | |
| 2020-02-24 16:36:06 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 336 DICOM file(s) | |
| slices stacked despite varying acquisition numbers (if this is not desired recompile with 'mySegmentByAcq') | |
| Convert 336 DICOM as /data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_bold (84x84x60x336) | |
| compress: "/usr/bin/pigz" -n -f -6 "/data/bids/sub-IBRAIN003/func/sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_bold.nii" | |
| Conversion required 54.287758 seconds (0.751517 for core code). | |
| 2020-02-24 16:36:06 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/013-task-prosody" (errorcode 0) | |
| 2020-02-24 16:36:06 - bidscoin - INFO Processing folder: /data/raw/sub-IBRAIN003/014-task-prosody_PhysioLog | |
| 2020-02-24 16:36:06 - bidscoin - INFO Running: /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/014-task-prosody_PhysioLog" | |
| 2020-02-24 16:36:06 - bidscoin - INFO Output: | |
| Chris Rorden's dcm2niiX version v1.0.20181125 (JP2:OpenJPEG) (JP-LS:CharLS) GCC5.5.0 (64-bit Linux) | |
| Found 1 DICOM file(s) | |
| No valid DICOM images were found | |
| 2020-02-24 16:36:06 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/014-task-prosody_PhysioLog" (errorcode 2) | |
| 2020-02-24 16:36:06 - bidscoin - INFO Writing acquisition time data to: /data/bids/sub-IBRAIN003/sub-IBRAIN003_scans.tsv | |
| 2020-02-24 16:36:06 - bidscoin - INFO Writing subject data to: /data/bids/participants.tsv | |
| 2020-02-24 16:36:06 - bidscoin - INFO Writing subject data dictionary to: /data/bids/participants.json | |
| 2020-02-24 16:36:06 - bidscoin - INFO -------------- FINISHED! ------------ | |
| 2020-02-24 16:36:06 - bidscoin - INFO | |
| 2020-02-24 16:36:06 - bidscoin - INFO The following BIDScoin errors and warnings were reported: | |
| >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScout_dir-ROW_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/001-AAHead_Scout" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRsag_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/002-AAHead_Scout_MPR_sag" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRcor_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/003-AAHead_Scout_MPR_cor" (errorcode 0) | |
| 2020-02-24 16:34:08 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-AAHeadScoutMPRtra_dir-InPlanePhaseEncodingDirection_run-1_echo-1" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/004-AAHead_Scout_MPR_tra" (errorcode 0) | |
| 2020-02-24 16:34:26 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_run-1_T1w" -o "/data/bids/sub-IBRAIN003/anat" "/data/raw/sub-IBRAIN003/005-T1w" (errorcode 0) | |
| 2020-02-24 16:34:26 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/006-task-music_SBRef" (errorcode 0) | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskmusic_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/007-task-music" (errorcode 0) | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskmusicPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/008-task-music_PhysioLog" (errorcode 2) | |
| 2020-02-24 16:35:10 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/009-task-prosody_SBRef" (errorcode 0) | |
| 2020-02-24 16:35:11 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-1_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/010-task-prosody" (errorcode 0) | |
| 2020-02-24 16:35:11 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/011-task-prosody_PhysioLog" (errorcode 2) | |
| 2020-02-24 16:35:12 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_sbref" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/012-task-prosody_SBRef" (errorcode 0) | |
| 2020-02-24 16:36:06 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_task-taskprosody_acq-epfid2d184_dir-COL_run-2_echo-1_bold" -o "/data/bids/sub-IBRAIN003/func" "/data/raw/sub-IBRAIN003/013-task-prosody" (errorcode 0) | |
| 2020-02-24 16:36:06 - bidscoin - ERROR Failed to run /usr/local/bin/dcm2niix -b y -z y -i n -f "sub-IBRAIN003_acq-taskprosodyPhysioLog_dir-InPlanePhaseEncodingDirection_run-1_echo-EchoNumbers" -o "/data/bids/sub-IBRAIN003/extra_data" "/data/raw/sub-IBRAIN003/014-task-prosody_PhysioLog" (errorcode 2) | |
| <<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<< | |
| 2020-02-24 16:36:06 - bidscoin - INFO For the complete log see: /data/bids/code/bidscoin/bidscoiner.log | |
| 2020-02-24 16:36:06 - bidscoin - INFO NB: logfiles may contain identifiable information, e.g. from pathnames |