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maicondiogo
October 20, 2015 05:43PM
Dear,

I'm using Dimon to send images in real time to AFNI in another computer with this command and everything is working

I'm using this command:

Dimon -rt \
-infile_prefix $PATIENTDIR/i \
-host $RTFMRI_AFNI_HOST \
-pause 2000 \
-tr $TR_TIME \
-dicom_org \
-num_slices $NUMBER_OF_SLICES \
-nt $VOLUMES_PER_RUN \
-rt_cmd 'GRAPH_XRANGE '$VOLUMES_PER_RUN'' \
-rt_cmd 'NAME '$FMRI_SESSION'' \
-drive_wait 'OPEN_WINDOW axialimage geom=400x300+890+47' \
-drive_afni 'OPEN_WINDOW axialgraph pinnum='$VOLUMES_PER_RUN'' \
-drive_afni 'SET_SUBBRICKS 0 1 1' \
-drive_afni 'SET_DICOM_XYZ 152 20 37' \
-drive_afni 'SET_FUNC_RANGE 0' \
-drive_afni 'SET_THRESHNEW 0.4' \
-max_quiet_trs 3 \
-sleep_frac 0.4 \
-sleep_init 3000 \
-sort_method num_suffix \
-quit

but I'd like to modify the motion graph according with another expression and I'd like to include -rt_cmd 'GRAPH_EXPR sqrt(d*d+e*e+f*f)' to Dimon init. But if I include this option, Dimon crash and give Segmentatio Fault.

New Dimon expression:

Dimon -rt \
-infile_prefix $PATIENTDIR/i \
-host $RTFMRI_AFNI_HOST \
-pause 2000 \
-tr $TR_TIME \
-dicom_org \
-num_slices $NUMBER_OF_SLICES \
-nt $VOLUMES_PER_RUN \
-rt_cmd 'GRAPH_XRANGE '$VOLUMES_PER_RUN'' \
-rt_cmd 'GRAPH_EXPR sqrt(d*d+e*e+f*f)' \
-rt_cmd 'NAME '$FMRI_SESSION'' \
-drive_wait 'OPEN_WINDOW axialimage geom=400x300+890+47' \
-drive_afni 'OPEN_WINDOW axialgraph pinnum='$VOLUMES_PER_RUN'' \
-drive_afni 'SET_SUBBRICKS 0 1 1' \
-drive_afni 'SET_DICOM_XYZ 152 20 37' \
-drive_afni 'SET_FUNC_RANGE 0' \
-drive_afni 'SET_THRESHNEW 0.4' \
-max_quiet_trs 3 \
-sleep_frac 0.4 \
-sleep_init 3000 \
-sort_method num_suffix \
-quit

Segmentation fault error:
Fatal Signal 11 (SIGSEGV) received
mri_read_dicom
Dimon
Bottom of Debug Stack
** AFNI version = AFNI_2011_12_21_1014 Compile date = Oct 16 2015
** [[Precompiled binary linux_openmp_64: Oct 16 2015]]
** Program Death **
** If you report this crash to the AFNI message board,
** please copy the error messages EXACTLY, and give
** the command line you used to run the program, and
** any other information needed to repeat the problem.
** You may later be asked to upload data to help debug.
** Crash log is appended to file /home/maicondiogo/.afni.crashlog



######afni.crashlog

*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
------DCM_DumpElements [6]: EXIT} (file=mri_dicom_hdr.c line=2621) to mri_dicom_header
mri_dicom_header -- closing
-----mri_dicom_header [5]: EXIT} (file=mri_dicom_hdr.c line=338) to mri_read_dicom
+++++get_posns_from_elist [5]: {ENTRY (file=mri_read_dicom.c line=1654) from mri_read_dicom
-----get_posns_from_elist [5]: EXIT} (file=mri_read_dicom.c line=1685) to mri_read_dicom
+++++process_siemens_mosaic [5]: {ENTRY (file=mri_process_siemens.c line=42) from mri_read_dicom
-----process_siemens_mosaic [5]: EXIT} (file=mri_process_siemens.c line=64) to mri_read_dicom
+++++mri_new_7D_generic [5]: {ENTRY (file=mri_new.c line=48) from mri_read_dicom
-----mri_new_7D_generic [5]: EXIT} (file=mri_new.c line=140) to mri_read_dicom
+++++mri_add_name [5]: {ENTRY (file=mri_add_name.c line=19) from mri_read_dicom
-----mri_add_name [5]: EXIT} (file=mri_add_name.c line=30) to mri_read_dicom
----mri_read_dicom [4]: EXIT} (file=mri_read_dicom.c line=1315) to mri_read_dicom
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from mri_read_dicom
mri_free -- call killpurge
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free
mri_killpurge -- check if im==NULL ptr=0x2220930
mri_killpurge -- can't killpurge NULL fname!
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free
mri_free -- free name
mri_free -- free ptr
mri_free -- free im
----mri_free [4]: EXIT} (file=mri_free.c line=66) to mri_read_dicom
............................................................................
mri_read_dicom
Dimon
** AFNI compile date = Oct 16 2015
** [[Precompiled binary linux_openmp_64: Oct 16 2015]]
** Program Crash **

*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
------DCM_DumpElements [6]: EXIT} (file=mri_dicom_hdr.c line=2621) to mri_dicom_header
mri_dicom_header -- closing
-----mri_dicom_header [5]: EXIT} (file=mri_dicom_hdr.c line=338) to mri_read_dicom
+++++get_posns_from_elist [5]: {ENTRY (file=mri_read_dicom.c line=1654) from mri_read_dicom
-----get_posns_from_elist [5]: EXIT} (file=mri_read_dicom.c line=1685) to mri_read_dicom
+++++process_siemens_mosaic [5]: {ENTRY (file=mri_process_siemens.c line=42) from mri_read_dicom
-----process_siemens_mosaic [5]: EXIT} (file=mri_process_siemens.c line=64) to mri_read_dicom
+++++mri_new_7D_generic [5]: {ENTRY (file=mri_new.c line=48) from mri_read_dicom
-----mri_new_7D_generic [5]: EXIT} (file=mri_new.c line=140) to mri_read_dicom
+++++mri_add_name [5]: {ENTRY (file=mri_add_name.c line=19) from mri_read_dicom
-----mri_add_name [5]: EXIT} (file=mri_add_name.c line=30) to mri_read_dicom
----mri_read_dicom [4]: EXIT} (file=mri_read_dicom.c line=1315) to mri_read_dicom
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from mri_read_dicom
mri_free -- call killpurge
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free
mri_killpurge -- check if im==NULL ptr=0x171f2a0
mri_killpurge -- can't killpurge NULL fname!
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free
mri_free -- free name
mri_free -- free ptr
mri_free -- free im
----mri_free [4]: EXIT} (file=mri_free.c line=66) to mri_read_dicom
............................................................................
mri_read_dicom
Dimon
** AFNI compile date = Oct 16 2015
** [[Precompiled binary linux_openmp_64: Oct 16 2015]]
** Program Crash **

*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
+++++++RWC_printf [7]: {ENTRY (file=mri_dicom_hdr.c line=183) from DCM_DumpElements
-------RWC_printf [7]: EXIT} (file=mri_dicom_hdr.c line=218) to DCM_DumpElements
------DCM_DumpElements [6]: EXIT} (file=mri_dicom_hdr.c line=2621) to mri_dicom_header
mri_dicom_header -- closing
-----mri_dicom_header [5]: EXIT} (file=mri_dicom_hdr.c line=338) to mri_read_dicom
+++++get_posns_from_elist [5]: {ENTRY (file=mri_read_dicom.c line=1654) from mri_read_dicom
-----get_posns_from_elist [5]: EXIT} (file=mri_read_dicom.c line=1685) to mri_read_dicom
+++++process_siemens_mosaic [5]: {ENTRY (file=mri_process_siemens.c line=42) from mri_read_dicom
-----process_siemens_mosaic [5]: EXIT} (file=mri_process_siemens.c line=64) to mri_read_dicom
+++++mri_new_7D_generic [5]: {ENTRY (file=mri_new.c line=48) from mri_read_dicom
-----mri_new_7D_generic [5]: EXIT} (file=mri_new.c line=140) to mri_read_dicom
+++++mri_add_name [5]: {ENTRY (file=mri_add_name.c line=19) from mri_read_dicom
-----mri_add_name [5]: EXIT} (file=mri_add_name.c line=30) to mri_read_dicom
----mri_read_dicom [4]: EXIT} (file=mri_read_dicom.c line=1315) to mri_read_dicom
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from mri_read_dicom
mri_free -- call killpurge
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free
mri_killpurge -- check if im==NULL ptr=0x29532a0
mri_killpurge -- can't killpurge NULL fname!
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free
mri_free -- free name
mri_free -- free ptr
mri_free -- free im
----mri_free [4]: EXIT} (file=mri_free.c line=66) to mri_read_dicom
............................................................................
mri_read_dicom
Dimon
** AFNI compile date = Oct 16 2015
** [[Precompiled binary linux_openmp_64: Oct 16 2015]]
** Program Crash **
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Subject Author Posted

DIMON with GRAPH_EXPR option

maicondiogo October 20, 2015 05:43PM

Re: DIMON with GRAPH_EXPR option

rick reynolds October 21, 2015 12:23PM

Re: DIMON with GRAPH_EXPR option

maicondiogo October 21, 2015 01:06PM

Re: DIMON with GRAPH_EXPR option

Daniel Glen October 21, 2015 05:54PM